WorldWideScience

Sample records for curator kim dismukes

  1. The Ten Thousand Kims

    CERN Document Server

    Baek, Seung Ki; Kim, Beom Jun; 10.1088/1367-2630/13/7/073036

    2011-01-01

    In the Korean culture the family members are recorded in special family books. This makes it possible to follow the distribution of Korean family names far back in history. It is here shown that these name distributions are well described by a simple null model, the random group formation (RGF) model. This model makes it possible to predict how the name distributions change and these predictions are shown to be borne out. In particular, the RGF model predicts that, for married women entering a collection of family books in a certain year, the occurrence of the most common family name "Kim" should be directly proportional the total number of married women with the same proportionality constant for all the years. This prediction is also borne out to high degree. We speculate that it reflects some inherent social stability in the Korean culture. In addition, we obtain an estimate of the total population of the Korean culture down to year 500 AD, based on the RGF model and find about ten thousand Kims.

  2. The ten thousand Kims

    Science.gov (United States)

    Baek, Seung Ki; Minnhagen, Petter; Kim, Beom Jun

    2011-07-01

    In Korean culture, the names of family members are recorded in special family books. This makes it possible to follow the distribution of Korean family names far back in history. It is shown here that these name distributions are well described by a simple null model, the random group formation (RGF) model. This model makes it possible to predict how the name distributions change and these predictions are shown to be borne out. In particular, the RGF model predicts that for married women entering a collection of family books in a certain year, the occurrence of the most common family name 'Kim' should be directly proportional to the total number of married women with the same proportionality constant for all the years. This prediction is also borne out to a high degree. We speculate that it reflects some inherent social stability in the Korean culture. In addition, we obtain an estimate of the total population of the Korean culture down to the year 500 AD, based on the RGF model, and find about ten thousand Kims.

  3. Data Curation

    Science.gov (United States)

    Mallon, Melissa, Ed.

    2012-01-01

    In their Top Trends of 2012, the Association of College and Research Libraries (ACRL) named data curation as one of the issues to watch in academic libraries in the near future (ACRL, 2012, p. 312). Data curation can be summarized as "the active and ongoing management of data through its life cycle of interest and usefulness to scholarship,…

  4. Data Curation

    Science.gov (United States)

    Mallon, Melissa, Ed.

    2012-01-01

    In their Top Trends of 2012, the Association of College and Research Libraries (ACRL) named data curation as one of the issues to watch in academic libraries in the near future (ACRL, 2012, p. 312). Data curation can be summarized as "the active and ongoing management of data through its life cycle of interest and usefulness to scholarship,…

  5. Prof. Il-Hoi Kim: a tribute.

    Science.gov (United States)

    Huys, Rony

    2016-10-11

    Prof. Il-Hoi Kim was born during the Korean War on 28 February 1952 in Buan, North Jeolla Province (South Korea), near the coast of the Yellow Sea whose tidal flats would become one of his favourite sampling grounds during his scientific career. From an early age he developed an intense interest in natural history in general and marine biology in particular. He obtained his B.Sc. in 1974 at the Department of Biology Education, Gongju National College of Education. Between 1974 and 1976 he was conscripted into the South Korean military during which he progressed to the rank of lieutenant of artillery in the Reserve Officers' Training Corps (ROTC). After his graduation in 1980 at the Department of Zoology, Seoul National University, Il-Hoi Kim moved to the Department of Biology, Gangneung-Wonju National University on the East Sea coast where he was first appointed lecturer (1981) before taking up the position of assistant professor (1983), associate professor (1987) and full professor (1993). In 1985 he had previously completed his Ph.D. dissertation on Korean barnacles at Seoul National University under the supervision of the late Prof. Hoon Soo Kim, a pioneer in marine invertebrate taxonomy and renowned as the father of carcinology in Korea.

  6. Kim Dotcomi kättemaks / Andy Greenberg

    Index Scriptorium Estoniae

    Greenberg, Andy

    2013-01-01

    Skandaalne Internetimagnaat Kim Schmitz, rohkem tuntud kui Kim Dotcom, on veendunud, et tema loodud failivahetusprogrammi Megauploadi mahavõtmisega ja autoriõiguste rikkumise süüdistusega tehti talle liiga ning ta on asunud raevukalt vastulöögile USA valitsuse vastu

  7. Kim Dotcomi kättemaks / Andy Greenberg

    Index Scriptorium Estoniae

    Greenberg, Andy

    2013-01-01

    Skandaalne Internetimagnaat Kim Schmitz, rohkem tuntud kui Kim Dotcom, on veendunud, et tema loodud failivahetusprogrammi Megauploadi mahavõtmisega ja autoriõiguste rikkumise süüdistusega tehti talle liiga ning ta on asunud raevukalt vastulöögile USA valitsuse vastu

  8. Insoo Kim Berg and Solution-Focused Therapy.

    Science.gov (United States)

    West, John D.; Bubenzer, Donald L.; Smith, Jeffrey M.; Hamm, Terri L.

    1997-01-01

    Interview with Insoo Kim Berg, a leading theoretician in solution-based therapy. She is joined by Steve de Shazer, a colleague. They discuss the evolution of her work and its application to various populations. (MKA)

  9. Curation of Frozen Samples

    Science.gov (United States)

    Fletcher, L. A.; Allen, C. C.; Bastien, R.

    2008-01-01

    NASA's Johnson Space Center (JSC) and the Astromaterials Curator are charged by NPD 7100.10D with the curation of all of NASA s extraterrestrial samples, including those from future missions. This responsibility includes the development of new sample handling and preparation techniques; therefore, the Astromaterials Curator must begin developing procedures to preserve, prepare and ship samples at sub-freezing temperatures in order to enable future sample return missions. Such missions might include the return of future frozen samples from permanently-shadowed lunar craters, the nuclei of comets, the surface of Mars, etc. We are demonstrating the ability to curate samples under cold conditions by designing, installing and testing a cold curation glovebox. This glovebox will allow us to store, document, manipulate and subdivide frozen samples while quantifying and minimizing contamination throughout the curation process.

  10. Curating the Shelves

    Science.gov (United States)

    Schiano, Deborah

    2013-01-01

    Curation: to gather, organize, and present resources in a way that meets information needs and interests, makes sense for virtual as well as physical resources. A Northern New Jersey middle school library made the decision to curate its physical resources according to the needs of its users, and, in so doing, created a shelving system that is,…

  11. Coenite seiklused ja Kim Ki-duki huumor / Merit Kask

    Index Scriptorium Estoniae

    Kask, Merit

    2007-01-01

    60-nda Cannes'i filmifestivali filme : Ethan ja Joel Coen'i "Pole maad vanadele meestele" ("No Country for Old Men" ; Ameerika Ühendriigid), Kim Ki-duki "Hingetõmme" ("Soom"/"Breath" ; Lõuna-Korea) ja Raphael Nadjari "Tehilim" (Prantsusmaa - Iisrael - Ameerika Ühendriigid)

  12. Prikljutshenija Koenov i jumor Kim Ki-duka / Merit Kask

    Index Scriptorium Estoniae

    Kask, Merit

    2007-01-01

    60-nda Cannes'i filmifestivali filme : Ethan ja Joel Coen'i "Pole maad vanadele meestele" ("No Country for Old Men" ; Ameerika Ühendriigid), Kim Ki-duki "Hingetõmme" ("Soom"/"Breath" ; Lõuna-Korea) ja Raphael Nadjari "Tehilim" (Prantsusmaa - Iisrael - Ameerika Ühendriigid)

  13. Coenite seiklused ja Kim Ki-duki huumor / Merit Kask

    Index Scriptorium Estoniae

    Kask, Merit

    2007-01-01

    60-nda Cannes'i filmifestivali filme : Ethan ja Joel Coen'i "Pole maad vanadele meestele" ("No Country for Old Men" ; Ameerika Ühendriigid), Kim Ki-duki "Hingetõmme" ("Soom"/"Breath" ; Lõuna-Korea) ja Raphael Nadjari "Tehilim" (Prantsusmaa - Iisrael - Ameerika Ühendriigid)

  14. Prikljutshenija Koenov i jumor Kim Ki-duka / Merit Kask

    Index Scriptorium Estoniae

    Kask, Merit

    2007-01-01

    60-nda Cannes'i filmifestivali filme : Ethan ja Joel Coen'i "Pole maad vanadele meestele" ("No Country for Old Men" ; Ameerika Ühendriigid), Kim Ki-duki "Hingetõmme" ("Soom"/"Breath" ; Lõuna-Korea) ja Raphael Nadjari "Tehilim" (Prantsusmaa - Iisrael - Ameerika Ühendriigid)

  15. Curating the Poster

    DEFF Research Database (Denmark)

    Christensen, Line Hjorth

    2017-01-01

    structures can work as guidelines for curating posters and graphic design in a museum context. By applying an ecological view to design, specifically the semiotic notion “counter-ability”, it stresses the reciprocal relationship of humans and their built and product-designed environments. It further suggests...... the ecological approach to be viable for curatorial work, and demonstrates how this view inspired a recent poster event, the exhibition Spot on! British posters from the interwar years. The exhibition held at the Danish Poster Museum in 2015-2016 was initiated by the author and co-curated with graphic designer...... Michael Jensen. Keywords: poster, graphic design, environments, exhibition, curating...

  16. Semantic Annotation Framework For Intelligent Information Retrieval Using KIM Architecture

    Directory of Open Access Journals (Sweden)

    Sanjay Kumar Malik

    2010-11-01

    Full Text Available Due to the explosion of information/knowledge on the web and wide use of search engines for desiredinformation,the role of knowledge management(KM is becoming more significant in an organization.Knowledge Management in an Organization is used to create ,capture, store, share, retrieve and manageinformation efficiently. The semantic web, an intelligent and meaningful web, tend to provide a promisingplatform for knowledge management systems and vice versa, since they have the potential to give eachother the real substance for machine-understandable web resources which in turn will lead to anintelligent, meaningful and efficient information retrieval on web. Today,the challenge for web communityis to integrate the distributed heterogeneous resources on web with an objective of an intelligent webenvironment focusing on data semantics and user requirements. Semantic Annotation(SA is being widelyused which is about assigning to the entities in the text and links to their semantic descriptions. Varioustools like KIM, Amaya etc may be used for semantic Annotation.In this paper, we introduce semantic annotation as one of the key technology in an intelligent webenvironment , then revisit and review, discuss and explore about Knowledge Management and SemanticAnnotation. A Knowledge Management Framework and a Framework for Semantic Annotation andSemantic Search with Knowledge Base(GATE and Ontology have been presented. Then KIM Annotationplatform architecture including KIM Ontology(KIMO, KIM Knowledge Base and KIM front ends havebeen highlighted. Finally, intelligent pattern search and concerned GATE framework with a KIMAnnotation Example have been illiustrated towards an intelligent information retrieval

  17. The Future for Curators

    Directory of Open Access Journals (Sweden)

    Elise Coralie Edwards

    2007-11-01

    Full Text Available The role of the curator has changed and is likely to change in the future. Current issues of postmodernism have affected their authority and status, by calling on new voices and narratives. Criticisms continue to be levelled at curators for failing to change communication through display and to maintain subject-based expertise, while new technology constantly increases both the demand for and the supply of information. A survey of curatorial jobs in the 'Museums Journal 'confirms that the level of skills and knowledge required of curators has decreased. These changes will continue, as in the future curators will be affected by changes in technology, new computerised applications and competition for funding.

  18. Curating a Mild Apocalypse

    DEFF Research Database (Denmark)

    Brichet, Nathalia Sofie; Hastrup, Frida

    2017-01-01

    On the basis of our exhibition “Mild Apocalypse. Feral Landscapes in Denmark” (2016) we discuss how we curated insights generated in a collaborative cross-disciplinary research project about a former mining site in Denmark. We approach this industrially disturbed and radically altered landscape......-based curating must follow suit by creating novel objects, thereby making exhibitions into provisional analyses and blurring conventional lines between art galleries and museums of cultural history....

  19. Status of the KIMS-NaI experiment

    CERN Document Server

    Kim, Kyungwon

    2015-01-01

    KIMS-NaI is a direct detection experiment searching for Weakly Interacting Massive Particles (WIMP) via their scattering off of nuclei in a NaI(Tl) crystal. The KIMS-NaI collaboration has carried out tests of six crystals in the Yangyang underground laboratory in order to develope low-background NaI(Tl) crystals. Studies of internal backgrounds crystals have been performed with the goal of reducing backgrounds levels to 1 dru at 2 keV. Pulse shape discrimination (PSD) capabilities were also investigated for distinguishing between WIMP nuclear recoil signals and electron recoil backgrounds. The PSD analysis was applied to underground data with one low background NaI(Tl) detector and the evaluation of WIMP mass limit is ongoing.

  20. Verification of tropical cyclone using the KIAPS Integration Model (KIM)

    Science.gov (United States)

    Lim, S.; Seol, K. H.

    2015-12-01

    The Korea Institute of Atmospheric Prediction Systems (KIAPS) is a government funded non-profit research and development institute located in Seoul, South Korea. KIAPS is developing the Global Model, a backbone for the next-generation operational global numerical weather prediction (NWP) system with three-phase plans; Establishment and R&D Planning (2011-2013), Test Model Development (2014-2016), and Operational Model Development (2017-2019). As a second-phase, we have beta version of KIAPS Integration Model (KIM) that can produce reasonable global forecasting. Using the KIM model, we are evaluating the tropical cyclone forecast in the global model. To objectively provide a best estimate of the storm's central position, we use the Geophysical Fluid Dynamics Laboratory (GFDL) vortex tracker, widely used in tracker algorithms. It gives the track and intensity of the storm throughout the duration of the forecast based on its algorithm. As a verification tool, we use the Model Evaluation Tool - Tropical Cyclone (MET-TC), which produces statistical evaluation. We expect these results give the statue of ability for the tropical cyclone forecast with KIM model.

  1. Perspektif Kim Knott tentang Insider-Outsider dalam Studi Agama

    Directory of Open Access Journals (Sweden)

    Sujiat Zubaidi Saleh

    2016-03-01

    Full Text Available Contemporary discourse of religious studies indicates many fields of study in understanding religion. Religious spectrum not only relates with credo, faith, worldview, theology and etcetera but expanding in various aspect (cultural and historical side. The cultural and historical aspects in a certain point give some problems in academic field. Kim Knott based on those matters tries to give a new shot in analyzing religion based on the issued aspects. Looking at how complicated is it Kim Knott maps it into two religious approaches. First is the hardship situation to make such a clear gap between religious and not-religious territory and second is the complicated problem in relation with religion as tradition and religion as faith. This article elucidates a viewpoint of Kim Knott as a “new outline” on religious studies. Knott attempts to eliminate the subjective intentions by using two basic perspectives of methodology: insider and outsider. He has classified the concept of inter-connection between social and religious role into four elements: pure participant, researcher as participant, participant as researcher and pure researcher. However, this concept remains an important problem concerning to standard of objectivity. Knott’s approach tries to place researcher on the margin of appreciation as a border line between insider-outsider.

  2. Constructing Data Curation Profiles

    Directory of Open Access Journals (Sweden)

    Michael Witt

    2009-12-01

    Full Text Available This paper presents a brief literature review and then introduces the methods, design, and construction of the Data Curation Profile, an instrument that can be used to provide detailed information on particular data forms that might be curated by an academic library. These data forms are presented in the context of the related sub-disciplinary research area, and they provide the flow of the research process from which these data are generated. The profiles also represent the needs for data curation from the perspective of the data producers, using their own language. As such, they support the exploration of data curation across different research domains in real and practical terms. With the sponsorship of the Institute of Museum and Library Services, investigators from Purdue University and the University of Illinois interviewed 19 faculty subjects to identify needs for discovery, access, preservation, and reuse of their research data. For each subject, a profile was constructed that includes information about his or her general research, data forms and stages, value of data, data ingest, intellectual property, organization and description of data, tools, interoperability, impact and prestige, data management, and preservation. Each profile also presents a specific dataset supplied by the subject to serve as a concrete example. The Data Curation Profiles are being published to a public wiki for questions and discussion, and a blank template will be disseminated with guidelines for others to create and share their own profiles. This study was conducted primarily from the viewpoint of librarians interacting with faculty researchers; however, it is expected that these findings will complement a wide variety of data curation research and practice outside of librarianship and the university environment.

  3. Anmeldelse af Kim Wind Andersen: Overblik over selskabers underskudsfremførsel

    DEFF Research Database (Denmark)

    Werlauff, Erik

    2011-01-01

    Artiklen anmelder Kim Wind Andersen: Overblik over selskabers underskudsfremførsel (Thomson Reuters Professional, 2010)......Artiklen anmelder Kim Wind Andersen: Overblik over selskabers underskudsfremførsel (Thomson Reuters Professional, 2010)...

  4. Chang Sei Kim's Activities on Public Health in Colonial Korea

    Directory of Open Access Journals (Sweden)

    Park Yunjae

    2006-12-01

    Full Text Available After graduating from Severance Medical College in 1916, Chang Sei Kim went to Shanghai to work as a missionary in a adventist hospital. The establishment of the Korean Provisional Government led him to participate in the independence movement. Educating nurses to assist the forthcoming war for independence, he seemed to realize the fact that the health of Koreans would be a key factor for achieving independence. He left for the U.S. to conduct comprehensive research on medicine. Chang Sei Kim was the first Korean to receive a Ph. D. degree of Public Health, graduating from the Johns Hopkins School of Hygiene and Public Health in 1925. He then gained an opportunity to work for Korea as a professor at Severance Medical College. His objective was the 'Reconstruction of the Korean People In Terms of Physical Constitution.' He pointed out that Koreans' weak state of health was a major reason for Korea's colonization. To gain independence, he emphasized that the Korean people should receive education on public health in order to improve the primitive conditions of sanitation. There is little doubt that Chang Sei Kim's ideas developed Heungsadan's views on medicine in terms of its stress on cultivation of ability, especially considering the fact that he was a member of the organization. As a member of the colonized who could not participate in the developing official policy, Chang Sei Kim was not able to implement his ideas fully, because an individual or a private organization could not carry out policy on public health as large a scale as the government did. Never giving up his hopes for Korean independence, he rejected requests to assume official posts in the Government-General. That was why he was particularly interested in the Self-Governing Movement in 1920s Korea. If the movement had attained its goal, he might have worked for the enhancement of sanitary environment as a director of Sanitary Department. His application for funding to establish

  5. Tubular kidney injury molecule-1 (KIM-1) in human renal disease

    NARCIS (Netherlands)

    van Timmeren, M. M.; van den Heuvel, M. C.; Bailly, V.; Bakker, S. J. L.; van Goor, H.; Stegeman, C. A.

    2007-01-01

    KIM-1, a transmembrane tubular protein with unknown function, is undetectable in normal kidneys, but is markedly induced in experimental renal injury. The KIM-1 ectodomain is cleaved, detectable in urine, and reflects renal damage. KIM-1 expression in human renal biopsies and its correlation with ur

  6. Kim C. Sturgess. Shakespeare and the American Nation.

    Directory of Open Access Journals (Sweden)

    Jean‑Louis Claret

    2006-04-01

    Full Text Available The front page of Kim C Sturgess’s recent book entitled Shakespeare and the American Nation is particularly mind‑teasing insofar as it represents the famous Droeshout engraving of the bard (it illustrated the front‑page of the 1623 edition of Shakespeare’s works standing out against a background that superimposes the head of the Statue of Liberty on the spangled banner. The starting point of Sturgess’s 234‑page demonstration endorsed by Cambridge University Press is a paradox that the Britis...

  7. The DCC Curation Lifecycle Model

    Directory of Open Access Journals (Sweden)

    Sarah Higgins

    2008-08-01

    Full Text Available Lifecycle management of digital materials is necessary to ensure their continuity. The DCC Curation Lifecycle Model has been developed as a generic, curation-specific, tool which can be used, in conjunction with relevant standards, to plan curation and preservation activities to different levels of granularity. The DCC will use the model: as a training tool for data creators, data curators and data users; to organise and plan their resources; and to help organisations identify risks to their digital assets and plan management strategies for their successful curation.

  8. Screen Practice in Curating

    DEFF Research Database (Denmark)

    Toft, Tanya Søndergaard

    2014-01-01

    During the past one and a half decade, a curatorial orientation towards "screen practice" has expanded the moving image and digital art into the public domain, exploring alternative artistic uses of the screen. The emergence of urban LED screens in the late 1990s provided a new venue that allowed...... for digital art to expand into public space. It also offered a political point of departure, inviting for confrontation with the Spectacle and with the politics and ideology of the screen as a mass communication medium that instrumentalized spectator positions. In this article I propose that screen practice...... to the dispositif of screen practice in curating, resulting in a medium-based curatorial discourse. With reference to the nomadic exhibition project Nordic Outbreak that I co-curated with Nina Colosi in 2013 and 2014, I suggest that the topos of the defined visual display area, frequently still known as "the screen...

  9. Curating Gothic Nightmares

    Directory of Open Access Journals (Sweden)

    Heather Tilley

    2007-10-01

    Full Text Available This review takes the occasion of a workshop given by Martin Myrone, curator of Gothic Nightmares: Fuseli, Blake, and the Romantic Imagination (Tate Britain, 2006 as a starting point to reflect on the practice of curating, and its relation to questions of the verbal and the visual in contemporary art historical practice. The exhibition prompted an engagement with questions of the genre of Gothic, through a dramatic display of the differences between ‘the Gothic' in literature and ‘the Gothic' in the visual arts within eighteenth- and early nineteenth-century culture. I also address the various ways in which 'the Gothic' was interpreted and reinscribed by visitors, especially those who dressed up for the exhibition. Finally, I consider some of the show's ‘marginalia' (specifically the catalogue, exploring the ways in which these extra events and texts shaped, and continue to shape, the cultural effect of the exhibition.

  10. Digital Curation and Doctoral Research

    Directory of Open Access Journals (Sweden)

    Daisy Abbott

    2015-02-01

    Full Text Available This article considers digital curation in doctoral study and the role of the doctoral supervisor and institution in facilitating students’ acquisition of digital curation skills, including some of the potentially problematic expectations of the supervisory relationship with regards to digital curation. Research took the form of an analysis of the current digital curation training landscape, focussing on doctoral study and supervision. This was followed by a survey (n=116 investigating attitudes towards importance, expertise, and responsibilities regarding digital curation. This research confirms that digital curation is considered to be very important within doctoral study but that doctoral supervisors and particularly students consider themselves to be largely unskilled at curation tasks. It provides a detailed picture of curation activity within doctoral study and identifies the areas of most concern. A detailed analysis demonstrates that most of the responsibility for curation is thought to lie with students and that institutions are perceived to have very low responsibility and that individuals tend to over-assign responsibility to themselves. Finally, the research identifies which types of support system for curation are most used and makes suggestions for ways in which students, supervisors, institutions, and others can effectively and efficiently address problematic areas and improve digital curation within doctoral study.

  11. Sexualidad violenta en el cine de Kim Ki-duk

    Directory of Open Access Journals (Sweden)

    Daniel Muñoz Ruiz

    2011-07-01

    Full Text Available En sus más de 110 años de vida el cine ha representado la sexualidad humana en todas sus modalidades y desde los más variados puntos de vista. El cine de Kim Ki-duk ha sorprendido y escandalizado al público por su crudeza y, a veces, excesiva violencia. El director surcoreano ha explorado a lo largo de su filmografía el tema del sexo siempre desde puntos de vista dramáticos y hasta truculentos. En sus películas la mayoría de las relaciones sexuales carecen de amor y afecto. Nunca son placenteras. La violación, la prostitución, la violencia de género y las frustraciones sexuales son temas recurrentes en su cine.

  12. Global Policing and the Case of Kim Dotcom

    Directory of Open Access Journals (Sweden)

    Darren Palmer

    2013-11-01

    Full Text Available In early 2012, 76 heavily armed police conducted a raid on a house in Auckland, New Zealand. The targets were Kim Dotcom, a German national with a NZ residency visa, and several colleagues affiliated with Megaupload, an online subscription-based peer-to-peer (P2P file sharing facility. The alleged offences involved facilitating unlawful file sharing and United States federal criminal copyright violations. Following the raid, several court cases provide valuable insights into emerging ‘global policing’ practices (Bowling and Sheptycki 2012 based on communications between sovereign enforcement agencies.  This article uses these cases to explore the growth of ‘extraterritorial’ police powers that operate ‘across borders’ (Nadelmann 1993 as part of several broader transformations of global policing in the digital age.

  13. Prediction of Potential Distribution of Quadrastichus erythrinae Kim in China

    Institute of Scientific and Technical Information of China (English)

    Zhang; Junzhong; Liu; Jianhong; Yang; Liying; Dan; Wenli

    2014-01-01

    Based on Maxent niche model and combined with ArcGIS,the suitable area range for Quadrastichus erythrinae Kim in China was predicted in the paper.The results showed that high suitable area for Q. erythrinae in China included most northeast coastal areas of Hainan Island,partial southern coastal area of Guangdong Province,partial northwestern coastal area and partial southeast coastal area of Taiwan Island; moderate suitable area included partial area of Hainan,some contiguous areas of Guangxi and Guangdong,most areas of Guangdong,partial area of Fujian and Taiwan; low suitable area included partial area from northwestern coast to inland of Hainan Island,west coastal area of Taiwan Island,most area in Guangxi,partial areas in Guangdong,Fujian and Yunnan.

  14. Izvori o riječkim povijesnim novinama 1813. - 1918.

    Directory of Open Access Journals (Sweden)

    Lea Lazzarich

    2009-11-01

    Full Text Available Nedostatak cjelovitog pregleda riječkih povijesnih novina u razdoblju od početaka novinskog tiska u Rijeci 1813. do 1918. godine prouzročio je brojne probleme u istraživanju riječke povijesti, i to kako pojedinih događaja tako i općih okolnosti. Takvo je stanje rezultiralo potrebom komparativnog analiziranja raspoloživih izvora o riječkim povijesnim novinama i, slijedom toga, izrade sustavnog pregleda svih objavljenih naslova u navedenom razdoblju. Tijekom stvaranja takvog pregleda izvori (pod tim se pojmom ovdje podrazumijevaju radovi, ponajprije bibliografije, koji se bave riječkim povijesnim novinama su sustavno i komparativno analizirani te su provjereni podaci o svakom naslovu, ali i sami naslovi koji nisu transparentno navedeni u svim izvorima, s ciljem stvaranja popisa novina prema definiciji i obilježjima. Time je osigurana platforma za daljnji rad i riješen barem dio nedoumica u istraživanju riječkih povijesnih novina. Doprinos istraživanja su novi, dopunjeni i često izmijenjeni podaci o naslovu, impresumu ili periodičnosti pojedinih novina (uz napomenu da se periodičnost nerijetko mijenjala tijekom godina, koji su od ključne važnosti kako u knjižničarskom tako i u povijesnoistraživačkom smislu. Ne prejudicira se da je istraživanje konačno i zatvoreno, već se naglašava nužnost daljnjeg propitivanja podataka o pojedinim povijesnim novinama, uzimajući pritom u obzir činjenicu da je posljednje sustavno istraživanje provođeno prije pedesetak godina.

  15. How much does curation cost?

    Science.gov (United States)

    Karp, Peter D

    2016-01-01

    NIH administrators have recently expressed concerns about the cost of curation for biological databases. However, they did not articulate the exact costs of curation. Here we calculate the cost of biocuration of articles for the EcoCyc database as $219 per article over a 5-year period. That cost is 6-15% of the cost of open-access publication fees for publishing biomedical articles, and we estimate that cost is 0.088% of the cost of the overall research project that generated the experimental results. Thus, curation costs are small in an absolute sense, and represent a miniscule fraction of the cost of the research.

  16. On some results of Bump-Choie and Choie-Kim

    CERN Document Server

    Hundley, Joseph

    2011-01-01

    This paper is motivated by a 2001 paper of Choie and Kim and a 2006 paper of Bump and Choie. The paper of Choie and Kim extends an earlier result of Bol for elliptic modular forms to the setting of Siegel and Jacobi forms. The paper of Bump and Choie provides a representation theoretic interpretation of the phenomenon, and shows how a natural generalization of Choie and Kim's result on Siegel modular forms follows from a natural conjecture regarding (g,K)-modules. In this paper, it is shown that the conjecture of Bump and Choie follows from work of Boe. A second proof which is along the lines of the proof given by Bump and Choie in the genus 2 case is also included, as is a similar treatment of the result of Choie and Kim on Jacobi forms.

  17. Curating the innate immunity interactome

    Science.gov (United States)

    2010-01-01

    Background The innate immune response is the first line of defence against invading pathogens and is regulated by complex signalling and transcriptional networks. Systems biology approaches promise to shed new light on the regulation of innate immunity through the analysis and modelling of these networks. A key initial step in this process is the contextual cataloguing of the components of this system and the molecular interactions that comprise these networks. InnateDB (http://www.innatedb.com) is a molecular interaction and pathway database developed to facilitate systems-level analyses of innate immunity. Results Here, we describe the InnateDB curation project, which is manually annotating the human and mouse innate immunity interactome in rich contextual detail, and present our novel curation software system, which has been developed to ensure interactions are curated in a highly accurate and data-standards compliant manner. To date, over 13,000 interactions (protein, DNA and RNA) have been curated from the biomedical literature. Here, we present data, illustrating how InnateDB curation of the innate immunity interactome has greatly enhanced network and pathway annotation available for systems-level analysis and discuss the challenges that face such curation efforts. Significantly, we provide several lines of evidence that analysis of the innate immunity interactome has the potential to identify novel signalling, transcriptional and post-transcriptional regulators of innate immunity. Additionally, these analyses also provide insight into the cross-talk between innate immunity pathways and other biological processes, such as adaptive immunity, cancer and diabetes, and intriguingly, suggests links to other pathways, which as yet, have not been implicated in the innate immune response. Conclusions In summary, curation of the InnateDB interactome provides a wealth of information to enable systems-level analysis of innate immunity. PMID:20727158

  18. Workflow Tools for Digital Curation

    Directory of Open Access Journals (Sweden)

    Andrew James Weidner

    2013-04-01

    Full Text Available Maintaining usable and sustainable digital collections requires a complex set of actions that address the many challenges at various stages of the digital object lifecycle. Digital curation activities enhance access and retrieval, maintain quality, add value, and facilitate use and re-use over time. Digital resource lifecycle management is becoming an increasingly important topic as digital curators actively explore software tools that perform metadata curation and file management tasks. Accordingly, the University of North Texas (UNT Libraries develop tools and workflows that streamline production and quality assurance activities. This article demonstrates two open source software tools, AutoHotkey and Selenium IDE, which the UNT Digital Libraries Division has adopted for use during the pre-ingest and post-ingest stages of the digital resource lifecycle.

  19. Data curation + process curation=data integration + science.

    Science.gov (United States)

    Goble, Carole; Stevens, Robert; Hull, Duncan; Wolstencroft, Katy; Lopez, Rodrigo

    2008-11-01

    In bioinformatics, we are familiar with the idea of curated data as a prerequisite for data integration. We neglect, often to our cost, the curation and cataloguing of the processes that we use to integrate and analyse our data. Programmatic access to services, for data and processes, means that compositions of services can be made that represent the in silico experiments or processes that bioinformaticians perform. Data integration through workflows depends on being able to know what services exist and where to find those services. The large number of services and the operations they perform, their arbitrary naming and lack of documentation, however, mean that they can be difficult to use. The workflows themselves are composite processes that could be pooled and reused but only if they too can be found and understood. Thus appropriate curation, including semantic mark-up, would enable processes to be found, maintained and consequently used more easily. This broader view on semantic annotation is vital for full data integration that is necessary for the modern scientific analyses in biology. This article will brief the community on the current state of the art and the current challenges for process curation, both within and without the Life Sciences.

  20. Cognitive Curations of Collaborative Curricula

    Science.gov (United States)

    Ackerman, Amy S.

    2015-01-01

    Assuming the role of learning curators, 22 graduate students (in-service teachers) addressed authentic problems (challenges) within their respective classrooms by selecting digital tools as part of implementation of interdisciplinary lesson plans. Students focused on formative assessment tools as a means to gather evidence to make improvements in…

  1. Curating the CIA World Factbook

    Directory of Open Access Journals (Sweden)

    Peter Buneman

    2009-12-01

    Full Text Available The CIA World Factbook is a prime example of a curated database – a database that is constructed and maintained with a great deal of human effort in collecting, verifying, and annotating data. Preservation of old versions of the Factbook is important for verification of citations; it is also essential for anyone interested in the history of the data such as demographic change. Although the Factbook has been published, both physically and electronically, only for the past 30 years, we appear in danger of losing this history. This paper investigates the issues involved in capturing the history of an evolving database and its application to the CIA World Factbook. In particular it shows that there is substantial added value to be gained by preserving databases in such a way that questions about the change in data, (longitudinal queries can be readily answered. Within this paper, we describe techniques for recording change in a curated database and we describe novel techniques for querying the change. Using the example of this archived curated database, we discuss the extent to which the accepted practices and terminology of archiving, curation and digital preservation apply to this important class of digital artefacts.

  2. Teacher Training in Curative Education.

    Science.gov (United States)

    Juul, Kristen D.; Maier, Manfred

    1992-01-01

    This article considers the application of the philosophical and educational principles of Rudolf Steiner, called "anthroposophy," to the training of teachers and curative educators in the Waldorf schools. Special emphasis is on the Camphill movement which focuses on therapeutic schools and communities for children with special needs. (DB)

  3. Curation of OSIRIS-REx Asteroid Samples

    Science.gov (United States)

    Righter, K.; Nakamura-Messnger, K.; Lauretta, D. S.; Osiris-Rex Curation Working Group

    2013-09-01

    An overview of the mission curation plan will be given, including the main elements of contamination control, sample recovery, sample cleanroom construction, and curation support once the sample is returned to Earth.

  4. Kim model for flux-pinning-induced stress in a long cylindrical superconductor

    Science.gov (United States)

    Zeng, Jun; Wang, Xiaogui; Wu, Huaping; Xue, Feng; Zhu, Jun

    2016-07-01

    In this work, the flux-pinning-induced stress distribution in a circular cylinder of high-temperature superconductors is studied by adopting the Kim critical state model to describe the relationship between the magnetic flux density and induced current. Based on the plane strain approach, the analytic expressions of the radial and hoop stress in the cylinder are derived for the zero-field cooling and field cooling magnetization processes. It is shown that the stress distributions depend on the activation processes and the values of the dimensionless parameter p in the Kim model, and the overall maximums of the stresses appear at or near the center of the cylinder where cracking may be most likely initiated. In addition, the Kim model has wider applicability than the Bean model, and the influence of p on the stress depends on the activation process. Generally speaking, these results may be useful for understanding the magnetoelastic problem in practical application of bulk superconductors.

  5. [The medical treatment of Kim Phúc at the BG Unfallklinik Ludwigshafen].

    Science.gov (United States)

    Kiefer, J; Daigeler, A; Lehnhardt, M

    2012-08-01

    The Vietnam War was a military conflict in Vietnam during the Cold War that followed the First Indochina War. This war was fought between North Vietnam, supported by its communist allies, and the government of South Vietnam, supported by the USA and other anti-communist countries. Kim Phúc is the child depicted in the Pulitzer Prize winning photograph taken on June 8, 1972 by AP photographer Nick Út. The iconic photo shows her at about nine years of age running naked on a road amid the chaos after being severely burned by a napalm attack. After 14 months of hospital stay and 17 surgical procedures Kim Phúc was able to return home. Since then, she was used as a propaganda symbol by the communist government of Vietnam. To continue her studies, Kim was granted permission to move to Cuba where she met her future husband. However, the sequelae of her burn wounds affected her everyday life enormously. In 1984, with the support of the international aid organization "terre des hommes" and the German magazine "STERN", Kim Phúc got the opportunity to meet and get treated by Professor Zellner. Professor Peter Rudolph Zellner was the first chief of the Department of Hand, Plastic and Reconstructive Surgery, Burn Center, BG Trauma Center Ludwigshafen, and one of the founder members of the German Society of Plastic Surgeons. The reconstructive surgeries provide Kim Phúc an almost normal life. Later on, she was involved in international aid organizations; she was named a UNESCO Goodwill Ambassador and she was awarded several honorary Doctorates of Law. Kim Phúc became a Canadian citizen. Today, she lives with her husband and two children in Ontario, Canada. © Georg Thieme Verlag KG Stuttgart · New York.

  6. Dramaturgi Citra Pemimpin Korea Utara Kim Jong Un dalam Film The Interview Produksi Columbia Pictures

    OpenAIRE

    2016-01-01

    This study titled “Dramaturgy of the image of North Korean leader Kim Jong Un in the film The Interview”. The duration of The Interview film is 112 minutes told a story about the murder plan North Korean leader Kim Jong Un by intelligence services, the United States 'CIA' through two media workers that Dave Skylark and Aaron Rapoport, which is a host and producer of the program infotainment show in United States named Skylark Tonight. This study uses analysis of Erving Goffman Dramaturgy pers...

  7. Lessons learned from 15 years of KIMS and 5 years of ACROSTUDY

    DEFF Research Database (Denmark)

    Luger, Anton; Feldt-Rasmussen, Ulla; Abs, Roger;

    2011-01-01

    BACKGROUND: Pharmacoepidemiological surveys provide a valuable contribution to the continued monitoring of drug-related effects in patients with rare disorders. One of the earliest examples of this type of survey is KIGS (Pfizer International Growth Study Database), which has monitored the safety...... and effectiveness of growth hormone (GH) therapy in GH-deficient children since its inception in 1987. Following closely in the footsteps of KIGS is KIMS (Pfizer International Metabolic Database). As of 2009, KIMS has been collecting data on the long-term safety and clinical outcomes of GH replacement in GH...

  8. Urinary KIM-1 and AQP-1 in patients with clear renal cell carcinoma: Potential noninvasive biomarkers

    Directory of Open Access Journals (Sweden)

    Mijušković Mirjana

    2016-01-01

    Full Text Available Background/Aim. Kidney injury molecule-1 (KIM-1 and aquaporin-1 (AQP-1 are potential early urinary biomarkers of clear renal cell carcinoma (cRCC. The aim of this study was to ascertain relationship between the urine concentrations KIM-1 and AQP-1 with tumor size, grade, pT stage and type of operation (radical or partial nephrectomy in patients with cRCC. Methods. Urinary concentrations of urinary KIM-1 (uKIM-1 and urinary AQP-1 (uAQP-1 were determined by commercially available ELISA kits. The analysis included 40 patients undergoing partial or radical nephrectomy for cRCC and 40 age- and sex-matched healthy adult volunteers. Results. The median preoperative concentrations of KIM-1 in the cRCC group [0.724 ± 1.120 ng/mg urinary creatinine (Ucr] were significantly greater compared with controls (healthy volunteers (0.210 ± 0.082 ng/mgUcr (p = 0.0227. Postoperatively, uKIM-1 concentration decreased significantly to control values (0.177 ± 0.099 ng/mgUcr vs 0.210 ± 0.082 ng/mgUcr, respectively. The size, grade and stage of tumor were correlated positively with preoperative uKIM-1 concentrations. Contrary to these results, concentrations of uAQP-1 in the cRCC group were significantly lower (0.111 ± 0.092 ng/mgUcr compared with the control group (0.202 ± 0.078 ng/mgUcr (p = 0.0014. Postoperatively, the concentrations of uAQP-1 increased progressively up to control values, approximately. We find no significant correlation between preoperative uAQP-1 concentrations and tumor size, grade and stage. Conclusion. uKIM-1 was found to be a reliable diagnostic marker of cRCC, based on its significantly increased values before and decreased values after the nephrectomy. [Projekat Ministarstva nauke Republike Srbije, br. III41018

  9. Digital curation theory and practice

    CERN Document Server

    Hedges, Mark

    2016-01-01

    Digital curation is a multi-skilled profession with a key role to play not only in domains traditionally associated with the management of information, such as libraries and archives, but in a broad range of market sectors. Digital information is a defining feature of our age. As individuals we increasingly communicate and record our lives and memories in digital form, whether consciously or as a by-product of broader social, cultural and business activities. Throughout government and industry, there is a pressing need to manage complex information assets and to exploit their social, cultural and commercial value. This book addresses the key strategic, technical and practical issues around digital curation, curatorial practice, and locating the discussions within an appropriate theoretical context.

  10. PREVALENCE OF NEURAL TUBE DEFECTS IN KIMS KARAD, 2012-2013 EFFECTIVENESS AND IMPACT OF PRENATAL DIAGNOSIS

    Directory of Open Access Journals (Sweden)

    Sanjaykumar

    2014-11-01

    Full Text Available : OBJECTIVE: To determine Prevalence of NEURAL TUBE DEFECT in tertiary care center (KIMS Karad during July 2012-July 2013. MATERIAL AND METHODS: Patients referred to KIMS as NTD, Booked Patients diagnosed in KIMS as having neural tube defect based on ultrasound findings. RESULTS: Total prevalence of neural tube defect in KIMS from July 2012-July 2013 was 8.2/1000 births. Prevalence of different types of NTD-Anencephaly was 2.8 and spina bifida was 7.4. CONCLUSION: Aim of this study is to create awareness of NTD in order to prevent NTD by measures like periconceptional folic acid supplementation.

  11. Arhitektuurimuuseum vaatab Aasiasse / Kim Sung Hong ; intervjueerinud Karin Hallas-Murula

    Index Scriptorium Estoniae

    Kim Sung Hong

    2009-01-01

    Näituse kuraatori Kim Sung Hongiga 21. aprillini Eesti Arhitektuurimuuseumis avatud Lõuna-Korea kaasaegse arhitektuuri näitusest "Megacity network" ("Megalinna võrgustik"), Korea arhitektuurist, arhitektidest, muinsuskaitsest ja avalikust ruumist. Näituse kujundas Hwang Doo Jin

  12. Kim 3: an Ultra-faint Star Cluster in the Constellation of Centaurus

    CERN Document Server

    Kim, Dongwon; Mackey, Dougal; Da Costa, Gary S; Milone, Antonino P

    2015-01-01

    We report the discovery of an ultra-faint star cluster in the constellation of Centaurus. This new stellar system, Kim 3, features a half light radius of $r_{h}=2.29^{+1.28}_{-0.52}$ pc and a total luminosity of $M_{V}=+0.7\\pm0.3$. Approximately 26 stars are identified as candidate member stars down to four magnitudes below the main-sequence turn-off, which makes Kim 3 the least luminous star cluster known to date. The compact physical size and extreme low luminosity place it close to faint star clusters in the size-luminosity plane. The stellar population of Kim 3 appears to be relatively young ($9.5^{+3.0}_{-1.7}$ Gyr) and metal-poor ([Fe/H]$=-1.6^{+0.45}_{-0.30}$) at a heliocentric distance of $15.14^{+1.00}_{-0.28}$ kpc. The cluster lacks a well-defined center and a small but prominent group of stars consistent with the Kim 3 isochrone is present approximately 9.7 pc in projection south of the cluster center. Both are signs of the cluster being in the final stage of tidal disruption.

  13. Ever Searching for Better Living——Tan Sri Lee Kim Yew and his CHHB Group

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    @@ Visionary Entrepreneur There have been many spectacular feats and achievements by Malaysians in the last two decade,but none as uneXpected and hard-fought as the rise of Tan Sri Lee Kim Yew,Group Managing Director and Founder of CHHB.

  14. A Misleading Review of Response Bias: Comment on McGrath, Mitchell, Kim, and Hough (2010)

    Science.gov (United States)

    Rohling, Martin L.; Larrabee, Glenn J.; Greiffenstein, Manfred F.; Ben-Porath, Yossef S.; Lees-Haley, Paul; Green, Paul; Greve, Kevin W.

    2011-01-01

    In the May 2010 issue of "Psychological Bulletin," R. E. McGrath, M. Mitchell, B. H. Kim, and L. Hough published an article entitled "Evidence for Response Bias as a Source of Error Variance in Applied Assessment" (pp. 450-470). They argued that response bias indicators used in a variety of settings typically have insufficient data to support such…

  15. Lõuna-Korea teatel võib Kim peagi surra / Evelyn Kaldoja

    Index Scriptorium Estoniae

    Kaldoja, Evelyn, 1980-

    2009-01-01

    Viidates Lõuna-Korea ja Hiina luureandmetele, väidab Lõuna-Korea meedia, et Põhja-Korea liidril Kim Jong-ilil on kõhunäärmevähk ja talle pole antud elada rohkem kui 5 aastat. Põhja-Korea valitsejadünastia

  16. Dlaczego Korea?czycy z P??nocy akceptuj? w?adz? Kim?w?

    OpenAIRE

    Zdenkowska, Marcelina

    2016-01-01

    Celem artyku?u jest przedstawienie dw?ch popularnych teorii dotycz?cych problemu w?adzy w Korei P??nocnej. Analizie zostan? poddane tezy: konfucjanistyczna i nacjonalistyczna. Podj?te tu rozwa?ania maj? na celu odpowiedzie? na pytanie dlaczego Korea?czycy z P??nocy akceptuj? w?adz? Kim?w? Marcelina Zdenkowska

  17. KIM 3: An Ultra-faint Star Cluster in the Constellation of Centaurus

    Science.gov (United States)

    Kim, Dongwon; Jerjen, Helmut; Mackey, Dougal; Da Costa, Gary S.; Milone, Antonino P.

    2016-04-01

    We report the discovery of an ultra-faint star cluster in the constellation of Centaurus. This new stellar system, Kim 3, features a half-light radius of {r}h={2.29}-0.52+1.28 pc and a total luminosity of MV = +0.7 ± 0.3. Approximately 26 stars are identified as candidate member stars down to four magnitudes below the main-sequence turn-off, which makes Kim 3 the least luminous star cluster known to date. The compact physical size and extreme low luminosity place it close to faint star clusters in the size-luminosity plane. The stellar population of Kim 3 appears to be relatively young ({9.5}-1.7+3.0 Gyr) and metal-poor ([Fe/H]\\quad =\\quad -{1.6}-0.30+0.45) at a heliocentric distance of {15.14}-0.28+1.00 kpc. The cluster lacks a well-defined center, and a small but prominent group of stars consistent with the Kim 3 isochrone is present approximately 9.7 pc in projection south of the cluster center. Both are signs of the cluster being in the final stage of tidal disruption.

  18. Arhitektuurimuuseum vaatab Aasiasse / Kim Sung Hong ; intervjueerinud Karin Hallas-Murula

    Index Scriptorium Estoniae

    Kim Sung Hong

    2009-01-01

    Näituse kuraatori Kim Sung Hongiga 21. aprillini Eesti Arhitektuurimuuseumis avatud Lõuna-Korea kaasaegse arhitektuuri näitusest "Megacity network" ("Megalinna võrgustik"), Korea arhitektuurist, arhitektidest, muinsuskaitsest ja avalikust ruumist. Näituse kujundas Hwang Doo Jin

  19. Lõuna-Korea teatel võib Kim peagi surra / Evelyn Kaldoja

    Index Scriptorium Estoniae

    Kaldoja, Evelyn, 1980-

    2009-01-01

    Viidates Lõuna-Korea ja Hiina luureandmetele, väidab Lõuna-Korea meedia, et Põhja-Korea liidril Kim Jong-ilil on kõhunäärmevähk ja talle pole antud elada rohkem kui 5 aastat. Põhja-Korea valitsejadünastia

  20. Migrant Writing in Quebec : Female Mobility in Kim Thúy’s Ru

    NARCIS (Netherlands)

    den Toonder, Jeanette; Averis, Kate; Hollis-Touré, Isabel

    2016-01-01

    This chapter presents the experience of mobility as one of duality, an experience of both rupture and continuity as expressed in the poetic prose of Kim Thúy, resident in Quebec since her departure from her native Vietnam at ten years of age. Describing an experience of fragmented simultaneity that

  1. From isolated GH deficiency to multiple pituitary hormone deficiency: an evolving continuum - a KIMS analysis

    DEFF Research Database (Denmark)

    Klose, M.; Jonsson, B.; Abs, R.;

    2009-01-01

    with organic AO-GHD, who were GH naive prior to entry into the Pfizer International Metabolic Database (KIMS; 283 (7%) IGHD, 3827 MPHD). The effect of GH replacement after 2 years was assessed in those with available follow-up data (133 IGHD, 2207 MPHD), and development of new deficiencies in those...

  2. The first clinical treatment with kilovoltage intrafraction monitoring (KIM): A real-time image guidance method

    Energy Technology Data Exchange (ETDEWEB)

    Keall, Paul J., E-mail: paul.keall@sydney.edu.au; O’Brien, Ricky; Huang, Chen-Yu [Radiation Physics Laboratory, Sydney Medical School, University of Sydney, Camperdown, New South Wales 2006 (Australia); Aun Ng, Jin [Radiation Physics Laboratory, Sydney Medical School, University of Sydney, Camperdown, New South Wales 2006, Australia and School of Physics, University of Sydney, Camperdown, New South Wales 2006 (Australia); Colvill, Emma [Radiation Physics Laboratory, Sydney Medical School, University of Sydney, Camperdown, New South Wales 2006, Australia and Northern Sydney Cancer Centre, Royal North Shore Hospital, Sydney, New South Wales 2065 (Australia); Rugaard Poulsen, Per; Fledelius, Walther [Department of Oncology, Aarhus University Hospital, 8000 Aarhus C, Denmark and Institute of Clinical Medicine, Aarhus University, 8000 Aarhus C (Denmark); Juneja, Prabhjot; Booth, Jeremy T. [School of Physics, University of Sydney, Camperdown, New South Wales 2006, Australia and Northern Sydney Cancer Centre, Royal North Shore Hospital, Sydney, New South Wales 2065 (Australia); Simpson, Emma; Bell, Linda; Alfieri, Florencia; Eade, Thomas; Kneebone, Andrew [Northern Sydney Cancer Centre, Royal North Shore Hospital, Sydney, New South Wales 2065 (Australia)

    2015-01-15

    Purpose: Kilovoltage intrafraction monitoring (KIM) is a real-time image guidance method that uses widely available radiotherapy technology, i.e., a gantry-mounted x-ray imager. The authors report on the geometric and dosimetric results of the first patient treatment using KIM which occurred on September 16, 2014. Methods: KIM uses current and prior 2D x-ray images to estimate the 3D target position during cancer radiotherapy treatment delivery. KIM software was written to process kilovoltage (kV) images streamed from a standard C-arm linear accelerator with a gantry-mounted kV x-ray imaging system. A 120° pretreatment kV imaging arc was acquired to build the patient-specific 2D to 3D motion correlation. The kV imager was activated during the megavoltage (MV) treatment, a dual arc VMAT prostate treatment, to estimate the 3D prostate position in real-time. All necessary ethics, legal, and regulatory requirements were met for this clinical study. The quality assurance processes were completed and peer reviewed. Results: During treatment, a prostate position offset of nearly 3 mm in the posterior direction was observed with KIM. This position offset did not trigger a gating event. After the treatment, the prostate motion was independently measured using kV/MV triangulation, resulting in a mean difference of less than 0.6 mm and standard deviation of less than 0.6 mm in each direction. The accuracy of the marker segmentation was visually assessed during and after treatment and found to be performing well. During treatment, there were no interruptions due to performance of the KIM software. Conclusions: For the first time, KIM has been used for real-time image guidance during cancer radiotherapy. The measured accuracy and precision were both submillimeter for the first treatment fraction. This clinical translational research milestone paves the way for the broad implementation of real-time image guidance to facilitate the detection and correction of geometric and

  3. Urinary Kidney Injury Molecule-1 (KIM-1 in Early Diagnosis of Acute Kidney Injury in Pediatric Critically Ill

    Directory of Open Access Journals (Sweden)

    Irma Lestari Paramastuty

    2016-04-01

    Full Text Available Acute kidney injury (AKI often associated with a high hospital morbi-mortality rate in the intensive care unit patients. Kidney injury molecule-1 (KIM-1, has many characteristics of ideal biomarker for kidney injury. The aim of this study was to compared the temporal pattern of elevation urinary KIM-1 level following critically ill children with SCr as standart biomarker of AKI. Prospective analytic observational study was conducted during October to March 2014 in the Saiful Anwar General Hospital and Physiology Laboratory Brawijaya University. There were 13 critically ill as subjects. SCr and KIM-1 levels from all subjects were measured three times ( at admission, after 1st and 6th hour. Subjects were devided into AKI - non-AKI groups by SCr level and survivor - non survivor group at the and of the observations. Results showed that there were significantly increased levels of KIM-1 in the AKI and non-AKI and survivor-non survivor group at time point. However, we found that delta KIM-1 at time point increased significant in non AKI group and survivor group. KIM-1 at admission can diagnosed AKI in critically ill children. We conclude that urinary KIM-1 is a sensitive non-invasive biomarker to diagnosed acute kidney injury in critically ill children. Increase level of KIM-1 by time shows protective and good outcome in critically ill children.

  4. Curation of Osiris-REx Asteroid Samples

    Science.gov (United States)

    Righter, K.; Nakamura-Messenger, K.; Lauretta, D. S.

    2013-01-01

    The New Frontiers mission, OSIRIS-REx, will encounter carbonaceous asteroid 101955 Bennu (1999 RQ36; [1]) in 2018, collect a sample and return it to Earth and deliver it to NASA-JSC for curation in 2023. The mission curation plan is being developed and an overview will be given, including the main elements of contamination control, sample recovery, cleanroom construction, and curation support once the sample is returned to Earth.

  5. Experimental study for Yuen-Kim protocol of quantum key distribution with unconditional secure

    OpenAIRE

    Hirota, O.; Kato, K; Sohma, M.

    2002-01-01

    In this report, we simulate practical feature of Yuen-Kim protocol for quantum key distribution with unconditional secure. In order to demonstrate them experimentally by intensity modulation/direct detection(IMDD) optical fiber communication system, we use simplified encoding scheme to guarantee security for key information(1 or 0). That is, pairwise M-ary intensity modulation scheme is employed. Furthermore, we give an experimental implementation of YK protocol based on IMDD.

  6. Appraisal and Selection for Digital Curation

    Directory of Open Access Journals (Sweden)

    Jinfang Niu

    2014-10-01

    Full Text Available Based on existing appraisal/selection policies in libraries, archives, museum, social science and science data centers, this paper presents a generic appraisal/selection framework for digital curation. In presenting this framework, the author discusses how archival appraisal theories, methods, and criteria adapt to the general digital curation context.

  7. Immunisation in a curative setting

    DEFF Research Database (Denmark)

    Kofoed, Poul-Erik; Nielsen, B; Rahman, A K

    1990-01-01

    OBJECTIVE: To study the uptake of vaccination offered to women and children attending a curative health facility. DESIGN: Prospective survey over eight months of the uptake of vaccination offered to unimmunised women and children attending a diarrhoeal treatment centre as patients or attendants...... of women and children who were unimmunised or incompletely immunised was calculated and the percentage of this target population accepting vaccination was recorded. RESULTS: 7530 (84.2%) Of 8944 eligible children and 7730 (40.4%) of 19,138 eligible women were vaccinated. Of the children, 63.8% were boys......, 75.9% were aged under 1 year, and 23.0% were aged 1 to 2 years. The estimated number of missed opportunities for vaccination was 716 among the children (8.0% of the target population) and 11,408 among the women (59.6% of those eligible). CONCLUSION: It is possible to establish immunisation services...

  8. Astromaterials Curation Online Resources for Principal Investigators

    Science.gov (United States)

    Todd, Nancy S.; Zeigler, Ryan A.; Mueller, Lina

    2017-01-01

    The Astromaterials Acquisition and Curation office at NASA Johnson Space Center curates all of NASA's extraterrestrial samples, the most extensive set of astromaterials samples available to the research community worldwide. The office allocates 1500 individual samples to researchers and students each year and has served the planetary research community for 45+ years. The Astromaterials Curation office provides access to its sample data repository and digital resources to support the research needs of sample investigators and to aid in the selection and request of samples for scientific study. These resources can be found on the Astromaterials Acquisition and Curation website at https://curator.jsc.nasa.gov. To better serve our users, we have engaged in several activities to enhance the data available for astromaterials samples, to improve the accessibility and performance of the website, and to address user feedback. We havealso put plans in place for continuing improvements to our existing data products.

  9. Curation of Samples from Mars

    Science.gov (United States)

    Lindstrom, D.; Allen, C.

    One of the strong scientific reasons for returning samples from Mars is to search for evidence of current or past life in the samples. Because of the remote possibility that the samples may contain life forms that are hazardous to the terrestrial biosphere, the National Research Council has recommended that all samples returned from Mars be kept under strict biological containment until tests show that they can safely be released to other laboratories. It is possible that Mars samples may contain only scarce or subtle traces of life or prebiotic chemistry that could readily be overwhelmed by terrestrial contamination. Thus, the facilities used to contain, process, and analyze samples from Mars must have a combination of high-level biocontainment and organic / inorganic chemical cleanliness that is unprecedented. We have been conducting feasibility studies and developing designs for a facility that would be at least as capable as current maximum containment BSL-4 (BioSafety Level 4) laboratories, while simultaneously maintaining cleanliness levels exceeding those of the cleanest electronics manufacturing labs. Unique requirements for the processing of Mars samples have inspired a program to develop handling techniques that are much more precise and reliable than the approach (currently used for lunar samples) of employing gloved human hands in nitrogen-filled gloveboxes. Individual samples from Mars are expected to be much smaller than lunar samples, the total mass of samples returned by each mission being 0.5- 1 kg, compared with many tens of kg of lunar samples returned by each of the six Apollo missions. Smaller samp les require much more of the processing to be done under microscopic observation. In addition, the requirements for cleanliness and high-level containment would be difficult to satisfy while using traditional gloveboxes. JSC has constructed a laboratory to test concepts and technologies important to future sample curation. The Advanced Curation

  10. Phenotypic characterization of OmpX, an Ail homologue of Yersinia pestis KIM.

    Science.gov (United States)

    Kolodziejek, Anna M; Sinclair, Dylan J; Seo, Keun S; Schnider, Darren R; Deobald, Claudia F; Rohde, Harold N; Viall, Austin K; Minnich, Scott S; Hovde, Carolyn J; Minnich, Scott A; Bohach, Gregory A

    2007-09-01

    The goal of this study was to characterize the Yersinia pestis KIM OmpX protein. Yersinia spp. provide a model for studying several virulence processes including attachment to, and internalization by, host cells. For Yersinia enterocolitica and Yersinia pseudotuberculosis, Ail, YadA and Inv, have been implicated in these processes. In Y. pestis, YadA and Inv are inactivated. Genomic analysis of two Y. pestis strains revealed four loci with sequence homology to Ail. One of these genes, designated y1324 in the Y. pestis KIM database, encodes a protein designated OmpX. The mature protein has a predicted molecular mass of 17.47 kDa, shares approximately 70 % sequence identity with Y. enterocolitica Ail, and has an identical homologue, designated Ail, in the Y. pestis CO92 database. The present study compared the Y. pestis KIM6(+) parental strain with a mutant derivative having an engineered disruption of the OmpX structural gene. The parental strain (and a merodiploid control strain) expressed OmpX at 28 and 37 degrees C, and the protein was detectable throughout all phases of growth. OmpX was required for efficient adherence to, and internalization by, cultured HEp-2 cell monolayers and conferred resistance to the bactericidal effect of human serum. Deletion of ompX resulted in a significantly reduced autoaggregation phenotype and loss of pellicle formation in vitro. These results suggest that Y. pestis OmpX shares functional homology with Y. enterocolitica Ail in adherence, internalization into epithelial cells and serum resistance.

  11. Kim Jong IL and North Korea: The Leader and the System

    Science.gov (United States)

    2006-03-01

    bo rn d = di ed (f) = fe m al e Fi gu re 4 . T he K im F am ily . n o TE : C om pi le d by a ut ho r. 17 • Song Hye Rim: mother of Kim Jong...Madeleine Albright with Bill Woodward, Madam Secretary, New York: Miramax Books, 2003, p. 465. 20. Cited in Oh and Hassig, North Korea, p. 91. 21. Some...12. 28. Albright, with Woodward, Madam Secretary, pp. 462, 467. 29. For a more detailed analysis of North Korean intentions, see Andrew Scobell

  12. The Role of the Freelance Curator in an Art Exhibition

    Directory of Open Access Journals (Sweden)

    Ieva VITKAUSKAITĖ

    2015-12-01

    Full Text Available This article analyses the role of the freelance curator in an art exhibition. The first part of the article conceptualises the notion of the modern curator and surveys the categories of curators. The next part of the article surveys the potential models of curation. There are 7 models of curation distinguished: self- reflexive, “sampling”, traditional, decentralisation curation, virtual curation, art – curator, collaborative – curatorial platform. The third part analyses the activity of a freelance curator in the art exhibition, which is divided into five stages, namely preliminary work, preparation and completion of the organisation plan, realisation, operation, dismantling and evaluation. Each stage is described in great detail specifying what works should be carried out by the curator. The final part of the article analyses the remarks of the curators which are then used to derive the formula of successful curatorship.

  13. Ontkenning vaderschap door bijzondere curator namens minderjarige

    NARCIS (Netherlands)

    A.J.M. Nuytinck (André)

    2004-01-01

    textabstractOntkenning vaderschap door minderjarig kind, vertegenwoordigd door een daartoe benoemde bijzondere curator; niet vereist dat kind in staat is tot redelijke waardering belangen; belang van zeer jeugdig kind kan anders meebrengen

  14. Ontkenning vaderschap door bijzondere curator namens minderjarige

    NARCIS (Netherlands)

    A.J.M. Nuytinck (André)

    2004-01-01

    textabstractOntkenning vaderschap door minderjarig kind, vertegenwoordigd door een daartoe benoemde bijzondere curator; niet vereist dat kind in staat is tot redelijke waardering belangen; belang van zeer jeugdig kind kan anders meebrengen

  15. Kim e a literatura colonial de língua inglesa

    Directory of Open Access Journals (Sweden)

    Vanderlei J. Zacchi

    2016-01-01

    Full Text Available Kim é não apenas um dos livros mais importantes de Rudyard Kipling, mas ocupa também posição de destaque na literatura de língua inglesa. Foi lançado em 1901, quando a Índia, onde se passa o romance, era ainda uma possessão britânica e doze anos após Kipling, tendo nascido na Índia, haver migrado para a Inglaterra. As relações entre os personagens orientais e britânicos no romance sugerem uma visão estereotipada das diferenças raciais e culturais. A aná- lise dessas relações será feita, em primeiro lugar, a partir de uma contextualização da literatura colonial de língua inglesa. Kim se insere numa segunda etapa dessa literatura, na qual predominava um ponto de vista predominantemente britânico e que buscava afirmar a legitimidade do império. E, em segundo lugar, a partir do conceito de orientalismo, conforme desenvolvido por Edward Said (1995. Esse conceito demonstra como os ocidentais fazem uso de sínteses e estereótipos para descrever o Oriente e conceber visões autorizadas sobre ele. Palavras-chave: Rudyard Kipling; literatura colonial; orientalismo

  16. A Grand Challenge: Immortal Information and Through-Life Knowledge Management (KIM

    Directory of Open Access Journals (Sweden)

    Alexander Ball

    2006-11-01

    Full Text Available ‘Immortal information and through-life knowledge management: strategies and tools for the emerging product-service business paradigm’, is a Grand Challenge project involving eleven different UK universities and incorporating substantial industry collaboration. It is investigating a range of issues associated with the move towards a product-service paradigm in the engineering sector, in particular the long-term curation of digital data, learning from production and use, and appropriate governance and management techniques.

  17. Lessons learned from 15 years of KIMS and 5 years of ACROSTUDY

    DEFF Research Database (Denmark)

    Luger, Anton; Feldt-Rasmussen, Ulla; Abs, Roger

    2011-01-01

    BACKGROUND: Pharmacoepidemiological surveys provide a valuable contribution to the continued monitoring of drug-related effects in patients with rare disorders. One of the earliest examples of this type of survey is KIGS (Pfizer International Growth Study Database), which has monitored the safety......, pharmacoepidemiological surveys such as KIMS and ACROSTUDY provide valuable information on the safety and effectiveness of treatment with GH replacement and pegvisomant in the real world.......-deficient adults for 15 years. Approximately 5 years ago, the ACROSTUDY database was established to monitor the long-term safety and effectiveness of pegvisomant in patients with acromegaly. CONCLUSIONS: By collecting data on the treatment of relatively rare conditions in routine clinical practice...

  18. Vapor-liquid phase equilibria of water modelled by a Kim-Gordon potential

    Energy Technology Data Exchange (ETDEWEB)

    Maerzke, K A; McGrath, M J; Kuo, I W; Tabacchi, G; Siepmann, J I; Mundy, C J

    2009-03-16

    Gibbs ensemble Monte Carlo simulations were carried out to investigate the properties of a frozen-electron-density (or Kim-Gordon, KG) model of water along the vapor-liquid coexistence curve. Because of its theoretical basis, such a KG model provides for seamless coupling to Kohn-Sham density functional theory for use in mixed quantum mechanics/molecular mechanics (QM/MM) implementations. The Gibbs ensemble simulations indicate rather limited transferability of such a simple KG model to other state points. Specifically, a KG model that was parameterized by Barker and Sprik to the properties of liquid water at 300 K, yields saturated vapor pressures and a critical temperature that are significantly under- and over-estimated, respectively.

  19. Lengua, escritura y arraigo en la obra de Kim Thúy

    Directory of Open Access Journals (Sweden)

    Lidia González Menéndez

    2014-04-01

    Full Text Available The writing of Kim Thúy, Quebec au thor originally from Vietnam, represents a place of attachment against exile. The protagonist in Ru(2009, her first work, rebuilds herself and builds her relationship with others in an autobiographical story where the tragic journey of the boat people articulates an almost intimate personal chronicle, which does not focus on exile but on rebirth and reconciliation. À toi(2011, which was written in tandem with Pascal Janovjak, author of Swiss nationality and French-Slovakian descent, is a hybrid work mixing epistolary novel and correspondence between writers across an ocean and six time zones. Even while staging the nomadism and exile of the co-authors, this work highlights the roots and represents writing as a celebration of words.

  20. KIM-1、CC16在急性肾/肺损伤临床诊断中的意义%The significance of KIM-1 、CC16 in acute kidney injury and acute lung injure

    Institute of Scientific and Technical Information of China (English)

    申晓丽; 周巧玲; 王祺

    2014-01-01

    目的 观察肾损伤分子-1(kidney injury molecule 1,KIM-1)与Clara细胞分泌蛋白(Clara cell secretionprotein,CCSP/CC16)在急性肾损伤(Acute Kidney Injury,AKI)合并急性肺损伤(Acute Lung Injury,ALI)患者体内的变化,探讨其在急性肾/肺损伤临床诊断中的意义.方法 入选本院确诊为AKI的患者纳入AKI组(25例),确诊为ALI的患者纳入ALI组(15例),确诊为AKI合并ALI的患者纳入AKI+ALI组(25例),与之年龄、性别、民族相匹配的非吸烟健康志愿者作为正常对照组(23例),采用酶联免疫吸附法(enzyme-linked immunosorbent assay,ELISA)检测尿液KIM-1、尿液CC16和血浆KIM-1、血浆CC16的水平,用比色法检测尿N-乙酰-β-D-氨基葡萄糖苷酶(N-acetyl-beta-D-glucosaminidase,NAG),整理四组所有研究资料利用统计学方法进行综合分析.结果 与正常非吸烟对照组相比,AKI组的尿NAG酶、尿KIM-1、血浆KIM-1和血浆CC16水平均显著升高,差异有统计学意义(P<0.05);ALI组的尿CC16和血浆CC16水平均显著升高,差异有统计学意义(P <0.05);AKI+ALI组的尿NAG酶、尿KIM-1、血浆KIM-1、尿CC16和血浆CC16水平均显著升高,差异有统计学意义(P<0.05).直线相关分析显示:AKI患者的尿KIM-1水平与尿NAG呈显著正相关关系(r=0.493,P<0.01),血浆KIM-1水平与尿NAG无直线相关关系(r =0.276,P>0.05).ALI患者的尿CC16、血浆CC16与氧合指数均呈显著负相关关系(r=0.460,P<0.01;r=0.468,P<0.01).AKI合并ALI患者的尿KIM-1、血浆KIM-1与尿CC16、血浆CC16均呈显著正相关关系(P<0.05).ROC曲线分析提示:在AKI诊断中,尿KIM-1曲线下面积为0.781(95% CI:0.688 ~0.875,P<0.01);血浆KIM-1曲线下面积为0.988(95% CI:0.000~1.000,P<0.01);尿NAG酶曲线下面积为0.798 (95%CI:0.708~0.888,P<0.01).在ALI诊断中,尿CC16曲线下面积为1.000(95% CI:1.000 ~1.000,P<0.01);血浆CC16曲线面积为0.849(95% CI:0.764~0.935,P<0.01).结论 AKI时尿NAG、尿KIM

  1. Meeting Curation Challenges in a Neuroimaging Group

    Directory of Open Access Journals (Sweden)

    Angus Whyte

    2008-08-01

    Full Text Available The SCARP project is a series of short studies with two aims; firstly to discover more about disciplinary approaches and attitudes to digital curation through ‘immersion’ in selected cases; secondly to apply known good practice, and where possible, identify new lessons from practice in the selected discipline areas. The study summarised here is of the Neuroimaging Group in the University of Edinburgh’s Division of Psychiatry, which plays a leading role in eScience collaborations to improve the infrastructure for neuroimaging data integration and reuse. The Group also aims to address growing data storage and curation needs, given the capabilities afforded by new infrastructure. The study briefly reviews the policy context and current challenges to data integration and sharing in the neuroimaging field. It then describes how curation and preservation risks and opportunities for change were identified throughout the curation lifecycle; and their context appreciated through field study in the research site. The results are consistent with studies of neuroimaging eInfrastructure that emphasise the role of local data sharing and reuse practices. These sustain mutual awareness of datasets and experimental protocols through sharing peer to peer, and among senior researchers and students, enabling continuity in research and flexibility in project work. This “human infrastructure” is taken into account in considering next steps for curation and preservation of the Group’s datasets and a phased approach to supporting data documentation.

  2. Logistički kontroling u savremenim logističkim sistemima / Logistic controlling in modern logistic systems

    Directory of Open Access Journals (Sweden)

    Aleksandar Cakić

    2003-01-01

    Full Text Available U raduje data definicija logističkog kontrolinga u logističkim sistemima Prikazane su njegove osnovne funkcije, kao i mesto i uloga u upravljanju savremenim logističkim sistemima. Pregledno je prikazano kako pojedini autori definišu pojam i funkcije logističkog kontrolinga u savremenim logističkim sistemima. / In this paper a definition of logistic controlling in logistic systems has been given. The basic functions of logistic controlling are shown as well as its place and role in managing modern logistic systems. It is clearly shown how some other authors define the notion and the functions of logistic controlling in modern logistic systems.

  3. DataShare: Empowering Researcher Data Curation

    Directory of Open Access Journals (Sweden)

    Stephen Abrams

    2014-07-01

    Full Text Available Researchers are increasingly being asked to ensure that all products of research activity – not just traditional publications – are preserved and made widely available for study and reuse as a precondition for publication or grant funding, or to conform to disciplinary best practices. In order to conform to these requirements, scholars need effective, easy-to-use tools and services for the long-term curation of their research data. The DataShare service, developed at the University of California, is being used by researchers to: (1 prepare for curation by reviewing best practice recommendations for the acquisition or creation of digital research data; (2 select datasets using intuitive file browsing and drag-and-drop interfaces; (3 describe their data for enhanced discoverability in terms of the DataCite metadata schema; (4 preserve their data by uploading to a public access collection in the UC3 Merritt curation repository; (5 cite their data in terms of persistent and globally-resolvable DOI identifiers; (6 expose their data through registration with well-known abstracting and indexing services and major internet search engines; (7 control the dissemination of their data through enforceable data use agreements; and (8 discover and retrieve datasets of interest through a faceted search and browse environment. Since the widespread adoption of effective data management practices is highly dependent on ease of use and integration into existing individual, institutional, and disciplinary workflows, the emphasis throughout the design and implementation of DataShare is to provide the highest level of curation service with the lowest possible technical barriers to entry by individual researchers. By enabling intuitive, self-service access to data curation functions, DataShare helps to contribute to more widespread adoption of good data curation practices that are critical to open scientific inquiry, discourse, and advancement.

  4. Astromaterials Acquisition and Curation Office (KT) Overview

    Science.gov (United States)

    Allen, Carlton

    2014-01-01

    The Astromaterials Acquisition and Curation Office has the unique responsibility to curate NASA's extraterrestrial samples - from past and forthcoming missions - into the indefinite future. Currently, curation includes documentation, preservation, physical security, preparation, and distribution of samples from the Moon, asteroids, comets, the solar wind, and the planet Mars. Each of these sample sets has a unique history and comes from a unique environment. The curation laboratories and procedures developed over 40 years have proven both necessary and sufficient to serve the evolving needs of a worldwide research community. A new generation of sample return missions to destinations across the solar system is being planned and proposed. The curators are developing the tools and techniques to meet the challenges of these new samples. Extraterrestrial samples pose unique curation requirements. These samples were formed and exist under conditions strikingly different from those on the Earth's surface. Terrestrial contamination would destroy much of the scientific significance of extraterrestrial materials. To preserve the research value of these precious samples, contamination must be minimized, understood, and documented. In addition, the samples must be preserved - as far as possible - from physical and chemical alteration. The elaborate curation facilities at JSC were designed and constructed, and have been operated for many years, to keep sample contamination and alteration to a minimum. Currently, JSC curates seven collections of extraterrestrial samples: (a)) Lunar rocks and soils collected by the Apollo astronauts, (b) Meteorites collected on dedicated expeditions to Antarctica, (c) Cosmic dust collected by high-altitude NASA aircraft,t (d) Solar wind atoms collected by the Genesis spacecraft, (e) Comet particles collected by the Stardust spacecraft, (f) Interstellar dust particles collected by the Stardust spacecraft, and (g) Asteroid soil particles collected

  5. Annotation of phenotypic diversity: decoupling data curation and ontology curation using Phenex.

    Science.gov (United States)

    Balhoff, James P; Dahdul, Wasila M; Dececchi, T Alexander; Lapp, Hilmar; Mabee, Paula M; Vision, Todd J

    2014-01-01

    Phenex (http://phenex.phenoscape.org/) is a desktop application for semantically annotating the phenotypic character matrix datasets common in evolutionary biology. Since its initial publication, we have added new features that address several major bottlenecks in the efficiency of the phenotype curation process: allowing curators during the data curation phase to provisionally request terms that are not yet available from a relevant ontology; supporting quality control against annotation guidelines to reduce later manual review and revision; and enabling the sharing of files for collaboration among curators. We decoupled data annotation from ontology development by creating an Ontology Request Broker (ORB) within Phenex. Curators can use the ORB to request a provisional term for use in data annotation; the provisional term can be automatically replaced with a permanent identifier once the term is added to an ontology. We added a set of annotation consistency checks to prevent common curation errors, reducing the need for later correction. We facilitated collaborative editing by improving the reliability of Phenex when used with online folder sharing services, via file change monitoring and continual autosave. With the addition of these new features, and in particular the Ontology Request Broker, Phenex users have been able to focus more effectively on data annotation. Phenoscape curators using Phenex have reported a smoother annotation workflow, with much reduced interruptions from ontology maintenance and file management issues.

  6. Curating and Nudging in Virtual CLIL Environments

    Science.gov (United States)

    Nielsen, Helle Lykke

    2014-01-01

    Foreign language teachers can benefit substantially from the notions of curation and nudging when scaffolding CLIL activities on the internet. This article shows how these principles can be integrated into CLILstore, a free multimedia-rich learning tool with seamless access to online dictionaries, and presents feedback from first and second year…

  7. Smart Mobility Stakeholders - Curating Urban Data & Models

    Energy Technology Data Exchange (ETDEWEB)

    Sperling, Joshua [National Renewable Energy Laboratory (NREL), Golden, CO (United States)

    2017-09-01

    This presentation provides an overview of the curation of urban data and models through engaging SMART mobility stakeholders. SMART Mobility Urban Science Efforts are helping to expose key data sets, models, and roles for the U.S. Department of Energy in engaging across stakeholders to ensure useful insights. This will help to support other Urban Science and broader SMART initiatives.

  8. Curating Media Learning: Towards a Porous Expertise

    Science.gov (United States)

    McDougall, Julian; Potter, John

    2015-01-01

    This article combines research results from a range of projects with two consistent themes. Firstly, we explore the potential for curation to offer a productive metaphor for the convergence of digital media learning across and between home/lifeworld and formal educational/system-world spaces--or between the public and private spheres. Secondly, we…

  9. Research Data Curation Pilots: Lessons Learned

    Directory of Open Access Journals (Sweden)

    David Minor

    2014-07-01

    Full Text Available In the spring of 2011, the UC San Diego Research Cyberinfrastructure (RCI Implementation Team invited researchers and research teams to participate in a research curation and data management pilot program. This invitation took the form of a campus-wide solicitation. More than two dozen applications were received and, after due deliberation, the RCI Oversight Committee selected five curation-intensive projects. These projects were chosen based on a number of criteria, including how they represented campus research, varieties of topics, researcher engagement, and the various services required. The pilot process began in September 2011, and will be completed in early 2014. Extensive lessons learned from the pilots are being compiled and are being used in the on-going design and implementation of the permanent Research Data Curation Program in the UC San Diego Library. In this paper, we present specific implementation details of these various services, as well as lessons learned. The program focused on many aspects of contemporary scholarship, including data creation and storage, description and metadata creation, citation and publication, and long term preservation and access. Based on the lessons learned in our processes, the Research Data Curation Program will provide a suite of services from which campus users can pick and choose, as necessary. The program will provide support for the data management requirements from national funding agencies.

  10. Question Utilization in Solution-Focused Brief Therapy: A Recursive Frame Analysis of Insoo Kim Berg's Solution Talk

    Science.gov (United States)

    Cotton, Jeffrey

    2010-01-01

    Recursive frame analysis (RFA) was used to conduct a single case investigation of Insoo Kim Berg's question utilization talk in a solution-focused brief therapy (SFBT) session. Due to the lack of process research that explores how SFBT questions facilitate change, the author investigated how Berg's solution language influenced a client to respond…

  11. Language and Family Dispersion: North Korean Linguist Kim Su-gyŏng and the Korean War

    Directory of Open Access Journals (Sweden)

    Ryuta Itagaki

    2017-03-01

    Full Text Available This article analyzes the unpublished memoir of Kim Su-gyŏng (1918–2000, a linguist who was active in North Korea from the mid-1940s until the late 1960s, and situates his account of his experience of the Korean War within the context of his linguistic essays and correspondence. In doing so, the article considers the role that the personal and the social play in language, utilizing Saussure’s theoretical framework, with which Kim himself was well versed. Kim wrote his memoirs in the 1990s to his family, from whom he had become separated during the Korean War and who now lived in Toronto. In this text, he writes in “personal” language that reveals his uncertainty and his feelings for his family, but then immediately negates these feelings through the use of “social” language, which resonates with his interpretation of the linguistic thesis that Josef Stalin developed during the Korean War on language and national identity. For Kim, the relationship between language and nation was not at all self-evident, but something that he idealized in response to the dispersal of his family. By offering a reflexive reading of a memoir written by a North Korean linguist, this article makes a breakthrough in the investigation of North Korean wartime academic history, which has not risen above the level of analyzing articles in the field of linguistics that were published at the time.

  12. Canto: an online tool for community literature curation

    Science.gov (United States)

    Rutherford, Kim M.; Harris, Midori A.; Lock, Antonia; Oliver, Stephen G.; Wood, Valerie

    2014-01-01

    Motivation: Detailed curation of published molecular data is essential for any model organism database. Community curation enables researchers to contribute data from their papers directly to databases, supplementing the activity of professional curators and improving coverage of a growing body of literature. We have developed Canto, a web-based tool that provides an intuitive curation interface for both curators and researchers, to support community curation in the fission yeast database, PomBase. Canto supports curation using OBO ontologies, and can be easily configured for use with any species. Availability: Canto code and documentation are available under an Open Source license from http://curation.pombase.org/. Canto is a component of the Generic Model Organism Database (GMOD) project (http://www.gmod.org/). Contact: helpdesk@pombase.org PMID:24574118

  13. How Workflow Documentation Facilitates Curation Planning

    Science.gov (United States)

    Wickett, K.; Thomer, A. K.; Baker, K. S.; DiLauro, T.; Asangba, A. E.

    2013-12-01

    The description of the specific processes and artifacts that led to the creation of a data product provide a detailed picture of data provenance in the form of a workflow. The Site-Based Data Curation project, hosted by the Center for Informatics Research in Science and Scholarship at the University of Illinois, has been investigating how workflows can be used in developing curation processes and policies that move curation "upstream" in the research process. The team has documented an individual workflow for geobiology data collected during a single field trip to Yellowstone National Park. This specific workflow suggests a generalized three-part process for field data collection that comprises three distinct elements: a Planning Stage, a Fieldwork Stage, and a Processing and Analysis Stage. Beyond supplying an account of data provenance, the workflow has allowed the team to identify 1) points of intervention for curation processes and 2) data products that are likely candidates for sharing or deposit. Although these objects may be viewed by individual researchers as 'intermediate' data products, discussions with geobiology researchers have suggested that with appropriate packaging and description they may serve as valuable observational data for other researchers. Curation interventions may include the introduction of regularized data formats during the planning process, data description procedures, the identification and use of established controlled vocabularies, and data quality and validation procedures. We propose a poster that shows the individual workflow and our generalization into a three-stage process. We plan to discuss with attendees how well the three-stage view applies to other types of field-based research, likely points of intervention, and what kinds of interventions are appropriate and feasible in the example workflow.

  14. SCREENING OF PRESCHOOL CHILDREN FOR BLOOD LEAD LEVELS AT KIMS HOSPITAL

    Directory of Open Access Journals (Sweden)

    Chandrakala

    2014-03-01

    Full Text Available OBJECTIVE: to screen preschool children for blood lead level with an objective to estimate ZPP levels among preschool children attending OPD and admitted to wards and to confirm blood lead levels in children whose ZPP is>_35ugm/dl. METHODS: hospital based descriptive study conducted at KIMS, BANGALORE from 1st July 2007 to 31st July 2008. 100 preschool children aged between 1 to 6 years who came to OPD and were admitted, were chosen randomly. Data was collected in a simple questionnaire which included demographic, clinical, investigations. Venous blood, 2 ml was drawn and estimated for ZPP. If ZPP >_ 35ugm/dl, then blood samples were estimated for blood lead levels. The data collected in this study was analyzed statistically using chi square test and standard normal variate (Z test for proportions. RESULTS: Out of 100 children, 37% of them had ZPP > 35 ugm/dl .Among these 20% had blood level more >10ugm/dl. Socio economic status affects lead exposure with poor socio economic status group being most prone for lead absorption. Among the 20% who had blood lead levels >10 ugm/dl, 15% of them belonged to urban area and 5% belonged to rural area. Location of the house of children in this study was observed that in industrial area were 85%, mechanic factory were 7%, battery factory were 3%, automobile and cottage industry were 2% . Among 100 children, 57 had hemoglobin % of > 10 gm and 43 were anemic having hemoglobin <10 gm%. CONCLUSION: As lead poisoning patients can be asymptomatic or symptomatic with only vague presentations, screening of blood lead levels should be made as a routine investigation. Awareness should be created regarding the sources of lead, its exposure and potential health effects

  15. An emerging role: the nurse content curator.

    Science.gov (United States)

    Brooks, Beth A

    2015-01-01

    A new phenomenon, the inverted or "flipped" classroom, assumes that students are no longer acquiring knowledge exclusively through textbooks or lectures. Instead, they are seeking out the vast amount of free information available to them online (the very essence of open source) to supplement learning gleaned in textbooks and lectures. With so much open-source content available to nursing faculty, it benefits the faculty to use readily available, technologically advanced content. The nurse content curator supports nursing faculty in its use of such content. Even more importantly, the highly paid, time-strapped faculty is not spending an inordinate amount of effort surfing for and evaluating content. The nurse content curator does that work, while the faculty uses its time more effectively to help students vet the truth, make meaning of the content, and learn to problem-solve. Brooks.

  16. Data Curation Education in Research Centers (DCERC)

    Science.gov (United States)

    Marlino, M. R.; Mayernik, M. S.; Kelly, K.; Allard, S.; Tenopir, C.; Palmer, C.; Varvel, V. E., Jr.

    2012-12-01

    Digital data both enable and constrain scientific research. Scientists are enabled by digital data to develop new research methods, utilize new data sources, and investigate new topics, but they also face new data collection, management, and preservation burdens. The current data workforce consists primarily of scientists who receive little formal training in data management and data managers who are typically educated through on-the-job training. The Data Curation Education in Research Centers (DCERC) program is investigating a new model for educating data professionals to contribute to scientific research. DCERC is a collaboration between the University of Illinois at Urbana-Champaign Graduate School of Library and Information Science, the University of Tennessee School of Information Sciences, and the National Center for Atmospheric Research. The program is organized around a foundations course in data curation and provides field experiences in research and data centers for both master's and doctoral students. This presentation will outline the aims and the structure of the DCERC program and discuss results and lessons learned from the first set of summer internships in 2012. Four masters students participated and worked with both data mentors and science mentors, gaining first hand experiences in the issues, methods, and challenges of scientific data curation. They engaged in a diverse set of topics, including climate model metadata, observational data management workflows, and data cleaning, documentation, and ingest processes within a data archive. The students learned current data management practices and challenges while developing expertise and conducting research. They also made important contributions to NCAR data and science teams by evaluating data management workflows and processes, preparing data sets to be archived, and developing recommendations for particular data management activities. The master's student interns will return in summer of 2013

  17. Curating the Urban Utopia of Fun

    Directory of Open Access Journals (Sweden)

    Maroš Krivý

    2014-08-01

    Full Text Available The article reviews the exhibition Dreamlands, staged in Centre Pompidou, Paris in summer 2010. The exhibition's main theme is described as urban 'utopia of fun'. In relation to this utopia, the article suggests a field of contradictory positions within which the presented exhibits can be distributed. Curating of the exhibition is discussed in the next step. The inability to bring forward and map these contradictory positions is analysed as a main shortcoming of the exhibition.

  18. Curation accuracy of model organism databases.

    Science.gov (United States)

    Keseler, Ingrid M; Skrzypek, Marek; Weerasinghe, Deepika; Chen, Albert Y; Fulcher, Carol; Li, Gene-Wei; Lemmer, Kimberly C; Mladinich, Katherine M; Chow, Edmond D; Sherlock, Gavin; Karp, Peter D

    2014-01-01

    Manual extraction of information from the biomedical literature-or biocuration-is the central methodology used to construct many biological databases. For example, the UniProt protein database, the EcoCyc Escherichia coli database and the Candida Genome Database (CGD) are all based on biocuration. Biological databases are used extensively by life science researchers, as online encyclopedias, as aids in the interpretation of new experimental data and as golden standards for the development of new bioinformatics algorithms. Although manual curation has been assumed to be highly accurate, we are aware of only one previous study of biocuration accuracy. We assessed the accuracy of EcoCyc and CGD by manually selecting curated assertions within randomly chosen EcoCyc and CGD gene pages and by then validating that the data found in the referenced publications supported those assertions. A database assertion is considered to be in error if that assertion could not be found in the publication cited for that assertion. We identified 10 errors in the 633 facts that we validated across the two databases, for an overall error rate of 1.58%, and individual error rates of 1.82% for CGD and 1.40% for EcoCyc. These data suggest that manual curation of the experimental literature by Ph.D-level scientists is highly accurate. Database URL: http://ecocyc.org/, http://www.candidagenome.org//

  19. Surgical technique for single-port laparoscopy in huge ovarian tumors: SW Kim's technique and comparison to laparotomy.

    Science.gov (United States)

    Kim, Jeong Sook; Lee, In Ok; Eoh, Kyung Jin; Chung, Young Shin; Lee, Inha; Lee, Jung-Yun; Nam, Eun Ji; Kim, Sunghoon; Kim, Young Tae; Kim, Sang Wun

    2017-03-01

    This study aimed to introduce a method to remove huge ovarian tumors (≥15 cm) intact with single-port laparoscopic surgery (SPLS) using SW Kim's technique and to compare the surgical outcomes with those of laparotomy. Medical records were retrospectively reviewed for patients who underwent either SPLS (n=21) with SW Kim's technique using a specially designed 30×30-cm(2)-sized 3XL LapBag or laparotomy (n=22) for a huge ovarian tumor from December 2008 to May 2016. Perioperative surgical outcomes were compared. In 19/21 (90.5%) patients, SPLS was successfully performed without any tumor spillage or conversion to multi-port laparoscopy or laparotomy. There was no significant difference in patient characteristics, including tumor diameter and total operation time, between both groups. The postoperative hospital stay was significantly shorter for the SPLS group than for the laparotomy group (median, 2 [1 to 5] vs. 4 [3 to 17] days; Phuge ovarian tumors.

  20. A KIM-compliant potfit for fitting sloppy interatomic potentials: Application to the EDIP model for silicon

    CERN Document Server

    Wen, Mingjian; Brommer, Peter; Elliott, Ryan S; Sethna, James P; Tadmor, Ellad B

    2016-01-01

    Fitted interatomic potentials are widely used in atomistic simulations thanks to their ability to compute the energy and forces on atoms quickly. However, the simulation results crucially depend on the quality of the potential being used. Force matching is a method aimed at constructing reliable and transferable interatomic potentials by matching the forces computed by the potential as closely as possible, with those obtained from first principles calculations. The potfit program is an implementation of the force-matching method that optimizes the potential parameters using a global minimization algorithm followed by a local minimization polish. We extended potfit in two ways. First, we adapted the code to be compliant with the KIM Application Programming Interface (API) standard (part of the Knowledgebase of Interatomic Models Project). This makes it possible to use potfit to fit many KIM potential models, not just those prebuilt into the potfit code. Second, we incorporated the geodesic Levenberg--Marquardt...

  1. A KIM-compliant potfit for fitting sloppy interatomic potentials: application to the EDIP model for silicon

    Science.gov (United States)

    Wen, Mingjian; Li, Junhao; Brommer, Peter; Elliott, Ryan S.; Sethna, James P.; Tadmor, Ellad B.

    2017-01-01

    Fitted interatomic potentials are widely used in atomistic simulations thanks to their ability to compute the energy and forces on atoms quickly. However, the simulation results crucially depend on the quality of the potential being used. Force matching is a method aimed at constructing reliable and transferable interatomic potentials by matching the forces computed by the potential as closely as possible, with those obtained from first principles calculations. The potfit program is an implementation of the force-matching method that optimizes the potential parameters using a global minimization algorithm followed by a local minimization polish. We extended potfit in two ways. First, we adapted the code to be compliant with the KIM Application Programming Interface (API) standard (part of the Knowledgebase of Interatomic Models project). This makes it possible to use potfit to fit many KIM potential models, not just those prebuilt into the potfit code. Second, we incorporated the geodesic Levenberg-Marquardt (LM) minimization algorithm into potfit as a new local minimization algorithm. The extended potfit was tested by generating a training set using the KIM environment-dependent interatomic potential (EDIP) model for silicon and using potfit to recover the potential parameters from different initial guesses. The results show that EDIP is a ‘sloppy model’ in the sense that its predictions are insensitive to some of its parameters, which makes fitting more difficult. We find that the geodesic LM algorithm is particularly efficient for this case. The extended potfit code is the first step in developing a KIM-based fitting framework for interatomic potentials for bulk and two-dimensional materials. The code is available for download via https://www.potfit.net.

  2. Evaluation of medium-range weather forecasts about Korea Institute of Atmospheric Prediction Systems (KIAPS) Integrated Model System (KIM)

    Science.gov (United States)

    Lee, J.; Seol, K. H.

    2015-12-01

    The Korea Institute of Atmospheric Prediction Systems (KIAPS) is a government funded non-profit research and development institute located in Seoul, South Korea. KIAPS was established in 2011 by the Korea Meteorological Administration, KIAPS' primary sponsor. KIAPS is developing the KIAPS Integrated Model System (KIM), a backbone for the next-generation operational global numerical weather prediction (NWP) system. The KIM will be a unified model that can be used for global modeling as well as local areas, particularly optimized to topographic and meteorological features of the Korean Peninsula. We have been completed developing major model components based on KIAPS own research and release the KIAPS beta version model on September 2014. We evaluated the results of KIM by using verification system developed KIAPS, it is composed of standard verification score based on WMO report. The system consists of four parts: verification against analysis, observations, vertical verification and quantitative precipitation forecasts. The results of verification against analysis, we found that increase of error for temperature under 700 hPa. In case of MSLP, poor performance except for tropical region is represented, and the increase of error for geopotential height is shown in tropical region. For verification against observations, positive bias is represented for upper level geopotential height, for low level wind speed in tropical region in summer, for all level wind speed in Northern Hemisphere in winter, and for specific humidity in Northern Hemisphere in summer. As previously stated about the result against analysis, cold bias for low level temperature is shown in Northern Hemisphere in summer. In case of verification for rain about KIM, the model value is underestimated in heavy rain category in summer, on the contrary, that is overestimated in heavy rain category in winter. Overall, there is overestimation in ocean for all models. Our findings indicate that continuing

  3. A new record of Cleantioides emarginata Kwon & Kim,1992 (Crustacea, Isopoda, Valvifera) from Changjiang River estuary, China

    Institute of Scientific and Technical Information of China (English)

    LIU Wenliang; Gary C.B.POORE

    2013-01-01

    At present,descriptions of Cleantioides emarginata Kwon & Kim,1992 have been limited to the type locality of Pusan,Korea.In this study,we discovered this species in the Changjiang (Yangtze) River estuary,China.This represents an extension of the known geographical range of C.emarginata.In addition,we present information of a colour pattern not previously described,along with details on the estuarine habitat of the species.

  4. North Korean Leadership Dynamics and Decision-making under Kim Jong-un: A First Year Assessment

    Science.gov (United States)

    2013-09-01

    nuclear deterrent” up for discussion unless it is in the context of Korean Peninsula-wide denuclearization —code for securing a peace treaty with the...achieve denuclearization on the Korean Peninsula. This latter point of describ- ing its nuclear capability as necessary to achieve denuclearization is an...ar- gument that Pyongyang never made under Kim Jong-il. Instead, North Korea claimed it would need a nuclear deterrent until denuclearization had

  5. Research Problems in Data Curation: Outcomes from the Data Curation Education in Research Centers Program

    Science.gov (United States)

    Palmer, C. L.; Mayernik, M. S.; Weber, N.; Baker, K. S.; Kelly, K.; Marlino, M. R.; Thompson, C. A.

    2013-12-01

    The need for data curation is being recognized in numerous institutional settings as national research funding agencies extend data archiving mandates to cover more types of research grants. Data curation, however, is not only a practical challenge. It presents many conceptual and theoretical challenges that must be investigated to design appropriate technical systems, social practices and institutions, policies, and services. This presentation reports on outcomes from an investigation of research problems in data curation conducted as part of the Data Curation Education in Research Centers (DCERC) program. DCERC is developing a new model for educating data professionals to contribute to scientific research. The program is organized around foundational courses and field experiences in research and data centers for both master's and doctoral students. The initiative is led by the Graduate School of Library and Information Science at the University of Illinois at Urbana-Champaign, in collaboration with the School of Information Sciences at the University of Tennessee, and library and data professionals at the National Center for Atmospheric Research (NCAR). At the doctoral level DCERC is educating future faculty and researchers in data curation and establishing a research agenda to advance the field. The doctoral seminar, Research Problems in Data Curation, was developed and taught in 2012 by the DCERC principal investigator and two doctoral fellows at the University of Illinois. It was designed to define the problem space of data curation, examine relevant concepts and theories related to both technical and social perspectives, and articulate research questions that are either unexplored or under theorized in the current literature. There was a particular emphasis on the Earth and environmental sciences, with guest speakers brought in from NCAR, National Snow and Ice Data Center (NSIDC), and Rensselaer Polytechnic Institute. Through the assignments, students

  6. Lactobacillus curvatus WiKim38 isolated from kimchi induces IL-10 production in dendritic cells and alleviates DSS-induced colitis in mice.

    Science.gov (United States)

    Jo, Sung-Gang; Noh, Eui-Jeong; Lee, Jun-Young; Kim, Green; Choi, Joo-Hee; Lee, Mo-Eun; Song, Jung-Hee; Chang, Ji-Yoon; Park, Jong-Hwan

    2016-07-01

    Probiotics such as lactobacilli and bifidobacteria have healthpromoting effects by immune modulation. In the present study, we examined the immunomodulatory properties of Lactobacillus curvatus WiKim38, which was newly isolated from baechu (Chinese cabbage) kimchi. The ability of L. curvatus WiKim38 to induce cytokine production in bone marrow-derived dendritic cells (BMDCs) was determined by enzyme-linked immunosorbent assay. To evaluate the molecular mechanisms underlying L. curvatus Wikim38-mediated IL-10 production, Western blot analyses and inhibitor assays were performed. Moreover, the in vivo anti-inflammatory effects of L. curvatus WiKim38 were examined in a dextran sodium sulfate (DSS)-induced colitis mouse model. L. curvatus WiKim38 induced significantly higher levels of IL-10 in BMDCs compared with that induced by LPS. NF-κB and ERK were activated by L. curvatus WiKim38, and an inhibitor assay revealed that these pathways were required for L. curvatus WiKim38-induced production of IL-10 in BMDCs. An in vivo experiment showed that oral administration of L. curvatus WiKim38 increased the survival rate of mice with DSS-induced colitis and improved clinical signs and histopathological severity in colon tissues. Taken together, these results indicate that L. curvatus Wikim38 may have health-promoting effects via immune modulation, and may thus be applicable for therapy of various inflammatory diseases.

  7. Drug screening in urine by cloned enzyme donor immunoassay (CEDIA) and kinetic interaction of microparticles in solution (KIMS): a comparative study.

    Science.gov (United States)

    Schwettmann, Lutz; Külpmann, Wolf-Rüdiger; Vidal, Christian

    2006-01-01

    Two commercially available drug-screening assays were evaluated: the Roche kinetic interaction of microparticles in solution (KIMS) assay and the Microgenics cloned enzyme donor immunoassay (CEDIA). Urine samples from known drug-abuse patients were analyzed for amphetamines, barbiturates, benzodiazepines, benzoylecgonine, cannabinoids, LSD, methadone and opiates. Samples with discordant findings for the two assays were analyzed by gas chromatography/mass spectrometry (GC/MS) or gas chromatography/electron capture detection (GC/ECD). Amphetamines showed 96.0% concordant results, with two false positive findings by CEDIA, three by KIMS and a further two false negatives by KIMS. Barbiturates showed 99.4% concordant results, with one false negative by KIMS. Benzodiazepines showed 97.4% concordant results, with two false negatives by KIMS (cutoff 100 microg/L, CEDIA cutoff 300 microg/L). Benzoylecgonine showed 17.8% concordant positive and 82.2% concordant negative results and no false finding by either assay. Cannabinoids showed 99.3% concordant results, with one sample negative by KIMS at a cutoff of 50 microg/L and positive by CEDIA (cutoff 25 microg/L). For LSD, 6.7% of findings were not in agreement. Methadone showed 97.5% concordant results, with two false positives by CEDIA, and one false positive and one false negative by KIMS. Opiates showed 96.9% concordant results, with no false KIMS results, but four false positives by CEDIA. The results indicate that the agreement of the CEDIA and KIMS results for the eight drugs is rather good (93.3-100%).

  8. New Perspectives on Economic Modeling for Digital Curation

    DEFF Research Database (Denmark)

    Grindley, Neil; Kejser, Ulla Bøgvad; L'Hours, Hervé

    2014-01-01

    Society is increasingly dependent on the availability of digital information assets however the resources that are available for managing the assets over time (curating) are limited. As such, it is increasingly vital that organizations are able to judge the effectiveness of their investments...... into curation activities. For those responsible for digital curation, it is an ongoing challenge to ensure that the assets remain valuable in a sustainable manner. Digital curation and preservation practices are still evolving and they are not well aligned across different organizations and different sectors...... with a demand for curation of digital assets and suppliers of curation services and solutions. Further, the framework reflects the context in which managers operate and how this context influences their decision-making. This should enable managers to think through different scenarios around the economics...

  9. Curating research data practical strategies for your digital repository

    CERN Document Server

    Johnston, Lisa R

    2017-01-01

    Volume One of Curating Research Data explores the variety of reasons, motivations, and drivers for why data curation services are needed in the context of academic and disciplinary data repository efforts. Twelve chapters, divided into three parts, take an in-depth look at the complex practice of data curation as it emerges around us. Part I sets the stage for data curation by describing current policies, data sharing cultures, and collaborative efforts currently underway that impact potential services. Part II brings several key issues, such as cost recovery and marketing strategy, into focus for practitioners when considering how to put data curation services in action. Finally, Part III describes the full lifecycle of data by examining the ethical and practical reuse issues that data curation practitioners must consider as we strive to prepare data for the future.

  10. Curating research data a handbook of current practice

    CERN Document Server

    Johnston, Lisa R

    2017-01-01

    Curating Research Data, Volume Two: A Handbook of Current Practice guides you across the data lifecycle through the practical strategies and techniques for curating research data in a digital repository setting. The data curation steps for receiving, appraising, selecting, ingesting, transforming, describing, contextualizing, disseminating, and preserving digital research data are each explored, and then supplemented with detailed case studies written by more than forty international practitioners from national, disciplinary, and institutional data repositories. The steps in this volume detail the sequential actions that you might take to curate a data set from receiving the data (Step 1) to eventual reuse (Step 8). Data curators, archivists, research data management specialists, subject librarians, institutional repository managers, and digital library staff will benefit from these current and practical approaches to data curation.

  11. Competencies for preservation and digital curation

    Directory of Open Access Journals (Sweden)

    Sonia Boeres

    2016-09-01

    Full Text Available Information Science, throughout its existence, has been a multi and interdisciplinary field, and has undergone constant change because of its object of study: information. Seen that this element is not static and is increasingly linked to information technology, we have witnessed a challenge arise: how to ensure the permanence of digital libraries? How to secure the terabytes generated with increasing speed, and in various formats, will be available and fully capable of use over time? This is a challenge that Information Science professionals are being challenged to solve in the process of so-called digital preservation and curation. Thus, this article aims to raise the skills that the information professional must have to carry out the process of preservation and digital curation. The article discusses the emergence of professions (from the perspective of Sociology, the need to work for the realization of the human being (Psychology and proficiencies of exercising the office of Information Science to ensure the preservation of digital information in information units.

  12. Muusikauudised : Lu : k ja Jäääär koos laval. Britney Spears tegutseb. Lenny Kravitz ja Mick Jagger. Kim Wilde

    Index Scriptorium Estoniae

    2001-01-01

    Tartus Sõbra majas toimunud kontserdist. Videost "Britney: The video". Heliplaatidest: "Britney", "The Best of Pink Floyd", "Lenny", Mick Jagger "Goddess In The Doorway", "The Very Best Of Kim Wilde"

  13. Muusikauudised : Lu : k ja Jäääär koos laval. Britney Spears tegutseb. Lenny Kravitz ja Mick Jagger. Kim Wilde

    Index Scriptorium Estoniae

    2001-01-01

    Tartus Sõbra majas toimunud kontserdist. Videost "Britney: The video". Heliplaatidest: "Britney", "The Best of Pink Floyd", "Lenny", Mick Jagger "Goddess In The Doorway", "The Very Best Of Kim Wilde"

  14. The Key Indicator Method for Manual Handling Operations (KIM-MHO - evaluation of a new method for the assessment of working conditions within a cross-sectional study

    Directory of Open Access Journals (Sweden)

    Gebhardt Hansjürgen

    2010-11-01

    Full Text Available Abstract Background Upper extremity musculoskeletal symptoms and disorders are common in the working population. The economic and social impact of such disorders is considerable. Long-time, dynamic repetitive exposure of the hand-arm system during manual handling operations (MHO alone or in combination with static and postural effort are recognised as causes of musculoskeletal symptoms and disorders. The assessment of these manual work tasks is crucial to estimate health risks of exposed employees. For these work tasks, a new method for the assessment of the working conditions was developed by the Federal Institute for Occupational Safety and Health (BAuA and released as a draft in the year 2007. The draft of the so-called Key Indicator Method for Manual Handling Operations (KIM-MHO was developed in analogy with the existing KIM for Lifting/Holding/Carrying (KIM-LHC and Pulling/Pushing (KIM-PP of loads. The KIM-MHO is designed to fill the gap existing in risk assessment of manual work processes, since the existing KIMs deal only with manual handling of loads. This research project focused on the following: - Examination of the validity of workplace assessment with the KIM-MHO comparing expert ratings with the results of the observations. - Examination of the objectivity of workplace assessment with the KIM-MHO applied by different examiners. - Examination of the criterion validity of the risk assessment provided by KIM-MHO with respect to the association between exposure and the occurrence and prevalence of health related outcomes. Methods/Design To determine the objectivity and validity of workplace assessment, the KIM-MHO is applied by occupational health and safety officers at different workplaces involving manual handling operations. To determine the criterion validity of risk assessment, a survey of employees at different workplaces takes place with standardised questionnaires and interviews about symptoms in the neck and upper extremities

  15. A STUDY ON BACTERIAL CONTAMINATION OF CELL PHONES OF HEALTH CARE WORKERS (HCW AT KIMS HOSPITAL, AMALAPURAM

    Directory of Open Access Journals (Sweden)

    Padmaja

    2014-04-01

    Full Text Available A random 100 samples of cell phones of HCWs workers and Doctors working in various wards, OPDs and laboratories, Blood Bank, Causality, ICU of KIMS Hospital were subjected to bacterial analysis by conventional methods to know about the Bacterial contamination of the cell phones from July 2011 to December 2011. The commonest organism isolated from the contaminated cell phone is MRSA - 20%, followed by MSSA - 5%, CONS - 10 %, Micrococcus - 15 %. The obvious observation is none of the doctors’ cell phones are contaminated. In the present study, the contamination rate is compared to the controlled group consisting patients, relatives attending in OPD’s and not working in health care setting.

  16. New Nordic Exceptionalism: Jeuno JE Kim and Ewa Einhorn's The United Nations of Norden and other realist utopias

    Directory of Open Access Journals (Sweden)

    Mathias Danbolt

    2016-11-01

    Full Text Available At the 2009 Nordic Culture Forum summit in Berlin that centered on the profiling and branding of the Nordic region in a globalized world, one presenter stood out from the crowd. The lobbyist Annika Sigurdardottir delivered a speech that called for the establishment of “The United Nations of Norden”: A Nordic union that would gather the nations and restore Norden's role as the “moral superpower of the world.” Sigurdardottir's presentation generated such a heated debate that the organizers had to intervene and reveal that the speech was a performance made by the artists Jeuno JE Kim and Ewa Einhorn. This article takes Kim and Einhorn's intervention as a starting point for a critical discussion of the history and politics of Nordic image-building. The article suggests that the reason Kim and Einhorn's speech passed as a serious proposal was due to its meticulous mimicking of two discursive formations that have been central to the debates on the branding of Nordicity over the last decades: on the one hand, the discourse of “Nordic exceptionalism,” that since the 1960s has been central to the promotion of a Nordic political, socio-economic, and internationalist “third way” model, and, on the other hand, the discourse on the “New Nordic,” that emerged out of the New Nordic Food-movement in the early 2000s, and which has given art and culture a privileged role in the international re-fashioning of the Nordic brand. Through an analysis of Kim and Einhorn's United Nations of Norden (UNN-performance, the article examines the historical development and ideological underpinnings of the image of Nordic unity at play in the discourses of Nordic exceptionalism and the New Nordic. By focusing on how the UNN-project puts pressure on the role of utopian imaginaries in the construction of Nordic self-images, the article describes the emergence of a discursive framework of New Nordic Exceptionalism.

  17. Report on visit from Prof. Kim Lutzen: Friday, 6 November 1998, Korolinska Institute (dept of nursing Stockholm, Sweden

    Directory of Open Access Journals (Sweden)

    Kim Lutzen

    1999-01-01

    Full Text Available Prof. Kim Lutzen contacted the Department of Advanced Nursing Sciences, Unisa, via the Department's Web Page. Prof. Lutzen is the Chair of the Department of Nursing, which offers undergraduate, master and doctoral programmes. This Department of Nursing is situated within the Karolinska Institute, which comprises 29 Departments of Health Sciences, including a number of Medical Departments, Dentistry, Occupational Therapy, Physiotherapy, and Nursing. Prof. Lutzen emphasised that there is no Swedish phrase similar to "nursing science", consequently this t e n seems to be somewhat unfamiliar to the Swedish nurses. *Please note: This is a reduced version of the abstract. Please refer to PDF for full text.

  18. Analiza parametra translucencije staklokeramike izrađene različitim tehnološkim postupcima

    OpenAIRE

    Ledić, Karla; Majnarić, Igor; MILARDOVIĆ ORTOLAN, Slađana; Špalj, Stjepan; Štefančić, Sanja; Mehulić, Ketij

    2015-01-01

    Svrha: Analizirati parametar translucencije (TP vrijednosti) staklokeramika izrađenih različitim tehnološkim postupcima te ispitati kako na TP vrijednosti utječu korozivna sredstva. Materijali i metode: Izrađena su po tri uzorka IPS e.max keramike (Ivoclar Vivadent, Schaan, Lihtenštajn) u trima bojama (A2, C2 i B3) s trima različitim tehnologijama izrade (slojevanje – e.max Ceram Dentin; toplo-tlačna tehnika – e.max Press; strojno – e.max CAD). Uzorci su bili u obliku pločica dimenzija 10 mm ...

  19. A Density Functional Approach to Polarizable Models: A Kim-Gordon-Response Density Interaction Potential for Molecular Simulations

    Energy Technology Data Exchange (ETDEWEB)

    Tabacchi, G; Hutter, J; Mundy, C

    2005-04-07

    A combined linear response--frozen electron density model has been implemented in a molecular dynamics scheme derived from an extended Lagrangian formalism. This approach is based on a partition of the electronic charge distribution into a frozen region described by Kim-Gordon theory, and a response contribution determined by the instaneous ionic configuration of the system. The method is free from empirical pair-potentials and the parameterization protocol involves only calculations on properly chosen subsystems. They apply this method to a series of alkali halides in different physical phases and are able to reproduce experimental structural and thermodynamic properties with an accuracy comparable to Kohn-Sham density functional calculations.

  20. Curating NASA's Past, Present, and Future Astromaterial Sample Collections

    Science.gov (United States)

    Zeigler, R. A.; Allton, J. H.; Evans, C. A.; Fries, M. D.; McCubbin, F. M.; Nakamura-Messenger, K.; Righter, K.; Zolensky, M.; Stansbery, E. K.

    2016-01-01

    The Astromaterials Acquisition and Curation Office at NASA Johnson Space Center (hereafter JSC curation) is responsible for curating all of NASA's extraterrestrial samples. JSC presently curates 9 different astromaterials collections in seven different clean-room suites: (1) Apollo Samples (ISO (International Standards Organization) class 6 + 7); (2) Antarctic Meteorites (ISO 6 + 7); (3) Cosmic Dust Particles (ISO 5); (4) Microparticle Impact Collection (ISO 7; formerly called Space-Exposed Hardware); (5) Genesis Solar Wind Atoms (ISO 4); (6) Stardust Comet Particles (ISO 5); (7) Stardust Interstellar Particles (ISO 5); (8) Hayabusa Asteroid Particles (ISO 5); (9) OSIRIS-REx Spacecraft Coupons and Witness Plates (ISO 7). Additional cleanrooms are currently being planned to house samples from two new collections, Hayabusa 2 (2021) and OSIRIS-REx (2023). In addition to the labs that house the samples, we maintain a wide variety of infra-structure facilities required to support the clean rooms: HEPA-filtered air-handling systems, ultrapure dry gaseous nitrogen systems, an ultrapure water system, and cleaning facilities to provide clean tools and equipment for the labs. We also have sample preparation facilities for making thin sections, microtome sections, and even focused ion-beam sections. We routinely monitor the cleanliness of our clean rooms and infrastructure systems, including measurements of inorganic or organic contamination, weekly airborne particle counts, compositional and isotopic monitoring of liquid N2 deliveries, and daily UPW system monitoring. In addition to the physical maintenance of the samples, we track within our databases the current and ever changing characteristics (weight, location, etc.) of more than 250,000 individually numbered samples across our various collections, as well as more than 100,000 images, and countless "analog" records that record the sample processing records of each individual sample. JSC Curation is co-located with JSC

  1. Can we replace curation with information extraction software?

    Science.gov (United States)

    Karp, Peter D

    2016-01-01

    Can we use programs for automated or semi-automated information extraction from scientific texts as practical alternatives to professional curation? I show that error rates of current information extraction programs are too high to replace professional curation today. Furthermore, current IEP programs extract single narrow slivers of information, such as individual protein interactions; they cannot extract the large breadth of information extracted by professional curators for databases such as EcoCyc. They also cannot arbitrate among conflicting statements in the literature as curators can. Therefore, funding agencies should not hobble the curation efforts of existing databases on the assumption that a problem that has stymied Artificial Intelligence researchers for more than 60 years will be solved tomorrow. Semi-automated extraction techniques appear to have significantly more potential based on a review of recent tools that enhance curator productivity. But a full cost-benefit analysis for these tools is lacking. Without such analysis it is possible to expend significant effort developing information-extraction tools that automate small parts of the overall curation workflow without achieving a significant decrease in curation costs.Database URL.

  2. THE EVOLUTION OF CURATIVE TOURISM AT BORSEC

    Directory of Open Access Journals (Sweden)

    Dombay Ştefan

    2013-03-01

    Full Text Available Taking into account the natural resources - mineral water springs, natural landscape - and the geographical position, the tourism in Borsec health resort should develop much faster than today. The main condition of the development of tourism is to remove the deficiencies in touristic infrastructure and a more effective use of natural resources.On the other hand the environmental protection has major importance. Since the 90s touristic flow decreases continuously, which can be explained by a lower quality of infrastructure and services. Although the curative qualities of mineral waters have been recognized they are not sufficiently used in spa therapy. The sustainable tourism is based only on the rational use of natural resources.

  3. Gastric carcinoma: curative resection and adjuvant chemotherapy.

    Science.gov (United States)

    Carrillo Hernández, J F; Ernesto de Obaldía Castillo, G; Ramírez Ortega, C; Frías Mendivil, M; Pardo, M

    1994-01-01

    A retrospective study of gastric adenocarcinoma treated with surgery as curative attempt was performed at the Oncology Service, in the Hospital Regional 20 de Noviembre, ISSSTE. Morbidity and mortality of the surgical procedures were evaluated, the significance of several risk factors and the survival impact of adjuvant chemotherapy with 5-fluorouracil (5-FU) and mitomycin C (MMC). In the period from 1975 to 1991 a total of 483 new cases were seen. In only 54 patients (11.2%) was it possible to undertake a curative resection. The patients were assigned to three groups of treatment: surgery alone (14 cases), surgery + 5-FU (19 cases), and surgery + 5-FU+MMC (21 cases). Three different types of surgical techniques are regularly performed in our service for gastric cancer treatment: Billroth II distal gastrectomy, total gastrectomy with Roux-En-Y reconstruction, and esophagogastrectomy with esophagogastrostomy. Surgical morbidity and mortality was low, with 9% of duodenal stump fistulas and 27% with partial stenosis of esophagojejunostomy; the operative mortality was zero. Chemotherapy toxicity was transient and low, no related deaths were recorded. The prognostic factors associated significantly with survival were lymph node status and tumor penetration. The histologic differentiation as well as the tumor location and type of surgery had no significance. The estimated 5-year survival of the patients treated with surgery alone was 62%, while that of the patients treated with surgery plus chemotherapy was 38%. These groups were not comparable, however, because of important differences in their prognostic factors. The groups treated with 5-FU alone or in combination with MMC had no survival difference between them.(ABSTRACT TRUNCATED AT 250 WORDS)

  4. Helen Kim as New Woman and Collaborator: A Comprehensive Assessment of Korean Collaboration under Japanese Colonial Rule

    Directory of Open Access Journals (Sweden)

    AhRan Ellie Bae

    2017-02-01

    Full Text Available Although almost seventy years has passed since Korea's liberation from Japanese rule, the issue of collaboration still haunts Korea today. Attempts to resolve this issue have tended to focus attention on the traitorous actions of "collaborators" without considering the gray areas that surround their actions such as the circumstances that influenced the accused to commit their alleged traitorous acts and the intentions that drove their decisions. Helen Kim, as a "new woman" and an educator, valued the necessity of providing education for women. Yet, her efforts to realize this goal, to the contrary, forced her into actions that would later be used to construct a reputation as a Japanese collaborator. Korea's nationalist historiography has a tendency to polarize this issue by categorizing a "collaborator" as either a traitor or a patriot. However, when we take a closer look at these collaborators' lives, we discover that most collaboration happened in gray areas where it is often difficult to clearly draw a line between treason and collaboration. Helen Kim's case suggests that the issue of collaboration cannot be fully explained by nationalist historiography's framework and we must give attention to these gray areas. Through her story I hope to complicate the issue of collaboration by raising questions that address the gray areas that surround the actions of "collaborators." In doing so, I hope to challenge the nationalist historiography's propensity to oversimplify this issue and present a more nuanced understanding of it.

  5. Recovery from a Financial Meltdown: The Political Economy of Crisis Management under the Kim Dae-Jung Administration

    Directory of Open Access Journals (Sweden)

    Shalendra D. Sharma

    2002-12-01

    Full Text Available In Korea, the IMF-supported program, approved in late 1997, focused on financial sector restructuring, corporate governance, capital account liberalization, labor market reforms and trade liberalization. As in Thailand, it soon became clear that the IMF program underestimated the severity and deIn Korea, the IMF-supported program, approved in late 1997, focused on financial sector restructuring, corporate governance, capital account liberalization, labor market reforms and trade liberalization. As in Thailand, it soon became clear that the IMF program underestimated the severity and depth of the crisis. It fell upon the newly-elected government of Kim Dae-Jung to deal with both the crisis and the IMF. This paper illustrates how the Kim Dae-Jung administration deftly dealt with the grave challenges it faced. Korea's remarkable economic recovery, is in large measure, due to the government's prudent handling of the numerous economic challenges it faced. This paper examines the Korean government's management of the crisis-documenting both its achievements and the challenges ahead.

  6. Towards Automated Design, Analysis and Optimization of Declarative Curation Workflows

    Directory of Open Access Journals (Sweden)

    Tianhong Song

    2014-10-01

    Full Text Available Data curation is increasingly important. Our previous work on a Kepler curation package has demonstrated advantages that come from automating data curation pipelines by using workflow systems. However, manually designed curation workflows can be error-prone and inefficient due to a lack of user understanding of the workflow system, misuse of actors, or human error. Correcting problematic workflows is often very time-consuming. A more proactive workflow system can help users avoid such pitfalls. For example, static analysis before execution can be used to detect the potential problems in a workflow and help the user to improve workflow design. In this paper, we propose a declarative workflow approach that supports semi-automated workflow design, analysis and optimization. We show how the workflow design engine helps users to construct data curation workflows, how the workflow analysis engine detects different design problems of workflows and how workflows can be optimized by exploiting parallelism.

  7. Data Curation in the World Data System: Proposed Framework

    Directory of Open Access Journals (Sweden)

    P Laughton

    2013-09-01

    Full Text Available The value of data in society is increasing rapidly. Organisations that work with data should have standard practices in place to ensure successful curation of data. The World Data System (WDS consists of a number of data centres responsible for curating research data sets for the scientific community. The WDS has no formal data curation framework or model in place to act as a guideline for member data centres. The objective of this research was to develop a framework for the curation of data in the WDS. A multiple-case case study was conducted. Interviews were used to gather qualitative data and analysis of the data, which led to the development of this framework. The proposed framework is largely based on the Open Archival Information System (OAIS functional model and caters for the curation of both analogue and digital data.

  8. Urinary KIM-1, NGAL and L-FABP for the diagnosis of AKI in patients with acute coronary syndrome or heart failure undergoing coronary angiography.

    Science.gov (United States)

    Torregrosa, Isidro; Montoliu, Carmina; Urios, Amparo; Andrés-Costa, María Jesús; Giménez-Garzó, Carla; Juan, Isabel; Puchades, María Jesús; Blasco, María Luisa; Carratalá, Arturo; Sanjuán, Rafael; Miguel, Alfonso

    2015-11-01

    Acute kidney injury (AKI) is a common complication after coronary angiography. Early biomarkers of this disease are needed since increase in serum creatinine levels is a late marker. To assess the usefulness of urinary kidney injury molecule-1 (uKIM-1), neutrophil gelatinase-associated lipocalin (uNGAL) and liver-type fatty acid-binding protein (uL-FABP) for early detection of AKI in these patients, comparing their performance with another group of cardiac surgery patients. Biomarkers were measured in 193 patients, 12 h after intervention. In the ROC analysis, AUC for KIM-1, NGAL and L-FABP was 0.713, 0.958 and 0.642, respectively, in the coronary angiography group, and 0.716, 0.916 and 0.743 in the cardiac surgery group. Urinary KIM-1 12 h after intervention is predictive of AKI in adult patients undergoing coronary angiography, but NGAL shows higher sensitivity and specificity. L-FABP provides inferior discrimination for AKI than KIM-1 or NGAL in contrast to its performance after cardiac surgery. This is the first study showing the predictive capacity of KIM-1 for AKI after coronary angiography. Further studies are still needed to answer relevant questions about the clinical utility of biomarkers for AKI in different clinical settings.

  9. New Nordic Exceptionalism: Jeuno JE Kim and Ewa Einhorn’s 'The United Nations of Norden' and Other Realist Utopias

    DEFF Research Database (Denmark)

    Danbolt, Mathias

    2016-01-01

    that have been central to the debates on the branding of Nordicity over the last decades: on the one hand, the discourse of “Nordic exceptionalism,” that since the 1960s has been central to the promotion of a Nordic political, socio-economic, and internationalist “third way” model, and, on the other hand......, the discourse on the “New Nordic,” that emerged out of the New Nordic Food-movement in the early 2000s, and which has given art and culture a privileged role in the international re-fashioning of the Nordic brand. Through an analysis of Kim and Einhorn’s United Nations of Norden (UNN)-performance, the article...

  10. Enriching Earthdata by Improving Content Curation

    Science.gov (United States)

    Bagwell, R.; Wong, M. M.; Murphy, K. J.

    2014-12-01

    Since the launch of Earthdata in the later part of 2011, there has been an emphasis on improving the user experience and providing more enriched content to the user, ultimately with the focus to bring the "pixels to the people" or to ensure that a user clicks the fewest amount of times to get to the data, tools, or information which they seek. Earthdata was founded to be a single source of information for Earth Observing System Data and Information System (EOSDIS) components and services as a conglomeration between over 15 different websites. With an increased focus on access to Earth science data, the recognition is now on transforming Earthdata from a static website to one that is a dynamic, data-driven site full of enriched content.In the near future, Earthdata will have a number of components that will drive the access to the data, such as Earthdata Search, the Common Metadata Repository (CMR), and a redesign of the Earthdata website. The focus on content curation will be to leverage the use of these components to provide an enriched content environment and a better overall user experience, with an emphasis on Earthdata being "powered by EOSDIS" components and services.

  11. Curated exhibitions and Australian art history

    Directory of Open Access Journals (Sweden)

    Catherine De Lorenzo

    2011-06-01

    Full Text Available Australian Art history in all it guises has tended to bypass the impact of contemporary curated exhibitions on shaping the discipline. Yet an examination of a cluster of key contemporary exhibitions from the early 1970s onwards reveals their significance for the history of art in Australia. They reflect institutional judgements behind the selection, research and display the work of artists as well as the reception of such work by the public, artists, art critics and art historians. This is especially so in the last decades of the 20th century and the first decade of the 21st, as the country underwent major cultural changes. This paper focuses on selected exhibitions of Australian art from 1968 to 2008 and indicates how exhibitions also constitute a major form of contemporary Australian art historiography. As this period coincides with a transformation in the way exhibitions were funded, it also begins to investigate the question of the long term impact of public funding of the arts.

  12. DAMPD: A manually curated antimicrobial peptide database

    KAUST Repository

    Seshadri Sundararajan, Vijayaraghava

    2011-11-21

    The demand for antimicrobial peptides (AMPs) is rising because of the increased occurrence of pathogens that are tolerant or resistant to conventional antibiotics. Since naturally occurring AMPs could serve as templates for the development of new anti-infectious agents to which pathogens are not resistant, a resource that contains relevant information on AMP is of great interest. To that extent, we developed the Dragon Antimicrobial Peptide Database (DAMPD, http://apps.sanbi.ac.za/dampd) that contains 1232 manually curated AMPs. DAMPD is an update and a replacement of the ANTIMIC database. In DAMPD an integrated interface allows in a simple fashion querying based on taxonomy, species, AMP family, citation, keywords and a combination of search terms and fields (Advanced Search). A number of tools such as Blast, ClustalW, HMMER, Hydrocalculator, SignalP, AMP predictor, as well as a number of other resources that provide additional information about the results are also provided and integrated into DAMPD to augment biological analysis of AMPs. The Author(s) 2011. Published by Oxford University Press.

  13. Lessons learned during Apollo lunar sample quarantine and sample curation

    Science.gov (United States)

    Allton, J. H.; Bagby, J. R.; Stabekis, P. D.

    During fast-paced Apollo, three responsibilities often competed: 1) landing a man on the Moon and returning him safely, 2) prevention of back contamination, and 3) sample curation. Coordination of U.S. agency back contamination requirements was done by the Interagency Committee on Back Contamination (ICBC). The most severe constraint to proper implementation of flight requirements was lack of time. Preservation, examination and distribution of samples was overseen by the Lunar Sample Analysis Planning Team (LSAPT) which did not feel the Lunar Receiving Laboratory (LRL) was suitable for sample curation and moved the samples to another facility at the conclusion of Apollo 17. The Apollo experience emphasizes the need for 1) early back contamination and sample curation planning, 2) adequate time to implement requirements and 3) high level management responsibility. Building mutual respect for quarantine and sample curation is highly desirable.

  14. Astromaterials Curation Digital Repository: Data Availability and New Features

    Science.gov (United States)

    Todd, N. S.; Zeigler, R. A.

    2017-06-01

    The Astromaterials Curation office maintains a public digital repository containing sample data and other digital resources. The purpose of this data repository, its features, available data products, and recent enhancements will be discussed.

  15. Advanced Curation For Current and Future Extraterrestrial Sample Collections Project

    Data.gov (United States)

    National Aeronautics and Space Administration — This is a planned three-year project to develop  extraterrestrial sample curation techniques and equipment to prepare for future human and robotic sample return...

  16. An Emergent Micro-Services Approach to Digital Curation Infrastructure

    Directory of Open Access Journals (Sweden)

    Stephen Abrams

    2010-07-01

    Full Text Available In order better to meet the needs of its diverse University of California (UC constituencies, the California Digital Library UC Curation Center is re-envisioning its approach to digital curation infrastructure by devolving function into a set of granular, independent, but interoperable micro-services. Since each of these services is small and self-contained, they are more easily developed, deployed, maintained, and enhanced; at the same time, complex curation function can emerge from the strategic combination of atomistic services. The emergent approach emphasizes the persistence of content rather than the systems in which that content is managemed, thus the paradigmatic archival culture is not unduly coupled to any particular technological context. This results in a curation environment that is comprehensive in scope, yet flexible with regard to local policies and practices and sustainable despite the inevitability of disruptive change in technology and user expectation.

  17. The Product and System Specificities of Measuring Curation Impact

    Directory of Open Access Journals (Sweden)

    Nicholas M. Weber

    2013-11-01

    Full Text Available Using three datasets archived at the National Center for Atmospheric Research (NCAR, we describe the creation of a ‘data usage index’ for curation-specific impact assessments. Our work is focused on quantitatively evaluating climate and weather data used in earth and space science research, but we also discuss the application of this approach to other research data contexts. We conclude with some proposed future directions for metric-based work in data curation.

  18. Text Mining to Support Gene Ontology Curation and Vice Versa.

    Science.gov (United States)

    Ruch, Patrick

    2017-01-01

    In this chapter, we explain how text mining can support the curation of molecular biology databases dealing with protein functions. We also show how curated data can play a disruptive role in the developments of text mining methods. We review a decade of efforts to improve the automatic assignment of Gene Ontology (GO) descriptors, the reference ontology for the characterization of genes and gene products. To illustrate the high potential of this approach, we compare the performances of an automatic text categorizer and show a large improvement of +225 % in both precision and recall on benchmarked data. We argue that automatic text categorization functions can ultimately be embedded into a Question-Answering (QA) system to answer questions related to protein functions. Because GO descriptors can be relatively long and specific, traditional QA systems cannot answer such questions. A new type of QA system, so-called Deep QA which uses machine learning methods trained with curated contents, is thus emerging. Finally, future advances of text mining instruments are directly dependent on the availability of high-quality annotated contents at every curation step. Databases workflows must start recording explicitly all the data they curate and ideally also some of the data they do not curate.

  19. DCC&U: An Extended Digital Curation Lifecycle Model

    Directory of Open Access Journals (Sweden)

    Panos Constantopoulos

    2009-06-01

    Full Text Available Normal 0 The proliferation of Web, database and social networking technologies has enabled us to produce, publish and exchange digital assets at an enormous rate. This vast amount of information that is either digitized or born-digital needs to be collected, organized and preserved in a way that ensures that our digital assets and the information they carry remain available for future use. Digital curation has emerged as a new inter-disciplinary practice that seeks to set guidelines for disciplined management of information. In this paper we review two recent models for digital curation introduced by the Digital Curation Centre (DCC and the Digital Curation Unit (DCU of the Athena Research Centre. We then propose a fusion of the two models that highlights the need to extend the digital curation lifecycle by adding (a provisions for the registration of usage experience, (b a stage for knowledge enhancement and (c controlled vocabularies used by convention to denote concepts, properties and relations. The objective of the proposed extensions is twofold: (i to provide a more complete lifecycle model for the digital curation domain; and (ii to provide a stimulus for a broader discussion on the research agenda.

  20. Natural Language Processing in aid of FlyBase curators

    Directory of Open Access Journals (Sweden)

    Karamanis Nikiforos

    2008-04-01

    Full Text Available Abstract Background Despite increasing interest in applying Natural Language Processing (NLP to biomedical text, whether this technology can facilitate tasks such as database curation remains unclear. Results PaperBrowser is the first NLP-powered interface that was developed under a user-centered approach to improve the way in which FlyBase curators navigate an article. In this paper, we first discuss how observing curators at work informed the design and evaluation of PaperBrowser. Then, we present how we appraise PaperBrowser's navigational functionalities in a user-based study using a text highlighting task and evaluation criteria of Human-Computer Interaction. Our results show that PaperBrowser reduces the amount of interactions between two highlighting events and therefore improves navigational efficiency by about 58% compared to the navigational mechanism that was previously available to the curators. Moreover, PaperBrowser is shown to provide curators with enhanced navigational utility by over 74% irrespective of the different ways in which they highlight text in the article. Conclusion We show that state-of-the-art performance in certain NLP tasks such as Named Entity Recognition and Anaphora Resolution can be combined with the navigational functionalities of PaperBrowser to support curation quite successfully.

  1. With her Fingers on the Political Pulse: The Transnational Curating of Maud Sulter

    NARCIS (Netherlands)

    Cherry, D.; Dimitrakaki, A.; Perry, L.

    2013-01-01

    This essay considers Maud Sulter (1960-2008) as a curator. Best known as an artist and writer, Sulter curated nearly 20 exhibitions, working in collaboration with the path-breaking artist and curator Lubaina Himid and independently. The essay explores the transnational perspectives of her curating,

  2. Crowd-sourcing and author submission as alternatives to professional curation.

    Science.gov (United States)

    Karp, Peter D

    2016-01-01

    Can we decrease the costs of database curation by crowd-sourcing curation work or by offloading curation to publication authors? This perspective considers the significant experience accumulated by the bioinformatics community with these two alternatives to professional curation in the last 20 years; that experience should be carefully considered when formulating new strategies for biological databases. The vast weight of empirical evidence to date suggests that crowd-sourced curation is not a successful model for biological databases. Multiple approaches to crowd-sourced curation have been attempted by multiple groups, and extremely low participation rates by 'the crowd' are the overwhelming outcome. The author-curation model shows more promise for boosting curator efficiency. However, its limitations include that the quality of author-submitted annotations is uncertain, the response rate is low (but significant), and to date author curation has involved relatively simple forms of annotation involving one or a few types of data. Furthermore, shifting curation to authors may simply redistribute costs rather than decreasing costs; author curation may in fact increase costs because of the overhead involved in having every curating author learn what professional curators know: curation conventions, curation software and curation procedures. © The Author(s) 2016. Published by Oxford University Press.

  3. With her Fingers on the Political Pulse: The Transnational Curating of Maud Sulter

    NARCIS (Netherlands)

    Cherry, D.; Dimitrakaki, A.; Perry, L.

    2013-01-01

    This essay considers Maud Sulter (1960-2008) as a curator. Best known as an artist and writer, Sulter curated nearly 20 exhibitions, working in collaboration with the path-breaking artist and curator Lubaina Himid and independently. The essay explores the transnational perspectives of her curating,

  4. Curating NASA's Future Extraterrestrial Sample Collections: How Do We Achieve Maximum Proficiency?

    Science.gov (United States)

    McCubbin, Francis; Evans, Cynthia; Zeigler, Ryan; Allton, Judith; Fries, Marc; Righter, Kevin; Zolensky, Michael

    2016-01-01

    The Astromaterials Acquisition and Curation Office (henceforth referred to herein as NASA Curation Office) at NASA Johnson Space Center (JSC) is responsible for curating all of NASA's extraterrestrial samples. Under the governing document, NASA Policy Directive (NPD) 7100.10E "Curation of Extraterrestrial Materials", JSC is charged with "The curation of all extraterrestrial material under NASA control, including future NASA missions." The Directive goes on to define Curation as including "... documentation, preservation, preparation, and distribution of samples for research, education, and public outreach." Here we describe some of the ongoing efforts to ensure that the future activities of the NASA Curation Office are working towards a state of maximum proficiency.

  5. Understanding internal backgrounds in NaI(Tl) crystals toward a 200 kg array for the KIMS-NaI experiment

    Energy Technology Data Exchange (ETDEWEB)

    Adhikari, P.; Adhikari, G.; Oh, S.Y. [Sejong University, Department of Physics, Seoul (Korea, Republic of); Choi, S.; Joo, H.W.; Kim, K.W.; Kim, S.K. [Seoul National University, Department of Physics and Astronomy, Seoul (Korea, Republic of); Ha, C.; Jeon, E.J.; Kang, W.G.; Kim, H.O.; Kim, N.Y.; Lee, H.S.; Lee, J.H.; Lee, M.H.; Leonard, D.S.; Li, J.; Olsen, S.L.; Park, H.K.; Park, K.S.; So, J.H.; Yoon, Y.S. [Institute for Basic Science, Center for Underground Physics, Daejeon (Korea, Republic of); Hahn, I.S. [Ewha Womans University, Department of Science Education, Seoul (Korea, Republic of); Kim, H.J. [Kyungpook National University, Department of Physics, Daegu (Korea, Republic of); Kim, Y.D. [Sejong University, Department of Physics, Seoul (Korea, Republic of); Institute for Basic Science, Center for Underground Physics, Daejeon (Korea, Republic of); Kim, Y.H. [Institute for Basic Science, Center for Underground Physics, Daejeon (Korea, Republic of); Korea Research Institute of Standards and Science, Daejeon (Korea, Republic of); Park, H.S. [Korea Research Institute of Standards and Science, Daejeon (Korea, Republic of)

    2016-04-15

    The Korea Invisible Mass Search (KIMS) collaboration has developed low-background NaI(Tl) crystals that are suitable for the direct detection of WIMP dark matter. Building on experience accumulated during the KIMS-CsI programs, the KIMS-NaI experiment will consist of a 200 kg NaI(Tl) crystal array surrounded by layers of shielding structures and will be operated at the Yangyang underground laboratory. The goal is to provide an unambiguous test of the DAMA/LIBRA annual modulation signature. Measurements of six prototype crystals show progress in the reduction of internal contamination from radioisotopes. Based on our understanding of these measurements, we expect to achieve a background level in the final detector configuration that is less than 1 count/day/keV/kg for recoil energies around 2 keV. The annual modulation sensitivity for the KIMS-NaI experiment shows that an unambiguous 7σ test of the DAMA/LIBRA signature would be possible with a 600 kg year exposure with this system. (orig.)

  6. Neutrophil Gelatinase-Associated Lipocalin (NGAL) and Kidney Injury Molecule 1 (KIM1) in patients with diabetic nephropathy: a cross-sectional study and the effects of lisinopril

    DEFF Research Database (Denmark)

    Nielsen, S E; Schjoedt, K J; Astrup, A S

    2010-01-01

    Our aim was to evaluate the markers of tubulointerstitial damage, neutrophil gelatinase-associated lipocalin (NGAL) and kidney injury molecule1 (KIM1) in Type 1 diabetic patients with different levels of albuminuria and in control subjects. In addition, the effect of renoprotective treatment...... on urinary NGAL was evaluated in diabetic nephropathy....

  7. Social Status Construction of the Kim Families ’ in Xiuning County%休宁金氏宗族社会地位构建

    Institute of Scientific and Technical Information of China (English)

    朱玉荣

    2014-01-01

    徽州是典型的宗族社会,等级门第观念较严格,社会地位高低是宗族能否立足的重要凭证,因此,提高宗族的社会地位是宗族赋予族众的使命。休宁金氏宗族传承千年,世代以忠孝显名。通过对《休宁金氏族谱》进行研究可知,金氏宗族构建社会地位的方式主要有进行宗族管理、获得社会认同和官府认同等三方面。%Huizhou was a typical clan society .obsession of hierarchy here was stricter .So ,it was important to improve the clan’s social status ,which was the families’ mission .The Kim families in Xiuning County had been inherited for more than one thousand years .They were famous for their loyalty and filial piety .To build social status ,the Kim families made unre-mitting efforts .According to The Kim Families’ documents ,we can know that the Kim families built their social status by clan managing ,obtaining social identity and official recognition .

  8. Reduction of proteinuria in adriamycin-induced nephropathy is associated with reduction of renal kidney injury molecule (Kim-1) over time

    NARCIS (Netherlands)

    Kramer, Andrea B.; van Timmeren, Mirjan M.; Schuurs, Theo A.; Vaidya, Vishal S.; Bonventre, Joseph V.; van Goor, Harry; Navis, Gerjan

    2009-01-01

    Kramer AB, van Timmeren MM, Schuurs TA, Vaidya VS, Bonventre JV, van Goor H, Navis G. Reduction of proteinuria in adriamycin-induced nephropathy is associated with reduction of renal kidney injury molecule (Kim-1) over time. Am J Physiol Renal Physiol 296: F1136-F1145, 2009. First published February

  9. Understanding internal backgrounds of NaI(Tl) crystals toward a 200~kg array for the KIMS-NaI experiment

    CERN Document Server

    Adhikari, P; Choi, S; Ha, C; Hahn, I S; Jeon, E J; Joo, H W; Kang, W G; Kim, H J; Kim, H O; Kim, K W; Kim, N Y; Kim, S K; Kim, Y D; Kim, Y H; Lee, H S; Lee, J H; Lee, M H; Leonard, D S; Li, J; Oh, S Y; Olsen, S L; Park, H K; Park, H S; Park, K S; So, J H; Yoon, Y S

    2015-01-01

    The Korea Invisible Mass Search (KIMS) collaboration has developed low-background NaI(Tl) crystals that are suitable for the direct detection of WIMP dark matter. With experience built on the KIMS-CsI programs, the KIMS-NaI experiment will consist of a 200~kg NaI(Tl) crystal array surrounded by layers of shielding structures and will be operated at the Yangyang underground laboratory. The goal is to provide an unambiguous test of the DAMA/LIBRA's annual modulation signature. Measurements of six prototype crystals show progress in the reduction of internal contaminations of radioisotopes. Based on our understanding of these measurements, we expect to achieve a background level in the final detector configuration that is less than 1~count/day/keV/kg for recoil energies around 2~keV. The annual modulation sensitivity for the KIMS-NaI experiment shows that an unambiguous 7$\\sigma$ test of the DAMA/LIBRA signature would be possible with a 600~kg$\\cdot$year exposure with this system.

  10. VALIDATION OF COOKING TIMES AND TEMPERATURES FOR THERMAL INACTIVATION OF YERSINIA PESTIS STRAINS KIM5 AND CDC-A1112 IN GROUND BEEF

    Science.gov (United States)

    The thermal stability of Yersinia pestis inoculated into retail ground beef (25 per cent fat) and heated in a temperature-controlled water bath or cooked on commercial grills was evaluated. Irradiated ground beef (3-g portions) was inoculated with ca. 6.7 log10 CFU/g of Y. pestis strain KIM5 and hea...

  11. VizieR Online Data Catalog: Spitzer/IRS survey of Class II objects in Orion A. I. (Kim+, 2016)

    Science.gov (United States)

    Kim, K. H.; Watson, D. M.; Manoj, P.; Forrest, W. J.; Furlan, E.; Najita, J.; Sargent, B.; Hernandez, J.; Calvet, N.; Adame, L.; Espaillat, C.; Megeath, S. T.; Muzerolle, J.; McClure, M. K.

    2016-10-01

    We present 319 Class II disks observed with Spitzer/IRS in the Orion A star-forming region. We described the Spitzer/IRS and IRTF/SpeX observations and data reduction process in Kim+ (2013, J/ApJ/769/149). The Orion A objects in this paper were selected based on the identification of young stars with disks by IRAC/Two Micron All Sky Survey (2MASS) color-color diagrams (Megeath+ 2012, J/AJ/144/192). We observed them using Spitzer/IRS during campaigns 36, 39, 40, and 44 between 2006 November and 2007 October. To this group we added 16 additional objects (5 in the ONC; 11 in L1641) that were reclassified as Class II from Class 0/I sources observed in the Orion A protostar survey by C. Poteet et al. (2016, in preparation); 14 of these 16 were observed during campaigns 39 and 40, but 2 sources were observed in campaign 56 (see table 1). Of our IRS targets observed in both SL and LL modules in Orion A with Spitzer/IRS, we observed 120 at near-IR (0.8-2.4um) wavelengths with the medium-resolution spectrograph SpeX, on the NASA IRTF on Mauna Kea during the 2010A, 2011A, and 2011B semesters (see table 3). (9 data files).

  12. Curating and Preserving the Big Canopy Database System: an Active Curation Approach using SEAD

    Science.gov (United States)

    Myers, J.; Cushing, J. B.; Lynn, P.; Weiner, N.; Ovchinnikova, A.; Nadkarni, N.; McIntosh, A.

    2015-12-01

    Modern research is increasingly dependent upon highly heterogeneous data and on the associated cyberinfrastructure developed to organize, analyze, and visualize that data. However, due to the complexity and custom nature of such combined data-software systems, it can be very challenging to curate and preserve them for the long term at reasonable cost and in a way that retains their scientific value. In this presentation, we describe how this challenge was met in preserving the Big Canopy Database (CanopyDB) system using an agile approach and leveraging the Sustainable Environment - Actionable Data (SEAD) DataNet project's hosted data services. The CanopyDB system was developed over more than a decade at Evergreen State College to address the needs of forest canopy researchers. It is an early yet sophisticated exemplar of the type of system that has become common in biological research and science in general, including multiple relational databases for different experiments, a custom database generation tool used to create them, an image repository, and desktop and web tools to access, analyze, and visualize this data. SEAD provides secure project spaces with a semantic content abstraction (typed content with arbitrary RDF metadata statements and relationships to other content), combined with a standards-based curation and publication pipeline resulting in packaged research objects with Digital Object Identifiers. Using SEAD, our cross-project team was able to incrementally ingest CanopyDB components (images, datasets, software source code, documentation, executables, and virtualized services) and to iteratively define and extend the metadata and relationships needed to document them. We believe that both the process, and the richness of the resultant standards-based (OAI-ORE) preservation object, hold lessons for the development of best-practice solutions for preserving scientific data in association with the tools and services needed to derive value from it.

  13. Distilling Design Patterns From Agile Curation Case Studies

    Science.gov (United States)

    Benedict, K. K.; Lenhardt, W. C.; Young, J. W.

    2016-12-01

    In previous work the authors have argued that there is a need to take a new look at the data management lifecycle. Our core argument is that the data management lifecycle needs to be in essence deconstructed and rebuilt. As part of this process we also argue that much can be gained from applying ideas, concepts, and principles from agile software development methods. To be sure we are not arguing for a rote application of these agile software approaches, however, given various trends related to data and technology, it is imperative to update our thinking about how to approach the data management lifecycle, recognize differing project scales, corresponding variations in structure, and alternative models for solving the problems of scientific data curation. In this paper we will describe what we term agile curation design patterns, borrowing the concept of design patterns from the software world and we will present some initial thoughts on agile curation design patterns as informed by a sample of data curation case studies solicited from participants in agile data curation meeting sessions conducted in 2015-16.

  14. International survey of academic library data curation practices

    CERN Document Server

    2013-01-01

    This survey looks closely at the data curation practices of a sample of research-oriented universities largely from the USA, the UK, Australia and Scandinavia but also including India, South Africa and other countries. The study looks at how major universities are assisting faculty in developing data curation and management plans for large scale data projects, largely in the sciences and social sciences, often as pre-conditions for major grants. The report looks at which departments of universities are shouldering the data curation burden, the personnel involved in the efforts, the costs involved, types of software used, difficulties in procuring scientific experiment logs and other hard to obtain information, types of training offered to faculty, and other issues in large scale data management.

  15. Digital Curation: The Emergence of a New Discipline

    Directory of Open Access Journals (Sweden)

    Sarah Higgins

    2011-10-01

    Full Text Available In the mid 1990s UK digital preservation activity concentrated on ensuring the survival of digital material – spurred on by the US report Preserving Digital Information (The Task Force on Archiving of Digital Information, 1996 and developed through JISC-funded activities. Technical developments and a maturing understanding of organisational activity and workflow saw the emphasis move to ensuring the access, use and reuse of digital materials throughout their lifecycle. Digital Curation emerged as a new discipline supported through the activities of the UK’s Digital Curation Centre and a number of EU 6th Framework Projects. Digital Curation is now embedded in both practice and research; with the development of tools, and the foundation of a number of support units and academic educators offering training and furthering research.

  16. Observations on the Curative Effect of Acupuncture on Depressive Neurosis

    Institute of Scientific and Technical Information of China (English)

    FU Wen-bin; WANG Si-you

    2003-01-01

    Purpose To evaluate the curative effect of acupuncture on depressive neurosis. Method Sixty-two patients were randomly divided into a treatment group of 32 cases and a control group of 30 cases. The treatment group and the control group were treated with acupuncture and Fluoxetine, respectively. The curative effects were evaluated by HAMD. Results There was a significant difference between pretreatment and posttreatmentin each group ( P 0.05). But acupuncture had no side effects and was good in compliance. Conclusion Acupuncture is an effective method for treating depressive neurosis.

  17. Curation of complex, context-dependent immunological data

    Directory of Open Access Journals (Sweden)

    Sidney John

    2006-07-01

    Full Text Available Abstract Background The Immune Epitope Database and Analysis Resource (IEDB is dedicated to capturing, housing and analyzing complex immune epitope related data http://www.immuneepitope.org. Description To identify and extract relevant data from the scientific literature in an efficient and accurate manner, novel processes were developed for manual and semi-automated annotation. Conclusion Formalized curation strategies enable the processing of a large volume of context-dependent data, which are now available to the scientific community in an accessible and transparent format. The experiences described herein are applicable to other databases housing complex biological data and requiring a high level of curation expertise.

  18. Linking Geobiology Fieldwork and Data Curation Through Workflow Documentation

    Science.gov (United States)

    Thomer, A.; Baker, K. S.; Jett, J. G.; Gordon, S.; Palmer, C. L.

    2014-12-01

    Describing the specific processes and artifacts that lead to the creation of data products provides a detailed picture of data provenance in the form of a high-level workflow. The resulting diagram identifies:1. "points of intervention" at which curation processes can be moved upstream, and 2. data products that may be important for sharing and preservation. The Site-Based Data Curation project, an Institute of Museum and Library Services-funded project hosted by the Center for Informatics Research in Science and Scholarship at the University of Illinois, previously inferred a geobiologist's planning, field and laboratory workflows through close study of the data products produced during a single field trip to Yellowstone National Park (Wickett et al, 2013). We have since built on this work by documenting post hoc curation processes, and integrating them with the existing workflow. By holistically considering both data collection and curation, we are able to identify concrete steps that scientists can take to begin curating data in the field. This field-to-repository workflow represents a first step toward a more comprehensive and nuanced model of the research data lifecycle. Using our initial three-phase workflow, we identify key data products to prioritize for curation, and the points at which data curation best practices integrate with research processes with minimal interruption. We then document the processes that make key data products sharable and ready for preservation. We append the resulting curatorial phases to the field data collection workflow: Data Staging, Data Standardizing and Data Packaging. These refinements demonstrate:1) the interdependence of research and curatorial phases;2) the links between specific research products, research phases and curatorial processes; 3) the interdependence of laboratory-specific standards and community-wide best practices. We propose a poster that shows the six-phase workflow described above. We plan to discuss

  19. Organic Contamination Baseline Study on NASA JSC Astromaterial Curation Gloveboxes

    Science.gov (United States)

    Calaway, Michael J.; Allton, J. H.; Allen, C. C.; Burkett, P. J.

    2013-01-01

    Future planned sample return missions to carbon-rich asteroids and Mars in the next two decades will require strict handling and curation protocols as well as new procedures for reducing organic contamination. After the Apollo program, astromaterial collections have mainly been concerned with inorganic contamination [1-4]. However, future isolation containment systems for astromaterials, possibly nitrogen enriched gloveboxes, must be able to reduce organic and inorganic cross-contamination. In 2012, a baseline study was orchestrated to establish the current state of organic cleanliness in gloveboxes used by NASA JSC astromaterials curation labs that could be used as a benchmark for future mission designs.

  20. Kim Scott’s Fiction within Western Australian Life-Writing: Voicing the Violence of Removal and Displacement

    Directory of Open Access Journals (Sweden)

    Cornelis Martin Renes

    2013-01-01

    Full Text Available It is nowadays evident that the West’s civilising, eugenic zeal have had a devastating impact on all aspects of the Indigenous-Australian community tissue, not least the lasting trauma of the Stolen Generations. The latter was the result of the institutionalisation, adoption, fostering, virtual slavery and sexual abuse of thousands of mixed-descent children, who were separated at great physical and emotional distances from their Indigenous kin, often never to see them again. The object of State and Federal policies of removal and mainstream absorption and assimilation between 1930 and 1970, these lost children only saw their plight officially recognised in 1997, when the Bringing Them Home report was published by the Federal government. The victims of forced separation and migration, they have suffered serious trans-generational problems of adaptation and alienation in Australian society, which have been not only documented from the outside in the aforementioned report but also given shape from the inside of and to Indigenous-Australian literature over the last three decades. The following addresses four Indigenous Western-Australian writers within the context of the Stolen Generations, and deals particularly with the semi-biographical fiction by the Nyoongar author Kim Scott, which shows how a very liminal hybrid identity can be firmly written in place yet. Un-writing past policies of physical and ‘epistemic’ violence on the Indigenous Australian population, his fiction addresses a way of approaching Australianness from an Indigenous perspective as inclusive, embracing transculturality within the nation-space.

  1. Concept development of "compassion fatigue" in clinical nurses: Application of Schwartz-Barcott and Kim's hybrid model

    Directory of Open Access Journals (Sweden)

    Mahdieh Sabery

    2017-06-01

    Full Text Available Compassion fatigue is not a new concept in nursing; yet, it is not well known and there is no fixed clear definition of the term. The ambiguity surrounding how to define compassion fatigue has challenged its measurement and evaluation. Thus, any attempt to determine attributes of this underdeveloped concept and studying it in a new socio-cultural context requires concept development. The purpose of this study is to clarify the concept of compassion fatigue through concept development and to produce a vivid and tentative definition of this concept in clinical practice. Concept development was conducted using a three-step hybrid concept analysis including theoretical, fieldwork, and final analysis phases according to Schwartz-Barcott and Kim's method. We reviewed and analyzed 48 articles that met the inclusion criteria. Following, the first author conducted 13 interviews with clinical nurses followed by an inductive content analysis. Finally, a comprehensive definition of compassion fatigue in nurses was attained. Compassion fatigue in nurses can be explained as a cumulative and progressive process of absorption of the patient’s pain and suffering formed from the sympathetic and caring interactions with the patients and their families. The physical, emotional, intellectual, spiritual, social, and organizational consequences of compassion fatigue are so extensive that they threaten the existential integrity of the nurse. Context-based variables (culture, family, and community such as personality features like devotion behaviors and commitment towards the patient, exposure to multiple stressors, organizational challenges, and lack of self-care are factors associated with an increased risk of compassion fatigue. Concept development of compassion fatigue is the first step in the protection of nurses against the destructive consequences of compassion fatigue and to improve quality of care.

  2. Data Curation Network: How Do We Compare? A Snapshot of Six Academic Library Institutions’ Data Repository and Curation Services

    Directory of Open Access Journals (Sweden)

    Lisa R. Johnston

    2017-02-01

    Full Text Available Objective: Many academic and research institutions are exploring opportunities to better support researchers in sharing their data. As partners in the Data Curation Network project, our six institutions developed a comparison of the current levels of support provided for researchers to meet their data sharing goals through library-based data repository and curation services. Methods: Each institutional lead provided a written summary of their services based on a previously developed structure, followed by group discussion and refinement of descriptions. Service areas assessed include the repository services for data, technologies used, policies, and staffing in place. Conclusions: Through this process we aim to better define the current levels of support offered by our institutions as a first step toward meeting our project's overarching goal to develop a shared staffing model for data curation across multiple institutions.

  3. Commentary on "Otolaryngology-head and neck surgery physician workforce issues an analysis for future specialty planning" by Kim, Cooper, and Kennedy.

    Science.gov (United States)

    Pryor, Shannon P; Brodsky, Linda; Chandrasekhar, Sujana S; Zaretsky, Lauren; Taylor, Duane J; Yaremchuk, Kathleen L; Pillsbury, Harold C

    2012-02-01

    An impending physician shortage has been projected. The article by Kim, Cooper, and Kennedy, titled "Otolaryngology-Head and Neck Surgery Physician Workforce Issues: An Analysis for Future Specialty Planning," is an attempt to evaluate and address this potential shortage as it applies to otolaryngology. The authors of this comment have concerns about the article's assumptions, design, and recommendations. Kim et al attempt to extrapolate data from other specialties and other countries to the US otolaryngology workforce, use that data in modeling methods without demonstrated validity, and based on their analysis, they recommend drastic changes to otolaryngologic training and practice in the United States. Particularly troublesome are (1) the emphasis placed on gender and part-time work and (2) the measurement of productivity defined as hours worked per week. Before redefining our specialty, more thorough and systematic data acquisition and review are necessary to meet the needs of our patients now and in the future.

  4. Seventy Years' Dance-Life of Kim Chun-heung(Abstract)%金千兴《心韶金千兴舞乐七十年》节选

    Institute of Scientific and Technical Information of China (English)

    金千兴; 奚治茹

    2011-01-01

    This paper,through retrospection of Kim Chun-heung's career as Korean traditional musical dance master,introduces the establishment of Korean National Music since the founding of South Korea,Kim Chun-heung Classical Dance Institute as well as Korean Masks%本文通过韩国著名传统乐舞大师金千兴先生艺术生涯的回顾,介绍了韩国建国后其大韩国乐的创建以及金千兴古典舞蹈研究所、韩国假面具保存会的开设,并通过金千兴先生恢复韩国传统宫中舞的经历介绍了韩国传统舞蹈及其保护的情况。

  5. Evaluation of objectivity, reliability and criterion validity of the key indicator method for manual handling operations (KIM-MHO), draft 2007.

    Science.gov (United States)

    Klußmann, André; Gebhardt, Hansjürgen; Rieger, Monika; Liebers, Falk; Steinberg, Ulf

    2012-01-01

    Upper extremity musculoskeletal symptoms and disorders are common in the working population. The economic and social impact of such disorders is considerable. Long-time, dynamic repetitive exposure of the hand-arm system during manual handling operations (MHO) alone or in combination with static and postural effort are recognised as causes of musculoskeletal symptoms and disorders. The assessment of these manual work tasks is crucial to estimate health risks of exposed employees. For these work tasks, a new method for the assessment of the working conditions was developed and a validation study was performed. The results suggest satisfying criterion validity and moderate objectivity of the KIM-MHO draft 2007. The method was modified and evaluated again. It is planned to release a new version of KIM-MHO in spring 2012.

  6. Curator's process of meaning-making in National museums

    DEFF Research Database (Denmark)

    Cole, Anne Jodon

    2014-01-01

    The paper aims to understand the meaning-making process curators engage in designing/developing exhibitions of the nations indigenous peoples. How indigenous people are represented can with perpetuate stereotypes or mediate change while strengthening their personal and group identity. Analysis...

  7. Interview with Smithsonian NASM Spacesuit Curator Dr. Cathleen Lewis

    Science.gov (United States)

    Lewis, Cathleen; Wright, Rebecca

    2012-01-01

    Dr. Cathleen Lewis was interviewed by Rebecca Wright during the presentation of an "Interview with Smithsonian NASM Spacesuit Curator Dr. Cathleen Lewis" on May 14, 2012. Topics included the care, size, and history of the spacesuit collection at the Smithsonian and the recent move to the state-of-the-art permanent storage facility at the Udvar-Hazy facility in Virginia.

  8. Collecting, curating, and researching writers' libraries a handbook

    CERN Document Server

    Oram, Richard W

    2014-01-01

    Collecting, Curating, and Researching Writers' Libraries: A Handbook is the first book to examine the history, acquisition, cataloging, and scholarly use of writers' personal libraries. This book also includes interviews with several well-known writers, who discuss their relationship with their books.

  9. Digital Curation for Science, Digital Libraries, and Individuals

    Directory of Open Access Journals (Sweden)

    Neil Beagrie

    2006-11-01

    Full Text Available The creation, management and use of digital materials are of increasing importance for a wide range of activities. Much of the knowledge base and intellectual assets of institutions and individuals are now in digital form. The term digital curation is increasingly being used for the actions needed to add value to and maintain these digital assets over time for current and future generations of users. The paper explores this emerging field of digital curation as an area of inter-disciplinary research and practice, and the trends which are influencing its development. It analyses the genesis of the term and how traditional roles relating to digital assets are in transition. Finally it explores some of the drivers for curation ranging from trends such as exponential growth in digital information, to "life-caching", digital preservation, the Grid and new opportunities for publishing, sharing, and re-using data. It concludes that significant effort needs to be put into developing a persistent information infrastructure for digital materials and into developing the digital curation skills of researchers and information professionals. Without this, current investment in digitisation and digital content will only secure short-term rather than lasting benefits.

  10. New Roles for New Times: Digital Curation for Preservation

    Science.gov (United States)

    Walters, Tyler; Skinner, Katherine

    2011-01-01

    Digital curation refers to the actions people take to maintain and add value to digital information over its lifecycle, including the processes used when creating digital content. Digital preservation focuses on the "series of managed activities necessary to ensure continued access to digital materials for as long as necessary." In this…

  11. Between curator and the artist: a problem of authority

    NARCIS (Netherlands)

    Wielocha, A.; Hermens, E.; Robertson, F.

    2016-01-01

    Since 1998, when Michael Brenson’s famous article ‘The curator’s moment’ was published, the role of the curator as a creator of the meaning of art has been increasing. The Museum of Modern Art in Warsaw is a small, young institution which is currently building its own collection. Some of the

  12. Curator's process of meaning-making in National museums

    DEFF Research Database (Denmark)

    Cole, Anne Jodon

    2014-01-01

    The paper aims to understand the meaning-making process curators engage in designing/developing exhibitions of the nations indigenous peoples. How indigenous people are represented can with perpetuate stereotypes or mediate change while strengthening their personal and group identity. Analysis...

  13. Urinary Biomarkers KIM-1 and NGAL for Detection of Chronic Kidney Disease of Uncertain Etiology (CKDu) among Agricultural Communities in Sri Lanka.

    Science.gov (United States)

    De Silva, Pallagae Mangala C S; Mohammed Abdul, Khaja Shameem; Eakanayake, Eakanayake M D V; Jayasinghe, Sudheera Sammanthi; Jayasumana, Channa; Asanthi, Hewa Bandulage; Perera, Hettiarachigae S D; Chaminda, Gamage G Tushara; Chandana, Ediriweera P S; Siribaddana, Sisira H

    2016-09-01

    Chronic Kidney Disease of uncertain etiology (CKDu) is an emerging epidemic among farming communities in rural Sri Lanka. Victims do not exhibit common causative factors, however, histopathological studies revealed that CKDu is a tubulointerstitial disease. Urine albumin or albumin-creatinine ratio is still being used as a traditional diagnostic tool to identify CKDu, but accuracy and prevalence data generated are questionable. Urinary biomarkers have been used in similar nephropathy and are widely recognised for their sensitivity, specificity and accuracy in determining CKDu and early renal injury. However, these biomarkers have never been used in diagnosing CKDu in Sri Lanka. Male farmers (n = 1734) were recruited from 4 regions in Sri Lanka i.e. Matara and Nuwara Eliya (farming locations with no CKDu prevalence) and two CKDu emerging locations from Hambantota District in Southern Sri Lanka; Angunakolapelessa (EL1) and Bandagiriya (EL2). Albuminuria (ACR ≥ 30mg/g); serum creatinine based estimation of glomerular filtration rate (eGFR); creatinine normalized urinary kidney injury molecule (KIM-1) and neutrophil gelatinase-associated lipocalin (NGAL) were measured. Fourteen new CKDu cases (18%) from EL1 and nine CKDu cases (9%) from EL2 were recognized for the first time from EL1, EL2 locations, which were previously considered as non-endemic of the disease and associated with persistent albuminuria (ACR ≥ 30mg/g Cr). No CKDu cases were identified in non-endemic study locations in Matara (CM) and Nuwara Eliya (CN). Analysis of urinary biomarkers showed urinary KIM-1 and NGAL were significantly higher in new CKDu cases in EL1 and EL2. However, we also reported significantly higher KIM-1 and NGAL in apparently healthy farmers in EL 1 and EL 2 with comparison to both control groups. These observations may indicate possible early renal damage in absence of persistent albuminuria and potential capabilities of urinary KIM-1 and NGAL in early detection of renal injury

  14. Can You Anchor a Shimmering Nation State via Regional Indigenous Roots? Kim Scott talks to Anne Brewster about That Deadman Dance

    Directory of Open Access Journals (Sweden)

    Anne Brewster

    2011-10-01

    Full Text Available This interview focuses mainly on Kim Scott’s new novel That Deadman Dance which won the regional Commonwealth Writers Prize (Southeast Asian and Pacific region and the Miles Franklin Award. The topics of conversation include Scott’s involvement in the Noongar language project (and the relationship of this project to the novel, the novel itself, the challenges of writing in English, the resistance paradigm and indigenous sovereignty and nationalism.

  15. Beaudrie, Sara, Ducar, Cynthia, & Potowski, Kim (2014). Heritage language teaching: Research and practice. New York State, New York: McGraw Hill.

    OpenAIRE

    Florencia Henshaw

    2015-01-01

    This review introduces readers to Heritage language teaching: Research and practice, by Sara Beaudrie, Cynthia Ducar, and Kim Potowski, which is part of the “Directions in Second Language Learning” series. This handbook offers a comprehensive overview of key concepts, research findings, and pedagogical strategies to better meet the needs of heritage learners, and it underscores the importance of sociolinguistic issues and phenomena in heritage language instruction.

  16. Beaudrie, Sara, Ducar, Cynthia, & Potowski, Kim (2014. Heritage language teaching: Research and practice. New York State, New York: McGraw Hill.

    Directory of Open Access Journals (Sweden)

    Florencia Henshaw

    2015-12-01

    Full Text Available This review introduces readers to Heritage language teaching: Research and practice, by Sara Beaudrie, Cynthia Ducar, and Kim Potowski, which is part of the “Directions in Second Language Learning” series. This handbook offers a comprehensive overview of key concepts, research findings, and pedagogical strategies to better meet the needs of heritage learners, and it underscores the importance of sociolinguistic issues and phenomena in heritage language instruction.

  17. How should the completeness and quality of curated nanomaterial data be evaluated?

    NARCIS (Netherlands)

    Marchese Robinson, Richard L.; Lynch, Iseult; Peijnenburg, Willie; Rumble, John; Klaessig, Frederick; Marquardt, Clarissa; Rauscher, Hubert; Puzyn, Tomasz; Purian, Ronit; Åberg, Christoffer; Karcher, Sandra; Vriens, Hanne; Hoet, Peter; Hoover, Mark; Hendren, Christine; Harper, Stacey

    2016-01-01

    Nanotechnology is of increasing significance. Curation of nanomaterial data into electronic databases offers opportunities to better understand and predict nanomaterials’ behaviour. This supports innovation in, and regulation of, nanotechnology. It is commonly understood that curated data need to be

  18. 76 FR 26322 - Curators of the University of Missouri, Columbia, MO, Pickard Hall; License Amendment Request...

    Science.gov (United States)

    2011-05-06

    ... COMMISSION Curators of the University of Missouri, Columbia, MO, Pickard Hall; License Amendment Request... received, by letter dated February 17, 2011, a license amendment application from the Curators of the... review, documented in a letter to Curators of the University of Missouri dated March 21, 2011, found the...

  19. KIMS, CEDIA, and HS-CEDIA immunoassays are inadequately sensitive for detection of benzodiazepines in urine from patients treated for chronic pain.

    Science.gov (United States)

    Darragh, Alicia; Snyder, Marion L; Ptolemy, Adam S; Melanson, Stacy

    2014-01-01

    Patients treated for chronic pain may frequently undergo urine drug testing to monitor medication compliance and detect undisclosed prescribed or illicit drug use. Due to the increasing use and abuse of benzodiazepines, this class of medications is often included in drug screening panels. However, immunoassay-based methods lack the requisite sensitivity for detecting benzodiazepine use in this population primarily due to their poor cross-reactivity with several major urinary benzodiazepine metabolites. A High Sensitivity Cloned Enzyme Donor Immunoassay (HS-CEDIA), in which beta-glucuronidase is added to the reagent, has been shown to perform better than traditional assays, but its performance in patients treated for chronic pain is not well characterized. To determine the diagnostic accuracy of HS-CEDIA, as compared to the Cloned Enzyme Donor Immunoassay (CEDIA) and Kinetic Interaction of Microparticles in Solution (KIMS) screening immunoassays and liquid chromatography-tandem mass spectrometry (LC-MS/MS), for monitoring benzodiazepine use in patients treated for chronic pain. A study of the diagnostic accuracy of urine benzodiazepine immunoassays. The study was conducted at an academic tertiary care hospital with a clinical laboratory that performs urine drug testing for monitoring medication compliance in pain management. A total of 299 urine specimens from patients treated for chronic pain were screened for the presence of benzodiazepines using the HS-CEDIA, CEDIA, and KIMS assays. The sensitivity and specificity of the screening assays were determined using the LC-MS/MS results as the reference method. Of the 299 urine specimens tested, 141 (47%) confirmed positive for one or more of the benzodiazepines/metabolites by LC-MS/MS. All 3 screens were 100% specific with no false-positive results. The CEDIA and KIMS sensitivities were 55% (78/141) and 47% (66/141), respectively. Despite the relatively higher sensitivity of the HS-CEDIA screening assay (78%; 110

  20. Digital curation: a proposal of a semi-automatic digital object selection-based model for digital curation in Big Data environments

    Directory of Open Access Journals (Sweden)

    Moisés Lima Dutra

    2016-08-01

    Full Text Available Introduction: This work presents a new approach for Digital Curations from a Big Data perspective. Objective: The objective is to propose techniques to digital curations for selecting and evaluating digital objects that take into account volume, velocity, variety, reality, and the value of the data collected from multiple knowledge domains. Methodology: This is an exploratory research of applied nature, which addresses the research problem in a qualitative way. Heuristics allow this semi-automatic process to be done either by human curators or by software agents. Results: As a result, it was proposed a model for searching, processing, evaluating and selecting digital objects to be processed by digital curations. Conclusions: It is possible to use Big Data environments as a source of information resources for Digital Curation; besides, Big Data techniques and tools can support the search and selection process of information resources by Digital Curations.

  1. Advanced Curation: Solving Current and Future Sample Return Problems

    Science.gov (United States)

    Fries, M.; Calaway, M.; Evans, C.; McCubbin, F.

    2015-01-01

    Advanced Curation is a wide-ranging and comprehensive research and development effort at NASA Johnson Space Center that identifies and remediates sample related issues. For current collections, Advanced Curation investigates new cleaning, verification, and analytical techniques to assess their suitability for improving curation processes. Specific needs are also assessed for future sample return missions. For each need, a written plan is drawn up to achieve the requirement. The plan draws while upon current Curation practices, input from Curators, the analytical expertise of the Astromaterials Research and Exploration Science (ARES) team, and suitable standards maintained by ISO, IEST, NIST and other institutions. Additionally, new technologies are adopted on the bases of need and availability. Implementation plans are tested using customized trial programs with statistically robust courses of measurement, and are iterated if necessary until an implementable protocol is established. Upcoming and potential NASA missions such as OSIRIS-REx, the Asteroid Retrieval Mission (ARM), sample return missions in the New Frontiers program, and Mars sample return (MSR) all feature new difficulties and specialized sample handling requirements. The Mars 2020 mission in particular poses a suite of challenges since the mission will cache martian samples for possible return to Earth. In anticipation of future MSR, the following problems are among those under investigation: What is the most efficient means to achieve the less than 1.0 ng/sq cm total organic carbon (TOC) cleanliness required for all sample handling hardware? How do we maintain and verify cleanliness at this level? The Mars 2020 Organic Contamination Panel (OCP) predicts that organic carbon, if present, will be present at the "one to tens" of ppb level in martian near-surface samples. The same samples will likely contain wt% perchlorate salts, or approximately 1,000,000x as much perchlorate oxidizer as organic carbon

  2. Advances in Astromaterials Curation: Supporting Future Sample Return Missions

    Science.gov (United States)

    Evans, C. A.; Zeigler, R. A.; Fries, M. D..; Righter, K.; Allton, J. H.; Zolensky, M. E.; Calaway, M. J.; Bell, M. S.

    2015-01-01

    NASA's Astromaterials, curated at the Johnson Space Center in Houston, are the most extensive, best-documented, and leastcontaminated extraterrestrial samples that are provided to the worldwide research community. These samples include lunar samples from the Apollo missions, meteorites collected over nearly 40 years of expeditions to Antarctica (providing samples of dozens of asteroid bodies, the Moon, and Mars), Genesis solar wind samples, cosmic dust collected by NASA's high altitude airplanes, Comet Wild 2 and interstellar dust samples from the Stardust mission, and asteroid samples from JAXA's Hayabusa mission. A full account of NASA's curation efforts for these collections is provided by Allen, et al [1]. On average, we annually allocate about 1500 individual samples from NASA's astromaterials collections to hundreds of researchers from around the world, including graduate students and post-doctoral scientists; our allocation rate has roughly doubled over the past 10 years. The curation protocols developed for the lunar samples returned from the Apollo missions remain relevant and are adapted to new and future missions. Several lessons from the Apollo missions, including the need for early involvement of curation scientists in mission planning [1], have been applied to all subsequent sample return campaigns. From the 2013 National Academy of Sciences report [2]: "Curation is the critical interface between sample return missions and laboratory research. Proper curation has maintained the scientific integrity and utility of the Apollo, Antarctic meteorite, and cosmic dust collections for decades. Each of these collections continues to yield important new science. In the past decade, new state-of-the-art curatorial facilities for the Genesis and Stardust missions were key to the scientific breakthroughs provided by these missions." The results speak for themselves: research on NASA's astromaterials result in hundreds of papers annually, yield fundamental

  3. Semi-automated curation of protein subcellular localization: a text mining-based approach to Gene Ontology (GO Cellular Component curation

    Directory of Open Access Journals (Sweden)

    Chan Juancarlos

    2009-07-01

    Full Text Available Abstract Background Manual curation of experimental data from the biomedical literature is an expensive and time-consuming endeavor. Nevertheless, most biological knowledge bases still rely heavily on manual curation for data extraction and entry. Text mining software that can semi- or fully automate information retrieval from the literature would thus provide a significant boost to manual curation efforts. Results We employ the Textpresso category-based information retrieval and extraction system http://www.textpresso.org, developed by WormBase to explore how Textpresso might improve the efficiency with which we manually curate C. elegans proteins to the Gene Ontology's Cellular Component Ontology. Using a training set of sentences that describe results of localization experiments in the published literature, we generated three new curation task-specific categories (Cellular Components, Assay Terms, and Verbs containing words and phrases associated with reports of experimentally determined subcellular localization. We compared the results of manual curation to that of Textpresso queries that searched the full text of articles for sentences containing terms from each of the three new categories plus the name of a previously uncurated C. elegans protein, and found that Textpresso searches identified curatable papers with recall and precision rates of 79.1% and 61.8%, respectively (F-score of 69.5%, when compared to manual curation. Within those documents, Textpresso identified relevant sentences with recall and precision rates of 30.3% and 80.1% (F-score of 44.0%. From returned sentences, curators were able to make 66.2% of all possible experimentally supported GO Cellular Component annotations with 97.3% precision (F-score of 78.8%. Measuring the relative efficiencies of Textpresso-based versus manual curation we find that Textpresso has the potential to increase curation efficiency by at least 8-fold, and perhaps as much as 15-fold, given

  4. Curating and Preparing High-Throughput Screening Data for Quantitative Structure-Activity Relationship Modeling.

    Science.gov (United States)

    Kim, Marlene T; Wang, Wenyi; Sedykh, Alexander; Zhu, Hao

    2016-01-01

    Publicly available bioassay data often contains errors. Curating massive bioassay data, especially high-throughput screening (HTS) data, for Quantitative Structure-Activity Relationship (QSAR) modeling requires the assistance of automated data curation tools. Using automated data curation tools are beneficial to users, especially ones without prior computer skills, because many platforms have been developed and optimized based on standardized requirements. As a result, the users do not need to extensively configure the curation tool prior to the application procedure. In this chapter, a freely available automatic tool to curate and prepare HTS data for QSAR modeling purposes will be described.

  5. The MetaboLights repository: curation challenges in metabolomics.

    Science.gov (United States)

    Salek, Reza M; Haug, Kenneth; Conesa, Pablo; Hastings, Janna; Williams, Mark; Mahendraker, Tejasvi; Maguire, Eamonn; González-Beltrán, Alejandra N; Rocca-Serra, Philippe; Sansone, Susanna-Assunta; Steinbeck, Christoph

    2013-01-01

    MetaboLights is the first general-purpose open-access curated repository for metabolomic studies, their raw experimental data and associated metadata, maintained by one of the major open-access data providers in molecular biology. Increases in the number of depositions, number of samples per study and the file size of data submitted to MetaboLights present a challenge for the objective of ensuring high-quality and standardized data in the context of diverse metabolomic workflows and data representations. Here, we describe the MetaboLights curation pipeline, its challenges and its practical application in quality control of complex data depositions. Database URL: http://www.ebi.ac.uk/metabolights.

  6. Rhea--a manually curated resource of biochemical reactions.

    Science.gov (United States)

    Alcántara, Rafael; Axelsen, Kristian B; Morgat, Anne; Belda, Eugeni; Coudert, Elisabeth; Bridge, Alan; Cao, Hong; de Matos, Paula; Ennis, Marcus; Turner, Steve; Owen, Gareth; Bougueleret, Lydie; Xenarios, Ioannis; Steinbeck, Christoph

    2012-01-01

    Rhea (http://www.ebi.ac.uk/rhea) is a comprehensive resource of expert-curated biochemical reactions. Rhea provides a non-redundant set of chemical transformations for use in a broad spectrum of applications, including metabolic network reconstruction and pathway inference. Rhea includes enzyme-catalyzed reactions (covering the IUBMB Enzyme Nomenclature list), transport reactions and spontaneously occurring reactions. Rhea reactions are described using chemical species from the Chemical Entities of Biological Interest ontology (ChEBI) and are stoichiometrically balanced for mass and charge. They are extensively manually curated with links to source literature and other public resources on metabolism including enzyme and pathway databases. This cross-referencing facilitates the mapping and reconciliation of common reactions and compounds between distinct resources, which is a common first step in the reconstruction of genome scale metabolic networks and models.

  7. The MetaboLights repository: curation challenges in metabolomics

    Science.gov (United States)

    Salek, Reza M.; Haug, Kenneth; Conesa, Pablo; Hastings, Janna; Williams, Mark; Mahendraker, Tejasvi; Maguire, Eamonn; González-Beltrán, Alejandra N.; Rocca-Serra, Philippe; Sansone, Susanna-Assunta; Steinbeck, Christoph

    2013-01-01

    MetaboLights is the first general-purpose open-access curated repository for metabolomic studies, their raw experimental data and associated metadata, maintained by one of the major open-access data providers in molecular biology. Increases in the number of depositions, number of samples per study and the file size of data submitted to MetaboLights present a challenge for the objective of ensuring high-quality and standardized data in the context of diverse metabolomic workflows and data representations. Here, we describe the MetaboLights curation pipeline, its challenges and its practical application in quality control of complex data depositions. Database URL: http://www.ebi.ac.uk/metabolights PMID:23630246

  8. Curation of Microscopic Astromaterials by NASA: "Gathering Dust Since 1981"

    Science.gov (United States)

    Frank, D. R.; Bastien, R. K.; Rodriguez, M.; Gonzalez, C.; Zolensky, M. E.

    2013-01-01

    Employing the philosophy that "Small is Beautiful", NASA has been collecting and curating microscopic astromaterials since 1981. These active collections now include interplanetary dust collected in Earth's stratosphere by U-2, ER-2 and WB-57F aircraft (the Cosmic Dust Program - our motto is "Gathering dust since 1981"), comet Wild-2 coma dust (the Stardust Mission), modern interstellar dust (also the Stardust Mission), asteroid Itokawa regolith dust (the Hayabusa Mission - joint curation with JAXA-ISAS), and interplanetary dust impact features on recovered portions of the following spacecraft: Skylab, the Solar Maximum Satellite, the Palapa Satellite, the Long Duration Exposure Facility (LDEF), the MIR Space Station, the International Space Station, and the Hubble Space Telescope (all in the Space Exposed Hardware Laboratory).

  9. Medicare Care Choices Model Enables Concurrent Palliative and Curative Care.

    Science.gov (United States)

    2015-01-01

    On July 20, 2015, the federal Centers for Medicare & Medicaid Services (CMS) announced hospices that have been selected to participate in the Medicare Care Choices Model. Fewer than half of the Medicare beneficiaries use hospice care for which they are eligible. Current Medicare regulations preclude concurrent palliative and curative care. Under the Medicare Choices Model, dually eligible Medicare beneficiaries may elect to receive supportive care services typically provided by hospice while continuing to receive curative services. This report describes how CMS has expanded the model from an originally anticipated 30 Medicare-certified hospices to over 140 Medicare-certified hospices and extended the duration of the model from 3 to 5 years. Medicare-certified hospice programs that will participate in the model are listed.

  10. Curating Public Art 2.0: The case of Autopoiesis

    DEFF Research Database (Denmark)

    Ajana, Btihaj

    2017-01-01

    This article examines the intersections between public art, curation and Web 2.0 technology. Building on the case study of Autopoiesis, a digital art project focusing on the curation and online exhibition of artworks received from members of the public in the United Arab Emirates, the article...... explores the ways and extent to which a Web platform can enable participatory culture and novel forms of audience engagement. While major cultural institutions in the region tend to promote brand-like activities and prestige cultural projects, Autopoiesis seeks to offer a more inclusive platform...... to facilitate autonomous creative self-expressions and enable greater public participation in culture. By providing a critical reflection on the ‘material’ contexts of this digital project, the article also demonstrates the related tensions between the virtual and the physical, and the wider ‘local’ realities...

  11. Curating Public Art 2.0: The case of Autopoiesis

    DEFF Research Database (Denmark)

    Ajana, Btihaj

    2017-01-01

    to facilitate autonomous creative self-expressions and enable greater public participation in culture. By providing a critical reflection on the ‘material’ contexts of this digital project, the article also demonstrates the related tensions between the virtual and the physical, and the wider ‘local’ realities......This article examines the intersections between public art, curation and Web 2.0 technology. Building on the case study of Autopoiesis, a digital art project focusing on the curation and online exhibition of artworks received from members of the public in the United Arab Emirates, the article...... explores the ways and extent to which a Web platform can enable participatory culture and novel forms of audience engagement. While major cultural institutions in the region tend to promote brand-like activities and prestige cultural projects, Autopoiesis seeks to offer a more inclusive platform...

  12. Data Preservation and Curation for the Planetary Science Community

    Science.gov (United States)

    Hughes, J. S.; Crichton, D. J.; Joyner, R.; Hardman, S.; Rye, E.

    2013-12-01

    The Planetary Data System (PDS) has just released PDS4 Version 1.0, its next generation data standards for the planetary science archive. These data standards are the result of a multi-year effort to develop an information model based on accepted standards for data preservation, data curation, metadata management, and model development. The resulting information model is subsequently used to drive information system development from the generation of data standards documentation to the configuration of federated registries and search engines. This paper will provide an overview of the development of the PDS4 Information Model and focus on the application of the Open Archive Information System (OAIS) Reference Model - ISO 14721:2003, the Metadata Registry (MDR) Standard - ISO/IEC 11179, and the E-Business XML Standard to help ensure the long-term preservation and curation of planetary science data. Copyright 2013 California Institute of Technology Government sponsorship acknowledged

  13. Nuts and Bolts - Techniques for Genesis Sample Curation

    Science.gov (United States)

    Burkett, Patti J.; Rodriquez, M. C.; Allton, J. H.

    2011-01-01

    The Genesis curation staff at NASA Johnson Space Center provides samples and data for analysis to the scientific community, following allocation approval by the Genesis Oversight Committee, a sub-committee of CAPTEM (Curation Analysis Planning Team for Extraterrestrial Materials). We are often asked by investigators within the scientific community how we choose samples to best fit the requirements of the request. Here we will demonstrate our techniques for characterizing samples and satisfying allocation requests. Even with a systematic approach, every allocation is unique. We are also providing updated status of the cataloging and characterization of solar wind collectors as of January 2011. The collection consists of 3721 inventoried samples consisting of a single fragment, or multiple fragments containerized or pressed between post-it notes, jars or vials of various sizes.

  14. Sharing and community curation of mass spectrometry data with GNPS

    Science.gov (United States)

    Nguyen, Don Duy; Watrous, Jeramie; Kapono, Clifford A; Luzzatto-Knaan, Tal; Porto, Carla; Bouslimani, Amina; Melnik, Alexey V; Meehan, Michael J; Liu, Wei-Ting; Crüsemann, Max; Boudreau, Paul D; Esquenazi, Eduardo; Sandoval-Calderón, Mario; Kersten, Roland D; Pace, Laura A; Quinn, Robert A; Duncan, Katherine R; Hsu, Cheng-Chih; Floros, Dimitrios J; Gavilan, Ronnie G; Kleigrewe, Karin; Northen, Trent; Dutton, Rachel J; Parrot, Delphine; Carlson, Erin E; Aigle, Bertrand; Michelsen, Charlotte F; Jelsbak, Lars; Sohlenkamp, Christian; Pevzner, Pavel; Edlund, Anna; McLean, Jeffrey; Piel, Jörn; Murphy, Brian T; Gerwick, Lena; Liaw, Chih-Chuang; Yang, Yu-Liang; Humpf, Hans-Ulrich; Maansson, Maria; Keyzers, Robert A; Sims, Amy C; Johnson, Andrew R.; Sidebottom, Ashley M; Sedio, Brian E; Klitgaard, Andreas; Larson, Charles B; P., Cristopher A Boya; Torres-Mendoza, Daniel; Gonzalez, David J; Silva, Denise B; Marques, Lucas M; Demarque, Daniel P; Pociute, Egle; O'Neill, Ellis C; Briand, Enora; Helfrich, Eric J. N.; Granatosky, Eve A; Glukhov, Evgenia; Ryffel, Florian; Houson, Hailey; Mohimani, Hosein; Kharbush, Jenan J; Zeng, Yi; Vorholt, Julia A; Kurita, Kenji L; Charusanti, Pep; McPhail, Kerry L; Nielsen, Kristian Fog; Vuong, Lisa; Elfeki, Maryam; Traxler, Matthew F; Engene, Niclas; Koyama, Nobuhiro; Vining, Oliver B; Baric, Ralph; Silva, Ricardo R; Mascuch, Samantha J; Tomasi, Sophie; Jenkins, Stefan; Macherla, Venkat; Hoffman, Thomas; Agarwal, Vinayak; Williams, Philip G; Dai, Jingqui; Neupane, Ram; Gurr, Joshua; Rodríguez, Andrés M. C.; Lamsa, Anne; Zhang, Chen; Dorrestein, Kathleen; Duggan, Brendan M; Almaliti, Jehad; Allard, Pierre-Marie; Phapale, Prasad; Nothias, Louis-Felix; Alexandrov, Theodore; Litaudon, Marc; Wolfender, Jean-Luc; Kyle, Jennifer E; Metz, Thomas O; Peryea, Tyler; Nguyen, Dac-Trung; VanLeer, Danielle; Shinn, Paul; Jadhav, Ajit; Müller, Rolf; Waters, Katrina M; Shi, Wenyuan; Liu, Xueting; Zhang, Lixin; Knight, Rob; Jensen, Paul R; Palsson, Bernhard O; Pogliano, Kit; Linington, Roger G; Gutiérrez, Marcelino; Lopes, Norberto P; Gerwick, William H; Moore, Bradley S; Dorrestein, Pieter C; Bandeira, Nuno

    2017-01-01

    The potential of the diverse chemistries present in natural products (NP) for biotechnology and medicine remains untapped because NP databases are not searchable with raw data and the NP community has no way to share data other than in published papers. Although mass spectrometry techniques are well-suited to high-throughput characterization of natural products, there is a pressing need for an infrastructure to enable sharing and curation of data. We present Global Natural Products Social molecular networking (GNPS, http://gnps.ucsd.edu), an open-access knowledge base for community wide organization and sharing of raw, processed or identified tandem mass (MS/MS) spectrometry data. In GNPS crowdsourced curation of freely available community-wide reference MS libraries will underpin improved annotations. Data-driven social-networking should facilitate identification of spectra and foster collaborations. We also introduce the concept of ‘living data’ through continuous reanalysis of deposited data. PMID:27504778

  15. [Preventive and curative value of yoga in cardiometabolic diseases].

    Science.gov (United States)

    Apor, Péter

    2016-02-28

    Yoga and other body-mind techniques enjoy an increasing popularity in many fields of health maintaining practices, in prevention of some illnesses and in curative medicine in spite of our incomplete knowledge about its applicability and effects. There are large differences among the various yoga-schools and the heterogeneity of indications etc. In this article a bucket of recent information is offered for the inquirers on the potential advantages of yoga (diet, mind-exercises, asanas, pranayamas) for decreasing cardio-metabolic risk factors, stabilizing mental health, and its addictive use in curative medicine. Few adverse side-effects may occur only in the case of misapplication. Its advantages are low costs, availability for broad population, and very few contraindications. Disadvantages include differences in the ability of yoga instructors and in yoga practices.

  16. A Practice and Value Proposal for Doctoral Dissertation Data Curation

    Directory of Open Access Journals (Sweden)

    W. Aaron Collie

    2011-10-01

    Full Text Available The preparation and publication of dissertations can be viewed as a subsystem of scholarly communication, and the treatment of data that support doctoral research can be mapped in a very controlled manner to the data curation lifecycle. Dissertation datasets represent “low-hanging fruit” for universities who are developing institutional data collections. The current workflow for processing electronic theses and dissertations (ETD at a typical American university is presented, and a new practice is proposed that includes datasets in the process of formulating, awarding, and disseminating dissertations in a way that enables them to be linked and curated together. The value proposition and new roles for the university and its student-authors, faculty, graduate programs and librarians are explored.

  17. Sharing Responsibility for Data Stewardship Between Scientists and Curators

    Science.gov (United States)

    Hedstrom, M. L.

    2012-12-01

    Data stewardship is becoming increasingly important to support accurate conclusions from new forms of data, integration of and computation across heterogeneous data types, interactions between models and data, replication of results, data governance and long-term archiving. In addition to increasing recognition of the importance of data management, data science, and data curation by US and international scientific agencies, the National Academies of Science Board on Research Data and Information is sponsoring a study on Data Curation Education and Workforce Issues. Effective data stewardship requires a distributed effort among scientists who produce data, IT staff and/or vendors who provide data storage and computational facilities and services, and curators who enhance data quality, manage data governance, provide access to third parties, and assume responsibility for long-term archiving of data. The expertise necessary for scientific data management includes a mix of knowledge of the scientific domain; an understanding of domain data requirements, standards, ontologies and analytical methods; facility with leading edge information technology; and knowledge of data governance, standards, and best practices for long-term preservation and access that rarely are found in a single individual. Rather than developing data science and data curation as new and distinct occupations, this paper examines the set of tasks required for data stewardship. The paper proposes an alternative model that embeds data stewardship in scientific workflows and coordinates hand-offs between instruments, repositories, analytical processing, publishers, distributors, and archives. This model forms the basis for defining knowledge and skill requirements for specific actors in the processes required for data stewardship and the corresponding educational and training needs.

  18. Curating Big Data Made Simple: Perspectives from Scientific Communities.

    Science.gov (United States)

    Sowe, Sulayman K; Zettsu, Koji

    2014-03-01

    The digital universe is exponentially producing an unprecedented volume of data that has brought benefits as well as fundamental challenges for enterprises and scientific communities alike. This trend is inherently exciting for the development and deployment of cloud platforms to support scientific communities curating big data. The excitement stems from the fact that scientists can now access and extract value from the big data corpus, establish relationships between bits and pieces of information from many types of data, and collaborate with a diverse community of researchers from various domains. However, despite these perceived benefits, to date, little attention is focused on the people or communities who are both beneficiaries and, at the same time, producers of big data. The technical challenges posed by big data are as big as understanding the dynamics of communities working with big data, whether scientific or otherwise. Furthermore, the big data era also means that big data platforms for data-intensive research must be designed in such a way that research scientists can easily search and find data for their research, upload and download datasets for onsite/offsite use, perform computations and analysis, share their findings and research experience, and seamlessly collaborate with their colleagues. In this article, we present the architecture and design of a cloud platform that meets some of these requirements, and a big data curation model that describes how a community of earth and environmental scientists is using the platform to curate data. Motivation for developing the platform, lessons learnt in overcoming some challenges associated with supporting scientists to curate big data, and future research directions are also presented.

  19. A relevancy algorithm for curating earth science data around phenomenon

    Science.gov (United States)

    Maskey, Manil; Ramachandran, Rahul; Li, Xiang; Weigel, Amanda; Bugbee, Kaylin; Gatlin, Patrick; Miller, J. J.

    2017-09-01

    Earth science data are being collected for various science needs and applications, processed using different algorithms at multiple resolutions and coverages, and then archived at different archiving centers for distribution and stewardship causing difficulty in data discovery. Curation, which typically occurs in museums, art galleries, and libraries, is traditionally defined as the process of collecting and organizing information around a common subject matter or a topic of interest. Curating data sets around topics or areas of interest addresses some of the data discovery needs in the field of Earth science, especially for unanticipated users of data. This paper describes a methodology to automate search and selection of data around specific phenomena. Different components of the methodology including the assumptions, the process, and the relevancy ranking algorithm are described. The paper makes two unique contributions to improving data search and discovery capabilities. First, the paper describes a novel methodology developed for automatically curating data around a topic using Earth science metadata records. Second, the methodology has been implemented as a stand-alone web service that is utilized to augment search and usability of data in a variety of tools.

  20. Opening Data in the Long Tail for Community Discovery, Curation and Action Using Active and Social Curation

    Science.gov (United States)

    Hedstrom, M. L.; Kumar, P.; Myers, J.; Plale, B. A.

    2012-12-01

    In data science, the most common sequence of steps for data curation are to 1) curate data, 2) enable data discovery, and 3) provide for data reuse. The Sustainable Environments - Actionable Data (SEAD) project, funded through NSF's DataNet program, is creating an environment for sustainability scientists to discover data first, reuse data next, and curate data though an on-going process that we call Active and Social Curation. For active curation we are developing tools and services that support data discovery, data management, and data enhancement for the community while the data is still being used actively for research. We are creating an Active Content Repository, using drop box, semantic web technologies, and a Flickr-like interface for researchers to "drop" data into a repository where it will be replicated and minimally discoverable. For social curation, we are deploying a social networking tool, VIVO, which will allow researchers to discover data-publications-people (e.g. expertise) through a route that can start at any of those entry points. The other dimension of social curation is developing mechanisms to open data for community input, for example, using ranking and commenting mechanisms for data sets and a community-sourcing capability to add tags, clean up and validate data sets. SEAD's strategies and services are aimed at the sustainability science community, which faces numerous challenges including discovery of useful data, cleaning noisy observational data, synthesizing data of different types, defining appropriate models, managing and preserving their research data, and conveying holistic results to colleagues, students, decision makers, and the public. Sustainability researchers make significant use of centrally managed data from satellites and national sensor networks, national scientific and statistical agencies, and data archives. At the same time, locally collected data and custom derived data products that combine observations and

  1. The Hayabusa Curation Facility at Johnson Space Center

    Science.gov (United States)

    Zolensky, M.; Bastien, R.; McCann, B.; Frank, D.; Gonzalez, C.; Rodriguez, M.

    2013-01-01

    The Japan Aerospace Exploration Agency (JAXA) Hayabusa spacecraft made contact with the asteroid 25143 Itokawa and collected regolith dust from Muses Sea region of smooth terrain [1]. The spacecraft returned to Earth with more than 10,000 grains ranging in size from just over 300 µm to less than 10 µm [2, 3]. These grains represent the only collection of material returned from an asteroid by a spacecraft. As part of the joint agreement between JAXA and NASA for the mission, 10% of the Hayabusa grains are being transferred to NASA for parallel curation and allocation. In order to properly receive process and curate these samples, a new curation facility was established at Johnson Space Center (JSC). Since the Hayabusa samples within the JAXA curation facility have been stored free from exposure to terrestrial atmosphere and contamination [4], one of the goals of the new NASA curation facility was to continue this treatment. An existing lab space at JSC was transformed into a 120 sq.ft. ISO class 4 (equivalent to the original class 10 standard) clean room. Hayabusa samples are stored, observed, processed, and packaged for allocation inside a stainless steel glove box under dry N2. Construction of the clean laboratory was completed in 2012. Currently, 25 Itokawa particles are lodged in NASA's Hayabusa Lab. Special care has been taken during lab construction to remove or contain materials that may contribute contaminant particles in the same size range as the Hayabusa grains. Several witness plates of various materials are installed around the clean lab and within the glove box to permit characterization of local contaminants at regular intervals by SEM and mass spectrometry, and particle counts of the lab environment are frequently acquired. Of particular interest is anodized aluminum, which contains copious sub-mm grains of a multitude of different materials embedded in its upper surface. Unfortunately the use of anodized aluminum was necessary in the construction

  2. A justification for semantic training in data curation frameworks development

    Science.gov (United States)

    Ma, X.; Branch, B. D.; Wegner, K.

    2013-12-01

    In the complex data curation activities involving proper data access, data use optimization and data rescue, opportunities exist where underlying skills in semantics may play a crucial role in data curation professionals ranging from data scientists, to informaticists, to librarians. Here, We provide a conceptualization of semantics use in the education data curation framework (EDCF) [1] under development by Purdue University and endorsed by the GLOBE program [2] for further development and application. Our work shows that a comprehensive data science training includes both spatial and non-spatial data, where both categories are promoted by standard efforts of organizations such as the Open Geospatial Consortium (OGC) and the World Wide Web Consortium (W3C), as well as organizations such as the Federation of Earth Science Information Partners (ESIP) that share knowledge and propagate best practices in applications. Outside the context of EDCF, semantics training may be same critical to such data scientists, informaticists or librarians in other types of data curation activity. Past works by the authors have suggested that such data science should augment an ontological literacy where data science may become sustainable as a discipline. As more datasets are being published as open data [3] and made linked to each other, i.e., in the Resource Description Framework (RDF) format, or at least their metadata are being published in such a way, vocabularies and ontologies of various domains are being created and used in the data management, such as the AGROVOC [4] for agriculture and the GCMD keywords [5] and CLEAN vocabulary [6] for climate sciences. The new generation of data scientist should be aware of those technologies and receive training where appropriate to incorporate those technologies into their reforming daily works. References [1] Branch, B.D., Fosmire, M., 2012. The role of interdisciplinary GIS and data curation librarians in enhancing authentic scientific

  3. Matching curated genome databases: a non trivial task

    Directory of Open Access Journals (Sweden)

    Labedan Bernard

    2008-10-01

    Full Text Available Abstract Background Curated databases of completely sequenced genomes have been designed independently at the NCBI (RefSeq and EBI (Genome Reviews to cope with non-standard annotation found in the version of the sequenced genome that has been published by databanks GenBank/EMBL/DDBJ. These curation attempts were expected to review the annotations and to improve their pertinence when using them to annotate newly released genome sequences by homology to previously annotated genomes. However, we observed that such an uncoordinated effort has two unwanted consequences. First, it is not trivial to map the protein identifiers of the same sequence in both databases. Secondly, the two reannotated versions of the same genome differ at the level of their structural annotation. Results Here, we propose CorBank, a program devised to provide cross-referencing protein identifiers no matter what the level of identity is found between their matching sequences. Approximately 98% of the 1,983,258 amino acid sequences are matching, allowing instantaneous retrieval of their respective cross-references. CorBank further allows detecting any differences between the independently curated versions of the same genome. We found that the RefSeq and Genome Reviews versions are perfectly matching for only 50 of the 641 complete genomes we have analyzed. In all other cases there are differences occurring at the level of the coding sequence (CDS, and/or in the total number of CDS in the respective version of the same genome. CorBank is freely accessible at http://www.corbank.u-psud.fr. The CorBank site contains also updated publication of the exhaustive results obtained by comparing RefSeq and Genome Reviews versions of each genome. Accordingly, this web site allows easy search of cross-references between RefSeq, Genome Reviews, and UniProt, for either a single CDS or a whole replicon. Conclusion CorBank is very efficient in rapid detection of the numerous differences existing

  4. Reducing Organic Contamination in NASA JSC Astromaterial Curation Facility

    Science.gov (United States)

    Calaway, M. J.; Allen, C. C.; Allton, J. H.

    2013-01-01

    Future robotic and human spaceflight missions to the Moon, Mars, asteroids and comets will require handling and storing astromaterial samples with minimal inorganic and organic contamination to preserve the scientific integrity of each sample. Much was learned from the rigorous attempts to minimize and monitor organic contamination during Apollo, but it was not adequate for current analytical requirements; thus [1]. OSIRIS-REx, Hayabusa-2, and future Mars sample return will require better protocols for reducing organic contamination. Future isolation con-tainment systems for astromaterials, possibly nitrogen enriched gloveboxes, must be able to reduce organic and inorganic cross-contamination. In 2012, a baseline study established the current state of organic cleanliness in gloveboxes used by NASA JSC astromaterials curation labs that could be used as a benchmark for future mission designs [2, 3]. After standard ultra-pure water (UPW) cleaning, the majority of organic contaminates found were hydrocarbons, plasticizers, silicones, and solvents. Hydro-carbons loads (> C7) ranged from 1.9 to 11.8 ng/cm2 for TD-GC-MS wafer exposure analyses and 5.0 to 19.5 ng/L for TD-GC-MS adsorbent tube exposure. Plasticizers included nano grade solution), and heat sterilization at 130degC for 48 hours to reduce organic contamination. In addition, both heat sterilization and peracetic acid sterilization were used in the atmospheric de-contamination (R) cabinets. Later, Lunar curation gloveboxes were degreased with a pressurized Freon 113 wash. Today, UPW has replaced Freon as the standard cleaning procedure, but does not have the degreasing solvency power of Freon. Future Cleaning Studies: Cleaning experiments are cur-rently being orchestrated to study how to degrease and reduce organics in a JSC curation glovebox lower than the established baseline. Several new chemicals in the industry have replaced traditional degreasing solvents such as Freon and others that are now federally

  5. [The evaluating time of curative effect on sudden deafness].

    Science.gov (United States)

    Liu, Yangyun; Jiang, Wen; Mao, Kunhua; Chen, Qiong

    2012-04-01

    To explore the best evaluating time of curative effect on sudden deafness so that the curative effect on sudden deafness can been evaluated more exactly and literally. Pure tone audiometries in 112 cases of sudden deafness were performed on the pretreatment day and on the third, seventh, fourteenth post-treatment day, and in the first, second, third, fourth post-treatment month. All of acoustical data were analyzed. The total effective rates were statistical different between the third, seventh post-treatment day and the fourteenth post-treatment day, the first, second, third, fourth post-treatment month. There were no statistical difference between the fourteenth post-treatment day and the first post-treatment month. There were statistical difference between the fourteenth post-treatment day and the second, third, fourth post-treatment month. The total effective rates were no statistical difference between the first and the second, third, fourth post-treatment month but it was fluctuated in the first post-treatment month. The total effective rates were no statistical difference between the second and the third, fourth post-treatment month and it was changeless on the second post-treatment month. From the curve of recruitment of hearing in different time, the curve of the total effective rates ascend from the third post-treatment day, then get to plateau from the second post-treatment month. If the cure rates, the efficiency rates, the effective rates in different time were analyzed, respectively, the hearing improvement ascend in first two weeks then. Hearing improvement get to plateau from fourteenth post-treatment day. (1) The evaluated results of curative effect to sudden deafness correlated vary in different time point post-treatment. (2) Prognosis can be predicted approximately 2 weeks after treatment. Patients who recover acoustic sensibility within 2 weeks have more significant improvement than the patients who hearing improvement after 2 weeks treatment

  6. Urinary Biomarkers KIM-1 and NGAL for Detection of Chronic Kidney Disease of Uncertain Etiology (CKDu among Agricultural Communities in Sri Lanka.

    Directory of Open Access Journals (Sweden)

    Pallagae Mangala C S De Silva

    2016-09-01

    Full Text Available Chronic Kidney Disease of uncertain etiology (CKDu is an emerging epidemic among farming communities in rural Sri Lanka. Victims do not exhibit common causative factors, however, histopathological studies revealed that CKDu is a tubulointerstitial disease. Urine albumin or albumin-creatinine ratio is still being used as a traditional diagnostic tool to identify CKDu, but accuracy and prevalence data generated are questionable. Urinary biomarkers have been used in similar nephropathy and are widely recognised for their sensitivity, specificity and accuracy in determining CKDu and early renal injury. However, these biomarkers have never been used in diagnosing CKDu in Sri Lanka. Male farmers (n = 1734 were recruited from 4 regions in Sri Lanka i.e. Matara and Nuwara Eliya (farming locations with no CKDu prevalence and two CKDu emerging locations from Hambantota District in Southern Sri Lanka; Angunakolapelessa (EL1 and Bandagiriya (EL2. Albuminuria (ACR ≥ 30mg/g; serum creatinine based estimation of glomerular filtration rate (eGFR; creatinine normalized urinary kidney injury molecule (KIM-1 and neutrophil gelatinase-associated lipocalin (NGAL were measured. Fourteen new CKDu cases (18% from EL1 and nine CKDu cases (9% from EL2 were recognized for the first time from EL1, EL2 locations, which were previously considered as non-endemic of the disease and associated with persistent albuminuria (ACR ≥ 30mg/g Cr. No CKDu cases were identified in non-endemic study locations in Matara (CM and Nuwara Eliya (CN. Analysis of urinary biomarkers showed urinary KIM-1 and NGAL were significantly higher in new CKDu cases in EL1 and EL2. However, we also reported significantly higher KIM-1 and NGAL in apparently healthy farmers in EL 1 and EL 2 with comparison to both control groups. These observations may indicate possible early renal damage in absence of persistent albuminuria and potential capabilities of urinary KIM-1 and NGAL in early detection of renal

  7. Curating NASA's Astromaterials Collections: Past, Present, and Future

    Science.gov (United States)

    Zeigler, Ryan

    2015-01-01

    Planning for the curation of samples from future sample return missions must begin during the initial planning stages of a mission. Waiting until the samples have been returned to Earth, or even when you begin to physically build the spacecraft is too late. A lack of proper planning could lead to irreversible contamination of the samples, which in turn would compromise the scientific integrity of the mission. For example, even though the Apollo missions first returned samples in 1969, planning for the curation facility began in the early 1960s, and construction of the Lunar Receiving Laboratory was completed in 1967. In addition to designing the receiving facility and laboratory that the samples will be characterized and stored in, there are many aspects of contamination that must be addressed during the planning and building of the spacecraft: planetary protection (both outbound and inbound); cataloging, documenting, and preserving the materials used to build spacecraft (also known as coupons); near real-time monitoring of the environment in which the spacecraft is being built using witness plates for critical aspects of contamination (known as contamination control); and long term monitoring and preservation of the environment in which the spacecraft is being built for most aspects of potential contamination through the use of witness plates (known as contamination knowledge). The OSIRIS REx asteroid sample return mission, currently being built, is dealing with all of these aspects of contamination in order to ensure they return the best preserved sample possible. Coupons and witness plates from OSIRIS REx are currently being studied and stored (for future studies) at the Johnson Space Center. Similarly, planning for the clean room facility at Johnson Space Center to house the OSIRIS-REx samples is well advanced, and construction of the facility should begin in early 2017 (despite a nominal 2023 return date for OSIRIS-REx samples). Similar development is being

  8. Report from the DCC Workshop: Legal Environment of Digital Curation

    Directory of Open Access Journals (Sweden)

    Angus Whyte

    2007-12-01

    Full Text Available This is a report from the Legal Environment of Digital Curation workshop held at Glasgow University on November 23, 2007. The event provided an overview of legal considerations for non-legal professionals who work with data, focusing especially on intellectual property rights and licensing, data protection, freedom of information and privacy, and data as evidence. The workshop was organised in conjunction with the SCRIPT-ed journal of law and technology, and supported by JISC, the AHRC and Edinburgh University.

  9. Advanced Curation Activities at NASA: Implications for Astrobiological Studies of Future Sample Collections

    Science.gov (United States)

    McCubbin, F. M.; Evans, C. A.; Fries, M. D.; Harrington, A. D.; Regberg, A. B.; Snead, C. J.; Zeigler, R. A.

    2017-01-01

    The Astromaterials Acquisition and Curation Office (henceforth referred to herein as NASA Curation Office) at NASA Johnson Space Center (JSC) is responsible for curating all of NASA's extraterrestrial samples. Under the governing document, NASA Policy Directive (NPD) 7100.10F JSC is charged with curation of all extraterrestrial material under NASA control, including future NASA missions. The Directive goes on to define Curation as including documentation, preservation, preparation, and distribution of samples for re-search, education, and public outreach. Here we briefly describe NASA's astromaterials collections and our ongoing efforts related to enhancing the utility of our current collections as well as our efforts to prepare for future sample return missions. We collectively refer to these efforts as advanced curation.

  10. Strategies towards digital and semi-automated curation in RegulonDB.

    Science.gov (United States)

    Rinaldi, Fabio; Lithgow, Oscar; Gama-Castro, Socorro; Solano, Hilda; Lopez, Alejandra; Muñiz Rascado, Luis José; Ishida-Gutiérrez, Cecilia; Méndez-Cruz, Carlos-Francisco; Collado-Vides, Julio

    2017-01-01

    Experimentally generated biological information needs to be organized and structured in order to become meaningful knowledge. However, the rate at which new information is being published makes manual curation increasingly unable to cope. Devising new curation strategies that leverage upon data mining and text analysis is, therefore, a promising avenue to help life science databases to cope with the deluge of novel information. In this article, we describe the integration of text mining technologies in the curation pipeline of the RegulonDB database, and discuss how the process can enhance the productivity of the curators. Specifically, a named entity recognition approach is used to pre-annotate terms referring to a set of domain entities which are potentially relevant for the curation process. The annotated documents are presented to the curator, who, thanks to a custom-designed interface, can select sentences containing specific types of entities, thus restricting the amount of text that needs to be inspected. Additionally, a module capable of computing semantic similarity between sentences across the entire collection of articles to be curated is being integrated in the system. We tested the module using three sets of scientific articles and six domain experts. All these improvements are gradually enabling us to obtain a high throughput curation process with the same quality as manual curation. © The Author 2017. Published by Oxford University Press.

  11. Virtual Collections: An Earth Science Data Curation Service

    Science.gov (United States)

    Bugbee, K.; Ramachandran, R.; Maskey, M.; Gatlin, P. N.

    2016-12-01

    The role of Earth science data centers has traditionally been to maintain central archives that serve openly available Earth observation data. However, in order to ensure data are as useful as possible to a diverse user community, Earth science data centers must move beyond simply serving as an archive to offering innovative data services to user communities. A virtual collection, the end product of a curation activity that searches, selects, and synthesizes diffuse data and information resources around a specific topic or event, is a data curation service that improves the discoverability, accessibility and usability of Earth science data and also supports the needs of unanticipated users. Virtual collections minimize the amount of time and effort needed to begin research by maximizing certainty of reward and by providing a trustworthy source of data for unanticipated users. This presentation will define a virtual collection in the context of an Earth science data center and will highlight a virtual collection case study created at the Global Hydrology Resource Center data center.

  12. Site-based data curation based on hot spring geobiology

    Science.gov (United States)

    Palmer, Carole L.; Thomer, Andrea K.; Baker, Karen S.; Wickett, Karen M.; Hendrix, Christie L.; Rodman, Ann; Sigler, Stacey; Fouke, Bruce W.

    2017-01-01

    Site-Based Data Curation (SBDC) is an approach to managing research data that prioritizes sharing and reuse of data collected at scientifically significant sites. The SBDC framework is based on geobiology research at natural hot spring sites in Yellowstone National Park as an exemplar case of high value field data in contemporary, cross-disciplinary earth systems science. Through stakeholder analysis and investigation of data artifacts, we determined that meaningful and valid reuse of digital hot spring data requires systematic documentation of sampling processes and particular contextual information about the site of data collection. We propose a Minimum Information Framework for recording the necessary metadata on sampling locations, with anchor measurements and description of the hot spring vent distinct from the outflow system, and multi-scale field photography to capture vital information about hot spring structures. The SBDC framework can serve as a global model for the collection and description of hot spring systems field data that can be readily adapted for application to the curation of data from other kinds scientifically significant sites. PMID:28253269

  13. On Curating Multimodal Sensory Data for Health and Wellness Platforms

    Science.gov (United States)

    Amin, Muhammad Bilal; Banos, Oresti; Khan, Wajahat Ali; Muhammad Bilal, Hafiz Syed; Gong, Jinhyuk; Bui, Dinh-Mao; Cho, Soung Ho; Hussain, Shujaat; Ali, Taqdir; Akhtar, Usman; Chung, Tae Choong; Lee, Sungyoung

    2016-01-01

    In recent years, the focus of healthcare and wellness technologies has shown a significant shift towards personal vital signs devices. The technology has evolved from smartphone-based wellness applications to fitness bands and smartwatches. The novelty of these devices is the accumulation of activity data as their users go about their daily life routine. However, these implementations are device specific and lack the ability to incorporate multimodal data sources. Data accumulated in their usage does not offer rich contextual information that is adequate for providing a holistic view of a user’s lifelog. As a result, making decisions and generating recommendations based on this data are single dimensional. In this paper, we present our Data Curation Framework (DCF) which is device independent and accumulates a user’s sensory data from multimodal data sources in real time. DCF curates the context of this accumulated data over the user’s lifelog. DCF provides rule-based anomaly detection over this context-rich lifelog in real time. To provide computation and persistence over the large volume of sensory data, DCF utilizes the distributed and ubiquitous environment of the cloud platform. DCF has been evaluated for its performance, correctness, ability to detect complex anomalies, and management support for a large volume of sensory data. PMID:27355955

  14. Strategies for the Curation of CAD Engineering Models

    Directory of Open Access Journals (Sweden)

    Manjula Patel

    2009-06-01

    Full Text Available Normal 0 Product Lifecycle Management (PLM has become increasingly important in the engineering community over the last decade or so, due to the globalisation of markets and the rising popularity of products provided as services. It demands the efficient capture, representation, organisation, retrieval and reuse of product data over its entire life. Simultaneously, there is now a much greater reliance on CAD models for communicating designs to manufacturers, builders, maintenance crews and regulators, and for definitively expressing designs. Creating the engineering record digitally, however, presents problems not only for its long-term maintenance and accessibility - due in part to the rapid obsolescence of the hardware, software and file formats involved - but also for recording the evolution of designs, artefacts and products. We examine the curation and preservation requirements in PLM and suggest ways of alleviating the problems of sustaining CAD engineering models through the use of lightweight formats, layered annotation and the collection of Representation Information as defined in the Open Archival Information System (OAIS Reference Model.  We describe two tools which have been specifically developed to aid in the curation of CAD engineering models in the context of PLM: Lightweight Models with Multilayered Annotation (LiMMA and a Registry/Repository of Representation Information for Engineering (RRoRIfE.

  15. A comprehensive curated resource for follicle stimulating hormone signaling

    Directory of Open Access Journals (Sweden)

    Sharma Jyoti

    2011-10-01

    Full Text Available Abstract Background Follicle stimulating hormone (FSH is an important hormone responsible for growth, maturation and function of the human reproductive system. FSH regulates the synthesis of steroid hormones such as estrogen and progesterone, proliferation and maturation of follicles in the ovary and spermatogenesis in the testes. FSH is a glycoprotein heterodimer that binds and acts through the FSH receptor, a G-protein coupled receptor. Although online pathway repositories provide information about G-protein coupled receptor mediated signal transduction, the signaling events initiated specifically by FSH are not cataloged in any public database in a detailed fashion. Findings We performed comprehensive curation of the published literature to identify the components of FSH signaling pathway and the molecular interactions that occur upon FSH receptor activation. Our effort yielded 64 reactions comprising 35 enzyme-substrate reactions, 11 molecular association events, 11 activation events and 7 protein translocation events that occur in response to FSH receptor activation. We also cataloged 265 genes, which were differentially expressed upon FSH stimulation in normal human reproductive tissues. Conclusions We anticipate that the information provided in this resource will provide better insights into the physiological role of FSH in reproductive biology, its signaling mediators and aid in further research in this area. The curated FSH pathway data is freely available through NetPath (http://www.netpath.org, a pathway resource developed previously by our group.

  16. Patient surveillance after curative-intent surgery for rectal cancer.

    Science.gov (United States)

    Johnson, Frank E; Longo, Walter E; Ode, Kenichi; Shariff, Umar S; Papettas, Trifonas; McGarry, Alaine E; Gammon, Steven R; Lee, Paul A; Audisio, Riccardo A; Grossmann, Erik M; Virgo, Katherine S

    2005-09-01

    The follow-up of patients with rectal cancer after potentially curative resection has significant financial and clinical implications for patients and society. The ideal regimen for monitoring patients is unknown. We evaluated the self-reported practice patterns of a large, diverse group of experts. There is little information available describing the actual practice of clinicians who perform potentially curative surgery on rectal cancer patients and follow them after recovery. The 1795 members of the American Society of Colon and Rectal Surgeons were asked, via a detailed questionnaire, how often they request 14 discrete follow-up modalities in their patients treated for cure with TNM stage I, II, or III rectal cancer over the first five post-treatment years. 566/1782 (32%) responded and 347 of the respondents (61%) provided evaluable data. Members of the American Society of Colon and Rectal Surgeons typically follow their own patients postoperatively rather than sending them back to their referral source. Office visit and serum CEA level are the most frequently requested items for each of the first five postoperative years. Endoscopy and imaging tests are also used regularly. Considerable variation exists among these highly experienced, highly credentialed experts. The surveillance strategies reported here rely most heavily on relatively simple and inexpensive tests. Endoscopy is employed frequently; imaging tests are employed less often. The observed variation in the intensity of postoperative monitoring is of concern.

  17. PDS4 - Some Principles for Agile Data Curation

    Science.gov (United States)

    Hughes, J. S.; Crichton, D. J.; Hardman, S. H.; Joyner, R.; Algermissen, S.; Padams, J.

    2015-12-01

    PDS4, a research data management and curation system for NASA's Planetary Science Archive, was developed using principles that promote the characteristics of agile development. The result is an efficient system that produces better research data products while using less resources (time, effort, and money) and maximizes their usefulness for current and future scientists. The key principle is architectural. The PDS4 information architecture is developed and maintained independent of the infrastructure's process, application and technology architectures. The information architecture is based on an ontology-based information model developed to leverage best practices from standard reference models for digital archives, digital object registries, and metadata registries and capture domain knowledge from a panel of planetary science domain experts. The information model provides a sharable, stable, and formal set of information requirements for the system and is the primary source for information to configure most system components, including the product registry, search engine, validation and display tools, and production pipelines. Multi-level governance is also allowed for the effective management of the informational elements at the common, discipline, and project level. This presentation will describe the development principles, components, and uses of the information model and how an information model-driven architecture exhibits characteristics of agile curation including early delivery, evolutionary development, adaptive planning, continuous improvement, and rapid and flexible response to change.

  18. On Curating Multimodal Sensory Data for Health and Wellness Platforms

    Directory of Open Access Journals (Sweden)

    Muhammad Bilal Amin

    2016-06-01

    Full Text Available In recent years, the focus of healthcare and wellness technologies has shown a significant shift towards personal vital signs devices. The technology has evolved from smartphone-based wellness applications to fitness bands and smartwatches. The novelty of these devices is the accumulation of activity data as their users go about their daily life routine. However, these implementations are device specific and lack the ability to incorporate multimodal data sources. Data accumulated in their usage does not offer rich contextual information that is adequate for providing a holistic view of a user’s lifelog. As a result, making decisions and generating recommendations based on this data are single dimensional. In this paper, we present our Data Curation Framework (DCF which is device independent and accumulates a user’s sensory data from multimodal data sources in real time. DCF curates the context of this accumulated data over the user’s lifelog. DCF provides rule-based anomaly detection over this context-rich lifelog in real time. To provide computation and persistence over the large volume of sensory data, DCF utilizes the distributed and ubiquitous environment of the cloud platform. DCF has been evaluated for its performance, correctness, ability to detect complex anomalies, and management support for a large volume of sensory data.

  19. Extracorporeal shock waves as curative therapy for varicose veins?

    Directory of Open Access Journals (Sweden)

    Fiorenzo Angehrn

    2008-03-01

    Full Text Available Fiorenzo Angehrn1, Christoph Kuhn1, Ortrud Sonnabend2, Axel Voss31Klinik Piano, Biel, Switzerland; 2Pathodiagnostics, Herisau, Switzerland; 3SwiTech Medical AG, Kreuzlingen, SwitzerlandAbstract: In this prospective design study the effects of low-energy partially focused extracorporeal generated shock waves (ESW onto a subcutaneous located varicose vein – left vena saphena magna (VSM – are investigated. The treatment consisted of 4 ESW applications within 21 days. The varicose VSM of both sides were removed by surgery, and samples analyzed comparing the treated and untreated by means of histopathology. No damage to the treated varicose vein in particular and no mechanical destruction to the varicose vein’s wall could be demonstrated. However, an induction of neo-collagenogenesis was observed. The thickness of the varicose vein’s wall increased. Optimization of critical application parameters by investigating a larger number of patients may turn ESW into a non-invasive curative varicose treatment.Keywords: curative therapy, extra-cellular matrix (ECM, histopathologic changes of varicose veins, extracorporeal shock wave (ESW, progenitor cells

  20. Curation Pedagogy for Media Studies: (Further Towards the Inexpert

    Directory of Open Access Journals (Sweden)

    Ben Andrews

    2012-12-01

    Full Text Available An educational ‘model’ for participatory learning and media literacy in the contemporary context of digitally mediated lifeworlds is emerging (Jenkins, 2010; Gauntlett, 2011; Fraser and Wardle, 2011. The critical problem, we argue, for its ‘adequacy’ is the privilege granted to curriculum content and skills over pedagogy. Elsewhere, we offered a ‘pedagogy of the inexpert’ as such a model for textconscious disciplines such as, but not restricted to, Media Studies. This strategy removes ‘the media’ from our gaze and looks awry to develop new ways of working with students – to ‘show and tell’ textual agency and more reflexive deconstruction of what it is to read and make media, and to ‘be’ in mediation. In this article, we develop this approach further towards a model of ‘curation’. Understood in this way, students ‘show’ media literacy in new spaces – not by recourse to skills, competences or analytical unmasking of the properties of a (contained text, but by exhibiting, by curating a moment in time of textual meaningmaking and meaning-taking, but with a mindfulness – a critical acceptance of such an attempt to hold and curate the flow of meaning as an artifice.

  1. Improved Functionality and Curation Support in the ADS

    Science.gov (United States)

    Accomazzi, Alberto; Kurtz, Michael J.; Henneken, Edwin A.; Grant, Carolyn S.; Thompson, Donna; Chyla, Roman; Holachek, Alexandra; Sudilovsky, Vladimir; Murray, Stephen S.

    2015-01-01

    In this poster we describe the developments of the new ADS platform over the past year, focusing on the functionality which improves its discovery and curation capabilities.The ADS Application Programming Interface (API) is being updated to support authenticated access to the entire suite of ADS services, in addition to the search functionality itself. This allows programmatic access to resources which are specific to a user or class of users.A new interface, built directly on top of the API, now provides a more intuitive search experience and takes into account the best practices in web usability and responsive design. The interface now incorporates in-line views of graphics from the AAS Astroexplorer and the ADS All-Sky Survey image collections.The ADS Private Libraries, first introduced over 10 years ago, are now being enhanced to allow the bookmarking, tagging and annotation of records of interest. In addition, libraries can be shared with one or more ADS users, providing an easy way to collaborate in the curation of lists of papers. A library can also be explicitly made public and shared at large via the publishing of its URL.In collaboration with the AAS, the ADS plans to support the adoption of ORCID identifiers by implementing a plugin which will simplify the import of papers in ORCID via a query to the ADS API. Deeper integration between the two systems will depend on available resources and feedback from the community.

  2. Virtual Collections: An Earth Science Data Curation Service

    Science.gov (United States)

    Bugbee, Kaylin; Ramachandran, Rahul; Maskey, Manil; Gatlin, Patrick

    2016-01-01

    The role of Earth science data centers has traditionally been to maintain central archives that serve openly available Earth observation data. However, in order to ensure data are as useful as possible to a diverse user community, Earth science data centers must move beyond simply serving as an archive to offering innovative data services to user communities. A virtual collection, the end product of a curation activity that searches, selects, and synthesizes diffuse data and information resources around a specific topic or event, is a data curation service that improves the discoverability, accessibility, and usability of Earth science data and also supports the needs of unanticipated users. Virtual collections minimize the amount of the time and effort needed to begin research by maximizing certainty of reward and by providing a trustworthy source of data for unanticipated users. This presentation will define a virtual collection in the context of an Earth science data center and will highlight a virtual collection case study created at the Global Hydrology Resource Center data center.

  3. Experimental study for Yuen-Kim protocol of quantum key distribution with unconditional secure Bell's Theorem Without Inequalities for two Maximally Entangled Particles

    CERN Document Server

    Hirota, O; Sohma, M; Li Ming Wei; Tang, Z L; Liao, C C

    2002-01-01

    In this report, we simulate practical feature of Yuen-Kim protocol for quantum key distribution with unconditional secure. In order to demonstrate them experimentally by intensity modulation/direct detection(IMDD) optical fiber communication system, we use simplified encoding scheme to guarantee security for key information(1 or 0). That is, pairwise M-ary intensity modulation scheme is employed. Furthermore, we give an experimental implementation of YK protocol based on IMDD. A proof of Bell's theorem without inequalities for two maximally entangled particles is proposed using the technique of quantum teleportation. It follows Hardy's arguments for a non-maximally entangled state with the help of two auxiliary particles without correlation. The present proof can be tested by measurements with 100% probability.

  4. Changes of urinary L-FABP, KIM-1, NGAL and serum cystatin C in diabetic nephropathy and its clinical value%尿L-FABP、KIM-1、NGAL和血清cystatin C在糖尿病肾病中的变化及意义

    Institute of Scientific and Technical Information of China (English)

    梁雅灵; 杨茂君; 李衍辉; 黎秋晗; 黄炜; 徐勇

    2016-01-01

    Objective To investigate the changes of urinary liver-type fatty acid binding protein (L-FABP),kidney injury molecule-1 (KIM-1),neutrophil gelatinase-associated lipocalin (NGAL) and serum cystatin C in diabetic nephropathy and its clinical value.Methods A total of 118 patients diagnosed with type 2 diabetes in the Department of Endocrinology of Affiliated Hospital of Sichuan Medical University from October 2011 to October 2012 were recruited in this study.According to their urinary albumin-to-creatinine ratio(UACR),patients were divided into normal albuminuria group(n =45),microalbuminuria group (n =42),and macroalbuminuria group (n =43).A total of 41 healthy subjects were enrolled as normal control group(n =41).Enzyme-linked immunosorbent assays were used to measure the levels of urinary L-FABP,KIM-1 and NGAL.Turbidimetric inhibition immuno-assay was used to measure the expression of serum cystatin C.All the urinary indicators were adjusted by the level of urine creatinine.Changes of biomarkers in each group and their crrelations between UACR,eGFR were also compared.Results Compared with normal control group,urinary L-FABP and serum cystatin C were significantly increased in diabetic groups (x2 =77.959,104.003,all P < 0.05);urinary KIM-1 was also significantly increased (x2 =29.711,P < 0.05).Urinary NGAL was increased in microalbuminuria group and macroalbuminuria group compared with normal control group and normal albuminuria group(x2 =23.833,P < 0.05),but there were no significant difference between normal albuminuria group and normal control group.Urinary L-FABP,KIM-1,NGAL and serum cystatin C were positively correlated with UACR (r =0.719,0.427,0.327,0.726,all P < 0.01);while L-FABP and serum cystatin C were negatively correlated with eGFR (r =-0.301,-0.791,all P < 0.01).Conclusion Urinary L-FABP,KIM-1,NGAL and serum cystatin C are increased in early diabetic nephropathy,while urinary L-FABP and serum cystatin C may be the better biomarkers to

  5. The prevalence of musculoskeletal disorders and occupational risk factors in Kashan SAIPA automobile industry workers by key indicator method (KIM, 1390

    Directory of Open Access Journals (Sweden)

    2012-05-01

    Full Text Available Introduction: work related musculoskeletal disorders are the most wide spread type of occupational diseases among workers. Awkward body postures during work and manual material handling are among the most important risk factors of musculoskeletal disorders in different jobs. Due to importance of recognizing these factors prevalence and risk factor of work related musculoskeletal disorders, this research was aimed to study the among employees of Kashan City’s Saipa automobile industry in 2011. .Material and Method: This study is a descriptive-cross sectional study conducted among workers with manual material handling 37 activities and 84 work duties. To recognize musculoskeletal disorders, body map questionnaire was applied and occupational risk factors were evaluated using Key Index Method (KIM. Data was analyzed using SPSS and Excel software. .Result: Highest prevalence of musculoskeletal disorders was in low and upper back region (%92. Based on the results from KIM, workers in the installing the tire, shuttle-aided fitting of seat, and engine work station had higher risk level with the scores of 66, 52 and 52, respectively. Risk level among three individuals (%3.6 was at 1, 40 (%47.6 at 2, 38 (%45.2 risk level 3, and 3 (%3.6 at 4. .Conclusion: Awkward body posture, improper twisting and flexion of low back were major risk factor among worker doing manual material handling tasks. Regarding the high prevalence of musculoskeletal disorders, appropriate ergonomic interventions such as engineering and organization interactions can reduce this risk factors (posture, heavy load, duration, workplace conditions as much as the risk level reach to an acceptable level.

  6. THE ENTROPY OF A KIM BLACK HOLE AND THE NERNST THEOREM%Kim黑洞熵与能斯特定理

    Institute of Scientific and Technical Information of China (English)

    赵仁; 张丽春

    2001-01-01

    We start with Klein-Gordon equation on the background of the Kim black hole and calculate the free energy and entropy of a scalar field by the brick-wall method. It is shown that the entropy is not only related to the area of an outer horizon but also is a function of inner horizon's area. Taking some appr oximation, we can obtain that the entropy only is proportional to the area of an outer horizon. Further more, the entropy expressed by location parameter of the outer and inner horizon approaches zero, when the radiation temperature of a black hole approaches zero. This satisfies the Nernst theorem. It can be taken as Planck absolute entropy of a black hole.%从Kim 时空背景下的 Klein-Gordon 方程出发,利用 brick-wall 方法计算标量场的自由能和熵.得到标量场的熵不仅与黑洞的外视界面积有关,而且也是内视界面积的函数.所得结论,当取某种近似时,可得到熵只与外视界面积成正比的关系.并且表明,用内外视界位置参量表达的熵,在黑洞辐射温度趋于绝对零度时,黑洞的熵也趋于零,它满足能斯特定理,可视为黑洞的普朗克绝对熵.

  7. Transcriptional analysis of kidneys during repair from AKI reveals possible roles for NGAL and KIM-1 as biomarkers of AKI-to-CKD transition.

    Science.gov (United States)

    Ko, Gang Jee; Grigoryev, Dmitry N; Linfert, Douglas; Jang, Hye Ryoun; Watkins, Tonya; Cheadle, Chris; Racusen, Lorraine; Rabb, Hamid

    2010-06-01

    Acute kidney injury (AKI) is being increasingly shown to be a risk factor for chronic kidney disease (CKD), but little is known about the possible mechanistic links. We hypothesized that analysis of the genomic signature in the repair stage after AKI would reveal pathways that could link AKI and CKD. Unilateral renal pedicle clamping for 45 min was performed in male C57BL/6J mice. Mice were euthanized at 3, 10, and 28 days after ischemia-reperfusion injury (IRI). Total RNA was isolated from kidney and analyzed using an Illumina mouse array. Among 24,600 tested genes, 242, 146, and 46 genes were upregulated at days 3, 10, and 28 after IRI, and 85, 35, and 0 genes were downregulated, respectively. Gene ontology analysis showed that gene expression changes were primarily related to immune and inflammatory pathways both early and late after AKI. The most highly upregulated genes late after AKI were hepatitis A virus cellular receptor 1 (Havcr1) and lipocalin 2 (Lcn2), which code for kidney injury molecule-1 (KIM-1) and neutrophil gelatinase-associated lipocalin (NGAL), respectively. This was unexpected since they are both primarily potential biomarkers of the early stage of AKI. Furthermore, increases observed in gene expression in amiloride binding protein 1, vascular cell adhesion molecule-1, and endothelin 1 could explain the salt-sensitive hypertension that can follow AKI. These data suggested that 1) persistent inflammation and immune responses late after AKI could contribute to the pathogenesis of CKD, 2) late upregulation of KIM-1 and NGAL could be a useful marker for sustained renal injury after AKI, and 3) hypertension-related gene changes could underlie mechanisms for persistent renal and vascular injury after AKI.

  8. Curation of viral genomes: challenges, applications and the way forward

    Directory of Open Access Journals (Sweden)

    Joshi Manali

    2006-12-01

    Full Text Available Abstract Background Whole genome sequence data is a step towards generating the 'parts list' of life to understand the underlying principles of Biocomplexity. Genome sequencing initiatives of human and model organisms are targeted efforts towards understanding principles of evolution with an application envisaged to improve human health. These efforts culminated in the development of dedicated resources. Whereas a large number of viral genomes have been sequenced by groups or individuals with an interest to study antigenic variation amongst strains and species. These independent efforts enabled viruses to attain the status of 'best-represented taxa' with the highest number of genomes. However, due to lack of concerted efforts, viral genomic sequences merely remained as entries in the public repositories until recently. Results VirGen is a curated resource of viral genomes and their analyses. Since its first release, it has grown both in terms of coverage of viral families and development of new modules for annotation and analysis. The current release (2.0 includes data for twenty-five families with broad host range as against eight in the first release. The taxonomic description of viruses in VirGen is in accordance with the ICTV nomenclature. A well-characterised strain is identified as a 'representative entry' for every viral species. This non-redundant dataset is used for subsequent annotation and analyses using sequenced-based Bioinformatics approaches. VirGen archives precomputed data on genome and proteome comparisons. A new data module that provides structures of viral proteins available in PDB has been incorporated recently. One of the unique features of VirGen is predicted conformational and sequential epitopes of known antigenic proteins using in-house developed algorithms, a step towards reverse vaccinology. Conclusion Structured organization of genomic data facilitates use of data mining tools, which provides opportunities for

  9. Science Support: The Building Blocks of Active Data Curation

    Science.gov (United States)

    Guillory, A.

    2013-12-01

    While the scientific method is built on reproducibility and transparency, and results are published in peer reviewed literature, we have come to the digital age of very large datasets (now of the order of petabytes and soon exabytes) which cannot be published in the traditional way. To preserve reproducibility and transparency, active curation is necessary to keep and protect the information in the long term, and 'science support' activities provide the building blocks for active data curation. With the explosive growth of data in all fields in recent years, there is a pressing urge for data centres to now provide adequate services to ensure long-term preservation and digital curation of project data outputs, however complex those may be. Science support provides advice and support to science projects on data and information management, from file formats through to general data management awareness. Another purpose of science support is to raise awareness in the science community of data and metadata standards and best practice, engendering a culture where data outputs are seen as valued assets. At the heart of Science support is the Data Management Plan (DMP) which sets out a coherent approach to data issues pertaining to the data generating project. It provides an agreed record of the data management needs and issues within the project. The DMP is agreed upon with project investigators to ensure that a high quality documented data archive is created. It includes conditions of use and deposit to clearly express the ownership, responsibilities and rights associated with the data. Project specific needs are also identified for data processing, visualization tools and data sharing services. As part of the National Centre for Atmospheric Science (NCAS) and National Centre for Earth Observation (NCEO), the Centre for Environmental Data Archival (CEDA) fulfills this science support role of facilitating atmospheric and Earth observation data generating projects to ensure

  10. The Role of the Curator in Modern Hospitals: A Transcontinental Perspective.

    Science.gov (United States)

    Moss, Hilary; O'Neill, Desmond

    2016-12-13

    This paper explores the role of the curator in hospitals. The arts play a significant role in every society; however, recent studies indicate a neglect of the aesthetic environment of healthcare. This international study explores the complex role of the curator in modern hospitals. Semi-structured interviews were conducted with ten arts specialists in hospitals across five countries and three continents for a qualitative, phenomenological study. Five themes arose from the data: (1) Patient involvement and influence on the arts programme in hospital (2) Understanding the role of the curator in hospital (3) Influences on arts programming in hospital (4) Types of arts programmes (5) Limitations to effective curation in hospital. Recommendations arising from the research included recognition of the specialised role of the curator in hospitals; building positive links with clinical staff to effect positive hospital arts programmes and increasing formal involvement of patients in arts planning in hospital. Hospital curation can be a vibrant arena for arts development, and the role of the hospital curator is a ground-breaking specialist role that can bring benefits to hospital life. The role of curator in hospital deserves to be supported and developed by both the arts and health sectors.

  11. Digital Curation: A Framework to Enhance Adolescent and Adult Literacy Initiatives

    Science.gov (United States)

    Sharma, Sue Ann; Deschaine, Mark E.

    2016-01-01

    Digital curation provides a way to transcend traditional academic fields of study and create instructional materials available to support adolescent and adult literacy initiatives. The instructional capabilities that Web 2.0 tools offer provide curators with the ability to reach audiences in a way that has not been possible in the past. The…

  12. How should the completeness and quality of curated nanomaterial data be evaluated?†

    Science.gov (United States)

    Marchese Robinson, Richard L.; Lynch, Iseult; Peijnenburg, Willie; Rumble, John; Klaessig, Fred; Marquardt, Clarissa; Rauscher, Hubert; Puzyn, Tomasz; Purian, Ronit; Åberg, Christoffer; Karcher, Sandra; Vriens, Hanne; Hoet, Peter; Hoover, Mark D.; Hendren, Christine Ogilvie; Harper, Stacey L.

    2016-01-01

    Nanotechnology is of increasing significance. Curation of nanomaterial data into electronic databases offers opportunities to better understand and predict nanomaterials’ behaviour. This supports innovation in, and regulation of, nanotechnology. It is commonly understood that curated data need to be sufficiently complete and of sufficient quality to serve their intended purpose. However, assessing data completeness and quality is non-trivial in general and is arguably especially difficult in the nanoscience area, given its highly multidisciplinary nature. The current article, part of the Nanomaterial Data Curation Initiative series, addresses how to assess the completeness and quality of (curated) nanomaterial data. In order to address this key challenge, a variety of related issues are discussed: the meaning and importance of data completeness and quality, existing approaches to their assessment and the key challenges associated with evaluating the completeness and quality of curated nanomaterial data. Considerations which are specific to the nanoscience area and lessons which can be learned from other relevant scientific disciplines are considered. Hence, the scope of this discussion ranges from physicochemical characterisation requirements for nanomaterials and interference of nanomaterials with nanotoxicology assays to broader issues such as minimum information checklists, toxicology data quality schemes and computational approaches that facilitate evaluation of the completeness and quality of (curated) data. This discussion is informed by a literature review and a survey of key nanomaterial data curation stakeholders. Finally, drawing upon this discussion, recommendations are presented concerning the central question: how should the completeness and quality of curated nanomaterial data be evaluated? PMID:27143028

  13. JPF 2010, 103, (rolnummer 200.046.608/01, LJN BM3425: benoeming bijzondere curator)

    NARCIS (Netherlands)

    J.H. de Graaf

    2010-01-01

    In geschil zijn in deze zaak de benoeming van een bijzondere curator en de persoon van de bijzondere curator. Bij de (bestreden) beschikking van de Rechtbank ’s-Gravenhage zijn de ouders van de minderjarige van het ouderlijk gezag ontheven en is Jeugdzorg tot voogdes benoemd. Bij de bestreden beschi

  14. "The Day All of the Different Parts of Me Can Come Along": Intersectionality and U.S. Third World Feminism in the Poetry of Pat Parker and Willyce Kim.

    Science.gov (United States)

    Van Ausdall, Mimi Iimuro

    2015-01-01

    This article brings to light the poetry of Pat Parker and Willyce Kim, two key figures within the 1970s and '80s women in print movement. While Parker and Kim have been rightly placed within African-American and Asian-American histories, respectively, and working-class and lesbian-feminist literary histories, their work is most fully understood within the context of U.S. Third World Feminism. Through close readings of poetic form and content in addition to engagement with current debates about intersectionality as a methodology, the article links Kim and Parker's works to central contributions of U.S. Third World Feminism such as intersectionality and power across and within difference that continue to influence feminist theory today.

  15. Sustaining Engineering Informatics: Toward Methods and Metrics for Digital Curation

    Directory of Open Access Journals (Sweden)

    Josh Lubell

    2008-12-01

    Full Text Available Ensuring the long-term usability of engineering informatics (EI artifacts is a challenge, particularly for products with longer lifecycles than the computing hardware and software used for their design and manufacture. Addressing this challenge requires characterizing the nature of EI, defining metrics for EI sustainability, and developing methods for long-term EI curation. In this paper we highlight various issues related to long-term archival of EI and describe the work towards methods and metrics for sustaining EI. We propose an approach to enhance the Open Archival Information System (OAIS functional model to incorporate EI sustainability criteria, Digital Object Prototypes (DOPs, and end user access requirements. We discuss the end user’s requirements from the point of view of reference, reuse and rationale – the “3Rs” – to better understand the level of granularity and abstractions required in the definition of engineering digital objects. Finally we present a proposed case study and experiment.

  16. Orthology prediction methods: a quality assessment using curated protein families.

    Science.gov (United States)

    Trachana, Kalliopi; Larsson, Tomas A; Powell, Sean; Chen, Wei-Hua; Doerks, Tobias; Muller, Jean; Bork, Peer

    2011-10-01

    The increasing number of sequenced genomes has prompted the development of several automated orthology prediction methods. Tests to evaluate the accuracy of predictions and to explore biases caused by biological and technical factors are therefore required. We used 70 manually curated families to analyze the performance of five public methods in Metazoa. We analyzed the strengths and weaknesses of the methods and quantified the impact of biological and technical challenges. From the latter part of the analysis, genome annotation emerged as the largest single influencer, affecting up to 30% of the performance. Generally, most methods did well in assigning orthologous group but they failed to assign the exact number of genes for half of the groups. The publicly available benchmark set (http://eggnog.embl.de/orthobench/) should facilitate the improvement of current orthology assignment protocols, which is of utmost importance for many fields of biology and should be tackled by a broad scientific community. Copyright © 2011 WILEY Periodicals, Inc.

  17. Health promotion, preventive and curative aspects of diseases in astrology.

    Science.gov (United States)

    Sharma, Bhuvnesh Kumar; Subhakta, P K J P; Narayana, A

    2007-01-01

    The whole universe is intermingling into a unit in the period of globalization. Different cultures, life-styles and sciences are co-operating with each other in this situation. World Health Organization is working towards collaborating all prevalent medical sciences for attainment of good health and family welfare for each and every individual by 2020. Astrology is a part of Indian heritage. Astrology means the art of predicting or determining the influence of the planets and stars on human affairs. The origin of this word is from Greek word astron, star + logos (discourse). The account of deeds of good and bad during the present life and previous lives, their consequences of health or ill health during this life i.e. what, when and how the things takes place will be clearly known through Astrology. Highly advanced knowledge related to Astrology on medicine is preserved in Indian scriptures and the knowledge was transmitted from generation to generation. It is also a good source for health promotion, preventive, curative and other medical aspects. Brief direction related to astrological medical aspects is also available in Ayurvedic literature (Carakasamhită, Suśrutasamhhită, Aşţăngasangraha, Aşţăngahŗdaya, Sărngadharasamhită , Băvaprakăśa etc.) Some Ayurvedic practitioners, scholars and scientists realize the need of astrological knowledge related to medicine in the present time. In ancient times physician, astrologer and purŏhita (Hindu priest) simultaneously looked after the health and family welfare of individual, families and country. Astrologer guides medication and suitable time for the better cure of ailments. Even the medicinal herbs were collected and treated at appropriate time for their efficacy. Astrology and Ayurvĕda are inseparable sciences of life. Hence, in this article, a concise astrological evaluation related to health promotion, preventive and curative aspects of Astrology is being presented.

  18. 尿NGAL、KIM-1、L-FABP水平在脓毒症急性肾损伤早期诊断中的临床意义

    Institute of Scientific and Technical Information of China (English)

    许建宁; 徐玉辉; 蓝海兵

    2015-01-01

    目的 探讨尿NGAL、KIM-1、L-FABP水平在脓毒症急性肾损伤(AKI)早期诊断中的临床意义.方法 前瞻性的收集综合ICU的脓毒症患者91例,其中38例合并AKI,通过检测患者尿NGAL、KIM-1、L-FABP水平及血肌酐及尿素氨水平变化,对尿NGAL、KIM-1、L-FABP水平与血肌酐及尿素氮进行相关性分析,通过绘制受试者工作特征曲线(ROC),计算尿NGAL、KIM-1、L-FABP水平在早期诊断脓毒症合并AKI中的敏感性及特异性.结果 观察组患者与对照组相比,尿NGAL、L-FABP水平在诊断前48 h即出现显著升高(P<0.05),尿KIM-1水平在在诊断前24 h即出现显著升高(P<0.05);尿NGAL、KIM-1、L-FABP水平与血肌酐、尿素氮呈正相关性;ROC曲线分析发现,诊断前24h,尿NGAL、L-FABP水平在诊断脓毒症合并AKI时具有较高的敏感性及特异性,诊断前0h,尿KIM-1水平在诊断脓毒症合并AKI时具有较高的敏感性及特异性.结论 尿NGAL、KIM-1、L-FABP水平均在脓毒症早期出现显著升高,可以作为脓毒症AKI早期诊断的指标.

  19. The Nanomaterial Data Curation Initiative: A Collaborative Approach to Assessing, Evaluating, and Advancing the State of the Field

    Science.gov (United States)

    The Nanomaterial Data Curation Initiative (NDCI) explores the critical aspect of data curation within the development of informatics approaches to understanding nanomaterial behavior. Data repositories and tools for integrating and interrogating complex nanomaterial datasets are...

  20. The Nanomaterial Data Curation Initiative: A Collaborative Approach to Assessing, Evaluating, and Advancing the State of the Field

    Science.gov (United States)

    The Nanomaterial Data Curation Initiative (NDCI) explores the critical aspect of data curation within the development of informatics approaches to understanding nanomaterial behavior. Data repositories and tools for integrating and interrogating complex nanomaterial datasets are...

  1. 尿KIM-1对心脏术后急性肾损伤的早期诊断价值

    Institute of Scientific and Technical Information of China (English)

    余春俊; 龚明辉; 谭劲淘; 涂星强; 王涛; 邹小明

    2014-01-01

    目的:评估尿肾损伤分子1(KIM-1)在心脏术后急性肾损伤(AKI)早期诊断中的应用价值。方法通过计算机检索Medline、Cochrane图书馆、EMBASE、Web of Science Database、Elsevier Science Direct Database、 CNKI、VIP数据库、万方数据库,查阅KIM-1早期诊断心脏术后AKI的临床试验,采用诊断精确性研究的质量评估方法(QUADAS)评价文献质量,Stata12.0和Meta-Disc1.4软件进行数据分析。结果共纳入9篇符合标准的诊断性研究,QUADAS得分均﹥9分,Spearman异质性检验r=0.622、 P=0.074,发表偏倚Egger线性回归法定量分析P=0.001;敏感性分析的合并敏感度为0.87(95%CI为0.81~0.92)、P=0.5776、I2=0,特异度为0.78(95%CI为0.74~0.81)、P=0.000、I2=87.1%,阳性似然比为4.07(95%CI为2.70~7.12)、P=0.000、I2=78.2%,阴性似然比为0.19(95%CI为0.13~0.28)、P=0.7303、I2=0.0%,诊断比值比为28.03(95%CI为15.95~49.27)、P=0.8640、I2=0,汇总受试者工作曲线下面积(AUC)为0.9155。结论尿KIM-1在心脏术后(6~12h)诊断AKI的准确性较高。

  2. Urinary Vitamin D Binding Protein and KIM-1 Are Potent New Biomarkers of Major Adverse Renal Events in Patients Undergoing Coronary Angiography.

    Directory of Open Access Journals (Sweden)

    Lyubov Chaykovska

    Full Text Available Vitamin-D-binding protein (VDBP is a low molecular weight protein that is filtered through the glomerulus as a 25-(OH vitamin D 3/VDBP complex. In the normal kidney VDBP is reabsorbed and catabolized by proximal tubule epithelial cells reducing the urinary excretion to trace amounts. Acute tubular injury is expected to result in urinary VDBP loss. The purpose of our study was to explore the potential role of urinary VDBP as a biomarker of an acute renal damage.We included 314 patients with diabetes mellitus or mild renal impairment undergoing coronary angiography and collected blood and urine before and 24 hours after the CM application. Patients were followed for 90 days for the composite endpoint major adverse renal events (MARE: need for dialysis, doubling of serum creatinine after 90 days, unplanned emergency rehospitalization or death.Increased urine VDBP concentration 24 hours after contrast media exposure was predictive for dialysis need (no dialysis: 113.06 ± 299.61 ng/ml, n = 303; need for dialysis: 613.07 ± 700.45 ng/ml, n = 11, Mean ± SD, p<0.001, death (no death during follow-up: 121.41 ± 324.45 ng/ml, n = 306; death during follow-up: 522.01 ± 521.86 ng/ml, n = 8; Mean ± SD, p<0.003 and MARE (no MARE: 112.08 ± 302.00 ng/ml, n = 298; MARE: 506.16 ± 624.61 ng/ml, n = 16, Mean ± SD, p<0.001 during the follow-up of 90 days after contrast media exposure. Correction of urine VDBP concentrations for creatinine excretion confirmed its predictive value and was consistent with increased levels of urinary Kidney Injury Molecule-1 (KIM-1 and baseline plasma creatinine in patients with above mentioned complications. The impact of urinary VDBP and KIM-1 on MARE was independent of known CIN risk factors such as anemia, preexisting renal failure, preexisting heart failure, and diabetes.Urinary VDBP is a promising novel biomarker of major contrast induced nephropathy-associated events 90 days after contrast media exposure.

  3. Towards Narrowing the Curation Gap—Theoretical Considerations and Lessons Learned from Decades of Practice

    Directory of Open Access Journals (Sweden)

    Ana Sesartić

    2016-06-01

    Full Text Available Research as a digital enterprise has created new, often poorly addressed challenges for the management and curation of research to ensure continuity, transparency, and accountability. There is a common misunderstanding that curation can be considered at a later point in the research cycle or delegated or that it is too burdensome or too expensive due to a lack of efficient tools. This creates a curation gap between research practice and curation needs. We argue that this gap can be narrowed if curators provide attractive support that befits research needs and if researchers consistently manage their work according to generic concepts consistently from the beginning. A rather uniquely long-term case study demonstrates how such concepts have helped to pragmatically implement a research practice intentionally using only minimalist tools for sustained, self-contained archiving since 1989. The paper sketches the concepts underlying three core research activities. (i handling of research data, (ii reference management as part of scholarly publishing, and (iii advancing theories through modelling and simulation. These concepts represent a universally transferable best research practice, while technical details are obviously prone to continuous change. We hope it stimulates researchers to manage research similarly and that curators gain a better understanding of the curation challenges research practice actually faces.

  4. MET network in PubMed: a text-mined network visualization and curation system

    Science.gov (United States)

    Dai, Hong-Jie; Su, Chu-Hsien; Lai, Po-Ting; Huang, Ming-Siang; Jonnagaddala, Jitendra; Rose Jue, Toni; Rao, Shruti; Chou, Hui-Jou; Milacic, Marija; Singh, Onkar; Syed-Abdul, Shabbir; Hsu, Wen-Lian

    2016-01-01

    Metastasis is the dissemination of a cancer/tumor from one organ to another, and it is the most dangerous stage during cancer progression, causing more than 90% of cancer deaths. Improving the understanding of the complicated cellular mechanisms underlying metastasis requires investigations of the signaling pathways. To this end, we developed a METastasis (MET) network visualization and curation tool to assist metastasis researchers retrieve network information of interest while browsing through the large volume of studies in PubMed. MET can recognize relations among genes, cancers, tissues and organs of metastasis mentioned in the literature through text-mining techniques, and then produce a visualization of all mined relations in a metastasis network. To facilitate the curation process, MET is developed as a browser extension that allows curators to review and edit concepts and relations related to metastasis directly in PubMed. PubMed users can also view the metastatic networks integrated from the large collection of research papers directly through MET. For the BioCreative 2015 interactive track (IAT), a curation task was proposed to curate metastatic networks among PubMed abstracts. Six curators participated in the proposed task and a post-IAT task, curating 963 unique metastatic relations from 174 PubMed abstracts using MET. Database URL: http://btm.tmu.edu.tw/metastasisway PMID:27242035

  5. Literature curation of protein interactions: measuring agreement across major public databases

    Science.gov (United States)

    Turinsky, Andrei L.; Razick, Sabry; Turner, Brian; Wodak, Shoshana J.

    2010-01-01

    Literature curation of protein interaction data faces a number of challenges. Although curators increasingly adhere to standard data representations, the data that various databases actually record from the same published information may differ significantly. Some of the reasons underlying these differences are well known, but their global impact on the interactions collectively curated by major public databases has not been evaluated. Here we quantify the agreement between curated interactions from 15 471 publications shared across nine major public databases. Results show that on average, two databases fully agree on 42% of the interactions and 62% of the proteins curated from the same publication. Furthermore, a sizable fraction of the measured differences can be attributed to divergent assignments of organism or splice isoforms, different organism focus and alternative representations of multi-protein complexes. Our findings highlight the impact of divergent curation policies across databases, and should be relevant to both curators and data consumers interested in analyzing protein-interaction data generated by the scientific community. Database URL: http://wodaklab.org/iRefWeb PMID:21183497

  6. MET network in PubMed: a text-mined network visualization and curation system.

    Science.gov (United States)

    Dai, Hong-Jie; Su, Chu-Hsien; Lai, Po-Ting; Huang, Ming-Siang; Jonnagaddala, Jitendra; Rose Jue, Toni; Rao, Shruti; Chou, Hui-Jou; Milacic, Marija; Singh, Onkar; Syed-Abdul, Shabbir; Hsu, Wen-Lian

    2016-01-01

    Metastasis is the dissemination of a cancer/tumor from one organ to another, and it is the most dangerous stage during cancer progression, causing more than 90% of cancer deaths. Improving the understanding of the complicated cellular mechanisms underlying metastasis requires investigations of the signaling pathways. To this end, we developed a METastasis (MET) network visualization and curation tool to assist metastasis researchers retrieve network information of interest while browsing through the large volume of studies in PubMed. MET can recognize relations among genes, cancers, tissues and organs of metastasis mentioned in the literature through text-mining techniques, and then produce a visualization of all mined relations in a metastasis network. To facilitate the curation process, MET is developed as a browser extension that allows curators to review and edit concepts and relations related to metastasis directly in PubMed. PubMed users can also view the metastatic networks integrated from the large collection of research papers directly through MET. For the BioCreative 2015 interactive track (IAT), a curation task was proposed to curate metastatic networks among PubMed abstracts. Six curators participated in the proposed task and a post-IAT task, curating 963 unique metastatic relations from 174 PubMed abstracts using MET.Database URL: http://btm.tmu.edu.tw/metastasisway. © The Author(s) 2016. Published by Oxford University Press.

  7. Genesis Contingency Planning and Mishap Recovery: The Sample Curation View

    Science.gov (United States)

    Stansbery, E. K.; Allton, J. H.; Allen, C. C.; McNamara, K. M.; Calaway, M.; Rodriques, M. C.

    2007-01-01

    Planning for sample preservation and curation was part of mission design from the beginning. One of the scientific objectives for Genesis included collecting samples of three regimes of the solar wind in addition to collecting bulk solar wind during the mission. Collectors were fabricated in different thicknesses for each regime of the solar wind and attached to separate frames exposed to the solar wind during specific periods of solar activity associated with each regime. The original plan to determine the solar regime sampled for specific collectors was to identify to which frame the collector was attached. However, the collectors were dislodged during the hard landing making identification by frame attachment impossible. Because regimes were also identified by thickness of the collector, the regime sampled is identified by measuring fragment thickness. A variety of collector materials and thin films applied to substrates were selected and qualified for flight. This diversity provided elemental measurement in more than one material, mitigating effects of diffusion rates and/or radiation damage. It also mitigated against different material and substrate strengths resulting in differing effects of the hard landing. For example, silicon crystal substrates broke into smaller fragments than sapphire-based substrates and diamond surfaces were more resilient to flying debris damage than gold. The primary responsibility of the curation team for recovery was process documentation. Contingency planning for the recovery phase expanded this responsibility to include not only equipment to document, but also gather, contain and identify samples from the landing area and the recovered spacecraft. The team developed contingency plans for various scenarios as part of mission planning that included topographic maps to aid in site recovery and identification of different modes of transport and purge capability depending on damage. A clean tent, set-up at Utah Test & Training Range

  8. Organic Contamination Baseline Study: In NASA JSC Astromaterials Curation Laboratories. Summary Report

    Science.gov (United States)

    Calaway, Michael J.

    2013-01-01

    In preparation for OSIRIS-REx and other future sample return missions concerned with analyzing organics, we conducted an Organic Contamination Baseline Study for JSC Curation Labsoratories in FY12. For FY12 testing, organic baseline study focused only on molecular organic contamination in JSC curation gloveboxes: presumably future collections (i.e. Lunar, Mars, asteroid missions) would use isolation containment systems over only cleanrooms for primary sample storage. This decision was made due to limit historical data on curation gloveboxes, limited IR&D funds and Genesis routinely monitors organics in their ISO class 4 cleanrooms.

  9. Study on the Muon Background in the Underground Laboratory of KIMS%KIMS地下实验中μ子本底的研究

    Institute of Scientific and Technical Information of China (English)

    朱敬军; S.S.Myung; M.J.Lee; S.C.Kim; S.K.Kim; J.I.Lee; Y.D.Kim; M.J.Hwang; Y.J.Kwon; I.S.Hahn; H.J.Kim; 康克军; 李元景; 李金; J.W.Kwak; H.Bhang; S.Y.Kim; H.S.Lee; J.Lee

    2005-01-01

    KIMS是寻找和研究暗物质WIMP的实验组.在WIMP寻找实验中,μ子是十分重要的一种本底.我们对地下700m深的Yangyang实验室内的μ子通量进行了测量.介绍了μ子探测器的结构和性能测试.描述了对μ子入射位置和角度分布的分析,并进行了蒙特卡罗模拟.实验室内的μ子通量测量值为(7.0±0.4)×10-8/s/cm2/sr.%KIMS is a group aiming at the search for WIMP. In WIMP search experiment, the muon is one important background. We measure the muon flux in Yangyang laboratory where is located at 700m underground. The structure and performance test of muon detector is described. The analysis on muon hit position and angle distribution has been performed. The simulations of muon flux have been done. The muon flux in the laboratory is found to be about (7.0±0.4)×10-8/s/cm2/sr.

  10. Evaluation of KIMS immunoassays on a cobas c 501 analyzer for drugs of abuse and ethyl glucuronide testing in urine for forensic abstinence control.

    Science.gov (United States)

    Neukamm, Merja A; Bahrami, Arsham; Auwärter, Volker; Mehne, Felix M P; Höss, Eva

    2016-12-26

    For the medico-psychological assessment (MPA) during driving licence re-granting in Germany, abstinence control including urine samples is required. In these programmes, even small amounts of markers for drug or alcohol abuse have to be detected. Thus, the concentrations of the target compounds are very low, and, in consequence, the sensitivity of the applied screening method has to be much higher than for clinical use. Modified drugs of abuse and ethyl glucuronide immunoassays on a Roche cobas c 501 analyzer were evaluated for precision, accuracy, onboard calibration stability, cross reactivity, sensitivity, and specificity using authentic urine samples. Precision (intra-day and inter-day relative standard deviation (RSD) and accuracy (bias) at three concentrations were 12% or lower for all parameters. The calibrations remained stable (deviations amphetamines (21 days). Satisfactory cross reactivity was determined for the relevant analytes and also for several new psychoactive substances (NPS). The sensitivity was 100% for all parameters except methadone metabolite EDDP (92%) and fully met the sensitivity criteria for MPA urine testing. The presented kinetic interaction of microparticles in a solution (KIMS) immunoassays on a cobas c 501 thus provide a new method to reliably detect drug or alcohol consumption in abstinence control programmes requiring high sensitivity. Copyright © 2016 John Wiley & Sons, Ltd.

  11. SPIKE: a database of highly curated human signaling pathways.

    Science.gov (United States)

    Paz, Arnon; Brownstein, Zippora; Ber, Yaara; Bialik, Shani; David, Eyal; Sagir, Dorit; Ulitsky, Igor; Elkon, Ran; Kimchi, Adi; Avraham, Karen B; Shiloh, Yosef; Shamir, Ron

    2011-01-01

    The rapid accumulation of knowledge on biological signaling pathways and their regulatory mechanisms has highlighted the need for specific repositories that can store, organize and allow retrieval of pathway information in a way that will be useful for the research community. SPIKE (Signaling Pathways Integrated Knowledge Engine; http://www.cs.tau.ac.il/&~spike/) is a database for achieving this goal, containing highly curated interactions for particular human pathways, along with literature-referenced information on the nature of each interaction. To make database population and pathway comprehension straightforward, a simple yet informative data model is used, and pathways are laid out as maps that reflect the curator’s understanding and make the utilization of the pathways easy. The database currently focuses primarily on pathways describing DNA damage response, cell cycle, programmed cell death and hearing related pathways. Pathways are regularly updated, and additional pathways are gradually added. The complete database and the individual maps are freely exportable in several formats. The database is accompanied by a stand-alone software tool for analysis and dynamic visualization of pathways.

  12. Personalised medicine in asthma: from curative to preventive medicine.

    Science.gov (United States)

    Guilleminault, Laurent; Ouksel, Hakima; Belleguic, Chantal; Le Guen, Yannick; Germaud, Patrick; Desfleurs, Emilie; Leroyer, Christophe; Magnan, Antoine

    2017-01-01

    The concept of asthma has changed substantially in recent years. Asthma is now recognised as a heterogeneous entity that is complex to treat. The subdivision of asthma, provided by "cluster" analyses, has revealed various groups of asthma patients who share phenotypic features. These phenotypes underlie the need for personalised asthma therapy because, in contrast to the previous approach, treatment must be tailored to the individual patient. Determination of the patient's asthma phenotype is therefore essential but sometimes challenging, particularly in elderly patients with a multitude of comorbidities and a complex exposure history. This review first describes the various asthma phenotypes, some of which were defined empirically and others through cluster analysis, and then discusses personalisation of the patient's diagnosis and therapy, addressing in particular biological therapies and patient education. This personalised approach to curative medicine should make way in the coming years for personalised preventive and predictive medicine, focused on subjects at risk who are not yet ill, with the aim of preventing asthma before it occurs. The concept of personalised preventive medicine may seem a long way off, but is it really? Copyright ©ERS 2017.

  13. Changing the focus of care: from curative to palliative care

    Directory of Open Access Journals (Sweden)

    Silvia Soffritti

    2014-06-01

    Full Text Available The improvements in the obstetrical and neonatal diagnosis and therapies have resulted into an increase in the survival rate of infants previously considered as non-viable. Debate is focusing on professionals’ behaviour about withdrawal or withholding of life sustaining treatment (LST and administration of palliative care for newborns whose conditions are incompatible with a prolonged life. Decisions about treatment should be made jointly by the professionals’ team and the family, placing the interest of the baby at the very heart of the decision process. It is very important that the environment in which the family has to make the decision is characterized by openness, dialogue and frankness. A proper and effective communication with parents is always necessary and can resolve any conflict caused by disagreement. Furthermore, parents need time in the decision making process. Other supports, which could help the family in the final decision are the possibility to ask for a specialist’s second opinion and the involvement of religious leaders and of an indipendent clinical ethics committee. Withholding or withdrawal of LST does not mean cessation of care for the baby, it means to change the focus of care from curative to palliative care. Proceedings of the 10th International Workshop on Neonatology · Cagliari (Italy · October 22nd-25th, 2014 · The last ten years, the next ten years in Neonatology Guest Editors: Vassilios Fanos, Michele Mussap, Gavino Faa, Apostolos Papageorgiou 

  14. [Anteroaxillary thoracotomy for curative surgery in lung cancer].

    Science.gov (United States)

    Nomori, H; Horio, H

    1996-10-01

    The method and results of anteroaxillary thoracotomy for curative surgery in lung cancer are reported. A 20 cm incision is made from the axilla past the nipple line. The serratus anterior muscle is divided, but the lattisimus dorsi muscle does not require division. For an upper lobectomy, the fourth intercostal space is divided, and for a lower lobectomy, the fifth intercostal space is divided. By spreading the thoracic opener, the anterior portion of the rib and costal cartilage are disconnected, and the thorax is opened sufficiently. In the posterior portion, the skin, including the lattisimus dorsi muscle is drawn posteriorly ising an "Octopus". By these techniques, the operative field is made large enough for lobectomy and lymph node dissection. Compared to posterolateral thoracotomy, chronic pain following surgery is dramatically reduced. By anteroaxillary thoracotomy we have satisfactorily performed lobectomy and lymph node dissection of 11 non-T 3 or T 4 lung cancers. In conclusion, anteroaxillary thoracotomy can be a useful approach for ordinal lobectomy and lymph node dissection in lung cancer.

  15. MIPS: curated databases and comprehensive secondary data resources in 2010.

    Science.gov (United States)

    Mewes, H Werner; Ruepp, Andreas; Theis, Fabian; Rattei, Thomas; Walter, Mathias; Frishman, Dmitrij; Suhre, Karsten; Spannagl, Manuel; Mayer, Klaus F X; Stümpflen, Volker; Antonov, Alexey

    2011-01-01

    The Munich Information Center for Protein Sequences (MIPS at the Helmholtz Center for Environmental Health, Neuherberg, Germany) has many years of experience in providing annotated collections of biological data. Selected data sets of high relevance, such as model genomes, are subjected to careful manual curation, while the bulk of high-throughput data is annotated by automatic means. High-quality reference resources developed in the past and still actively maintained include Saccharomyces cerevisiae, Neurospora crassa and Arabidopsis thaliana genome databases as well as several protein interaction data sets (MPACT, MPPI and CORUM). More recent projects are PhenomiR, the database on microRNA-related phenotypes, and MIPS PlantsDB for integrative and comparative plant genome research. The interlinked resources SIMAP and PEDANT provide homology relationships as well as up-to-date and consistent annotation for 38,000,000 protein sequences. PPLIPS and CCancer are versatile tools for proteomics and functional genomics interfacing to a database of compilations from gene lists extracted from literature. A novel literature-mining tool, EXCERBT, gives access to structured information on classified relations between genes, proteins, phenotypes and diseases extracted from Medline abstracts by semantic analysis. All databases described here, as well as the detailed descriptions of our projects can be accessed through the MIPS WWW server (http://mips.helmholtz-muenchen.de).

  16. Simplified Metadata Curation via the Metadata Management Tool

    Science.gov (United States)

    Shum, D.; Pilone, D.

    2015-12-01

    The Metadata Management Tool (MMT) is the newest capability developed as part of NASA Earth Observing System Data and Information System's (EOSDIS) efforts to simplify metadata creation and improve metadata quality. The MMT was developed via an agile methodology, taking into account inputs from GCMD's science coordinators and other end-users. In its initial release, the MMT uses the Unified Metadata Model for Collections (UMM-C) to allow metadata providers to easily create and update collection records in the ISO-19115 format. Through a simplified UI experience, metadata curators can create and edit collections without full knowledge of the NASA Best Practices implementation of ISO-19115 format, while still generating compliant metadata. More experienced users are also able to access raw metadata to build more complex records as needed. In future releases, the MMT will build upon recent work done in the community to assess metadata quality and compliance with a variety of standards through application of metadata rubrics. The tool will provide users with clear guidance as to how to easily change their metadata in order to improve their quality and compliance. Through these features, the MMT allows data providers to create and maintain compliant and high quality metadata in a short amount of time.

  17. Imitating manual curation of text-mined facts in biomedicine.

    Directory of Open Access Journals (Sweden)

    Raul Rodriguez-Esteban

    2006-09-01

    Full Text Available Text-mining algorithms make mistakes in extracting facts from natural-language texts. In biomedical applications, which rely on use of text-mined data, it is critical to assess the quality (the probability that the message is correctly extracted of individual facts--to resolve data conflicts and inconsistencies. Using a large set of almost 100,000 manually produced evaluations (most facts were independently reviewed more than once, producing independent evaluations, we implemented and tested a collection of algorithms that mimic human evaluation of facts provided by an automated information-extraction system. The performance of our best automated classifiers closely approached that of our human evaluators (ROC score close to 0.95. Our hypothesis is that, were we to use a larger number of human experts to evaluate any given sentence, we could implement an artificial-intelligence curator that would perform the classification job at least as accurately as an average individual human evaluator. We illustrated our analysis by visualizing the predicted accuracy of the text-mined relations involving the term cocaine.

  18. Outcome of curative resection for perihilar cholangiocarcinoma in Northeast Thailand

    Institute of Scientific and Technical Information of China (English)

    Attapol; Titapun; Ake; Pugkhem; Vor; Luvira; Tharatip; Srisuk; Ongart; Somintara; O-tur; Saeseow; Anan; Sripanuskul; Anongporn; Nimboriboonporn; Bandit; Thinkhamrop; Narong; Khuntikeo

    2015-01-01

    AIM: To examine survival outcomes of perihilar cholangiocarcinoma(PCCA) resection including mortality, morbidity and prognostic factors. METHODS: Multivariate analyses were carried out based on the survival data of all patients with histologically confirmed PCCA who underwent curative resection at Srinagarind Hospital from January 2006 to December 2011. RESULTS: There were 29(19%) cases of intrahepatic CCA that involved hilar and 124(81%) with hilar bileduct cancer. R0 resection was carried out on 66(43.1%) patients of whom 50(32.7%) also had lymph node metastasis. The other patients underwent R1 resection. The overall 5-year survival rate was 20.6%(95%CI: 13.8-28.4) and median survival time was 19.9 mo. Postoperative mortality was 2%, and 30% of patients had complications. Patients without lymph node metastasis were 60% less likely to die than those with metastasis. Achieving R0 led to a 58% reduction in the chance of mortality as compared to R1. CONCLUSION: To achieve a better survival outcome, focus should center on performing radical surgery and detection of patients with early stage cancer.

  19. Agile Data Curation at a State Geological Survey

    Science.gov (United States)

    Hills, D. J.

    2015-12-01

    State agencies, including geological surveys, are often the gatekeepers for myriad data products essential for scientific research and economic development. For example, the Geological Survey of Alabama (GSA) is mandated to explore for, characterize, and report Alabama's mineral, energy, water, and biological resources in support of economic development, conservation, management, and public policy for the betterment of Alabama's citizens, communities, and businesses. As part of that mandate, the GSA has increasingly been called upon to make our data more accessible to stakeholders. Even as demand for greater data accessibility grows, budgets for such efforts are often small, meaning that agencies must do more for less. Agile software development has yielded efficient, effective products, most often at lower cost and in shorter time. Taking guidance from the agile software development model, the GSA is working towards more agile data management and curation. To date, the GSA's work has been focused primarily on data rescue. By using workflows that maximize clear communication while encouraging simplicity (e.g., maximizing the amount of work not done or that can be automated), the GSA is bringing decades of dark data into the light. Regular checks by the data rescuer with the data provider (or their proxy) provides quality control without adding an overt burden on either party. Moving forward, these workflows will also allow for more efficient and effective data management.

  20. External beam radiotherapy as curative treatment of prostate cancer.

    Science.gov (United States)

    Pisansky, Thomas M

    2005-07-01

    External beam radiotherapy (RT) has been used as a curative treatment of prostate cancer for more than 5 decades, with the "modern" era emerging more than 3 decades ago. Its history is marked by gradual improvements punctuated by several quantum leaps that are increasingly driven by advancements in the computer and imaging sciences and by its integration with complementary forms of treatment. Consequently, the contemporary use of external beam RT barely resembles its earliest form, and this must be appreciated in the context of current patient care. The influence of predictive factors on the use and outcomes of external beam RT is presented, as is a selected review of the methods and outcomes of external beam RT as a single therapeutic intervention, in association with androgen suppression, or as a postoperative adjunct. Thus, the "state of the (radiotherapeutic) art" is presented to enhance the understanding of this treatment approach with the hope that this information will serve as a useful resource to physicians as they care for patients with prostate cancer.

  1. The curator/patron: Foundations and contemporary art

    Directory of Open Access Journals (Sweden)

    Rebecca Coates

    2008-12-01

    Full Text Available This article addresses the role of private foundations in commissioning site-specific ephemeral art works: contemporary art projects of a temporary nature that are realised outside of public institutions. Though small in number, I argue that the private individuals creating and managing private foundations of this nature demonstrate a new form of patronage, creating in the process a new role of ‘curator/patron’. Equally, this process of realisation reflects the changing needs of contemporary art practice. Work of this scale and ambition would increasingly not be possible without the vision, perseverance and funding of these kinds of foundation. In Australia, this trend is demonstrated by two foundations: Kaldor Art Projects, and their commissioning of works by artists such as Christo and Jeanne-Claude, Gilbert & George and Jeff Koons; and the more recently formed Sherman Contemporary Art Foundation, whose first project was with Chinese artist Ai Weiwei. In this article, these examples are placed within the broader international context of foundation models such as Artangel, UK, Fondazione Nicola Trussardi, Milan, and The Public Art Fund, New York.

  2. Curative effect of wilsonii injecta on severe head injury

    Institute of Scientific and Technical Information of China (English)

    陈礼刚; 曾凡俊; 杨立斌; 柴建康; 李开慧; 卢敏; 匡永勤

    2002-01-01

    Objective: To study the curative effect of wilsoniiinjecta on severe head injury (SHI).Methods: A total of 120 patients with SHI weredivided randomly into 2 groups, the patients treated withconventional methods as Group A (n = 60) and the patientstreated with wilsonii injecta as Group B (n = 60). Thechanges of neural function indexes were evaluated withGlasgow Coma Scale (GCS) before treatment and withGlasgow Outcome Scale ( GOS ) after treatment,simultaneously, the paramneters of hemorrheological indexes(HI), brain electrical activity map ( BEAM ) andtranscranial Doppler sonography (TCD) were observedbefore and after treatment.Results: In Group B, the clinical GCS, the HI, theBEAM and the prognosis GOS were improved much morethan those in Group A. And the TCD parameters in GroupB decreased, which had significant difference comparedwith that in Group A (P <0.01).Conclusions: Wilsonii injecta can rapidly improve theinjured persons' conscious states, the abnormal BEAM and the surviving quality. It suggests that the improvement of the HI is related to the relief of the vasospasm of thearterial blood vessels in the brain, which may be one of theimportant mechanisms of wilsonii injecta in improving theprognosis.

  3. Curative treatment of oesophageal carcinoma: current options and future developments

    Directory of Open Access Journals (Sweden)

    Bruns Christiane

    2011-05-01

    Full Text Available Abstract Since the 1980s major advances in surgery, radiotherapy and chemotherapy have established multimodal approaches as curative treatment options for oesophageal cancer. In addition the introduction of functional imaging modalities such as PET-CT created new opportunities for a more adequate patient selection and therapy response assessment. The majority of oesophageal carcinomas are represented by two histologies: squamous cell carcinoma and adenocarcinoma. In recent years an epidemiological shift towards the latter was observed. From a surgical point of view, adenocarcinomas, which are usually located in the distal third of the oesophagus, may be treated with a transhiatal resection, whereas squamous cell carcinomas, which are typically found in the middle and the upper third, require a transthoracic approach. Since overall survival after surgery alone is poor, multimodality approaches have been developed. At least for patients with locally advanced tumors, surgery alone can no longer be advocated as routine treatment. Nowadays, scientific interest is focused on tumor response to induction radiochemotherapy. A neoadjuvant approach includes the early and accurate assessment of clinical response, optimally performed by repeated PET-CT imaging and endoscopic ultrasound, which may permit early adaption of the therapeutic concept. Patients with SCC that show clinical response by PET CT are considered to have a better prognosis, regardless of whether surgery will be performed or not. In non-responding patients salvage surgery improves survival, especially if complete resection is achieved.

  4. Curating NASA's future extraterrestrial sample collections: How do we achieve maximum proficiency?

    Science.gov (United States)

    McCubbin, Francis; Evans, Cynthia; Allton, Judith; Fries, Marc; Righter, Kevin; Zolensky, Michael; Zeigler, Ryan

    2016-07-01

    Introduction: The Astromaterials Acquisition and Curation Office (henceforth referred to herein as NASA Curation Office) at NASA Johnson Space Center (JSC) is responsible for curating all of NASA's extraterrestrial samples. Under the governing document, NASA Policy Directive (NPD) 7100.10E "Curation of Extraterrestrial Materials", JSC is charged with "The curation of all extraterrestrial material under NASA control, including future NASA missions." The Directive goes on to define Curation as including "…documentation, preservation, preparation, and distribution of samples for research, education, and public outreach." Here we describe some of the ongoing efforts to ensure that the future activities of the NASA Curation Office are working to-wards a state of maximum proficiency. Founding Principle: Curatorial activities began at JSC (Manned Spacecraft Center before 1973) as soon as design and construction planning for the Lunar Receiving Laboratory (LRL) began in 1964 [1], not with the return of the Apollo samples in 1969, nor with the completion of the LRL in 1967. This practice has since proven that curation begins as soon as a sample return mission is conceived, and this founding principle continues to return dividends today [e.g., 2]. The Next Decade: Part of the curation process is planning for the future, and we refer to these planning efforts as "advanced curation" [3]. Advanced Curation is tasked with developing procedures, technology, and data sets necessary for curating new types of collections as envisioned by NASA exploration goals. We are (and have been) planning for future curation, including cold curation, extended curation of ices and volatiles, curation of samples with special chemical considerations such as perchlorate-rich samples, curation of organically- and biologically-sensitive samples, and the use of minimally invasive analytical techniques (e.g., micro-CT, [4]) to characterize samples. These efforts will be useful for Mars Sample Return

  5. Nam obeshtshajut peregrev / Kim Kosmatshov

    Index Scriptorium Estoniae

    Kosmatshov, Kim

    2006-01-01

    Ajakirjas The Economist ilmunud artiklist, milles käsitletakse Eesti ja Läti majandusedu ning viidatakse võimalikele ohtudele tulevikus. Peamiseks probleemiks nimetatakse mõlema riigi puhul inflatsiooni kasvu

  6. Nam obeshtshajut peregrev / Kim Kosmatshov

    Index Scriptorium Estoniae

    Kosmatshov, Kim

    2006-01-01

    Ajakirjas The Economist ilmunud artiklist, milles käsitletakse Eesti ja Läti majandusedu ning viidatakse võimalikele ohtudele tulevikus. Peamiseks probleemiks nimetatakse mõlema riigi puhul inflatsiooni kasvu

  7. Advanced Curation Activities at NASA: Preparing for the Next Waves of Astromaterials Sample Return

    Science.gov (United States)

    Zeigler, R. A.; Allton, J. H.; Evans, C. A.; Fries, M. D.; McCubbin, F. M.; Nakamura-Messenger, K.; Righter, K.; Zolensky, M.; Stansbery, E. K.

    2017-02-01

    We discuss the current curatorial efforts for NASA's astromaterials collections, as well as efforts that are underway (or need to be undertaken) to prepare for the challenging curation conditions required by future sample return missions.

  8. Curatorial Works for the Hayabusa-Returned Sample and Preparation for Hayabusa2 Sample Curation

    Science.gov (United States)

    Yada, T.; Abe, M.; Okada, T.; Yurimoto, H.; Uesugi, M.; Karouji, Y.; Nakato, A.; Hashiguchi, M.; Nishimura, M.; Kumagai, K.; Matsui, S.; Yoshitake, M.; Sakamoto, K.; Nakano, Y.; Kawasaki, N.; Fujimoto, M.

    2016-08-01

    We continue describing Hayabusa-returned samples after its return in 2010. The number of described particles reaches around 650 and >540 of them are identified as Itokawa origin. We also start preparation for Hayabusa2 sample curation.

  9. Curative and eradicant action of fungicides to control Phakopsora pachyrhizi in soybean plants

    Directory of Open Access Journals (Sweden)

    Erlei Melo Reis

    Full Text Available ABSTRACT Experiments were carried out in a growth chamber and laboratory to quantify the curative and eradicant actions of fungicides in Asian soybean rust control. The experiments were conducted with the CD 214 RR cultivar, assessing the following fungicides, separately or in association, chlorothalonil, flutriafol, cyproconazole + trifloxystrobin, epoxiconazole + pyraclostrobin, cyproconazole + azoxystrobin, and cyproconazole + picoxystrobin. The fungicides were applied at four (curative and nine days after inoculation (eradicant treatment. Treatments were evaluated according to the density of lesions and uredia/cm2, and the eradicant treatment was assessed based on the necrosis of lesions/uredia and on uredospore viability. Except for the fungicide chlorothalonil, there was curative action of latent/virtual infections by the fungicides. Penetrant fungicides that are absorbed have curative and eradicant action to soybean rust.

  10. Protective and curative effects of Cocos nucifera inflorescence on alloxan-induced pancreatic cytotoxicity in rats

    Directory of Open Access Journals (Sweden)

    Raveendran S Renjith

    2012-01-01

    Conclusion: The results obtained in the study indicate the protective and curative effects of CnI on alloxan-induced pancreatic cytotoxicity, which is mediated through the regulation of carbohydrate metabolic enzyme activities and islets cell repair.

  11. Working to define data curated geospatial services on a Research Campus, a Purdue University Libraries Example

    Science.gov (United States)

    Branch, B. D.; Kong, N.; Fosmire, M.; Rousi, A. M.

    2013-12-01

    As Data Curation is becoming a necessity of data science and library science, Purdue University Libraries has been a leader in data curation profiles research. Such research can be defined as a data stewardship protocol similar to a multiple use case analysis. In this this example, The Purdue University Libraries Geographical Information Systems (GIS) department has engaged in a data curation profiles assessment of the campus to baseline and qualify sustainable geospatial data services. It is the intent that other libraries will consider this IRB approved approach of grounded theory to assessment the geospatial data service capacity and potential on a parametric scale. Provided is the status of such research and the some highlights or considerations in the establishment of sustainable geospatial data services that include a full data curated lifecycle. Noted here are some of the essential engagement endeavors of the research.

  12. MultiCellDS: a community-developed standard for curating microenvironment-dependent multicellular data

    NARCIS (Netherlands)

    Friedman, S.H. (Samual); Anderson, A.R.A. (Alexander); Bortz, D.M. (David); Fletcher, A.G. (Alexander; Frieboes, H.B. (Herman); Ghaffarizadeh, A. (Ahmadreza ); Grimes, D.R. (Robert); Hawkins-Daarud, A. (Andrea); Hoehme, S. (Stefan); Juarez, E.F. (Edwin); Kesselman, K. (Karl); R.M.H. Merks (Roeland); Mumenthaler, S.M. (Shannon); Newton, P.K. (Paul); Norton, K.-A. (Kerri-Ann); Rawat, R. (Rishi); Rockne, R.C. (Russell); Ruderman, D. (Daniel); Scott, J. (Jacob); Sindi, S.S. (Suzanne); Sparks, J.L. (Jessica); Swanson, K. (Kristin); Agus, D.B. (David); Macklin, P. (Paul)

    2016-01-01

    textabstractExchanging and understanding scientific data and their context represents a significant barrier to advancing research, especially with respect to information siloing. Maintaining information provenance and providing data curation and quality control help overcome common concerns and

  13. How should the completeness and quality of curated nanomaterial data be evaluated?

    Science.gov (United States)

    Marchese Robinson, Richard L.; Lynch, Iseult; Peijnenburg, Willie; Rumble, John; Klaessig, Fred; Marquardt, Clarissa; Rauscher, Hubert; Puzyn, Tomasz; Purian, Ronit; Åberg, Christoffer; Karcher, Sandra; Vriens, Hanne; Hoet, Peter; Hoover, Mark D.; Hendren, Christine Ogilvie; Harper, Stacey L.

    2016-05-01

    Nanotechnology is of increasing significance. Curation of nanomaterial data into electronic databases offers opportunities to better understand and predict nanomaterials' behaviour. This supports innovation in, and regulation of, nanotechnology. It is commonly understood that curated data need to be sufficiently complete and of sufficient quality to serve their intended purpose. However, assessing data completeness and quality is non-trivial in general and is arguably especially difficult in the nanoscience area, given its highly multidisciplinary nature. The current article, part of the Nanomaterial Data Curation Initiative series, addresses how to assess the completeness and quality of (curated) nanomaterial data. In order to address this key challenge, a variety of related issues are discussed: the meaning and importance of data completeness and quality, existing approaches to their assessment and the key challenges associated with evaluating the completeness and quality of curated nanomaterial data. Considerations which are specific to the nanoscience area and lessons which can be learned from other relevant scientific disciplines are considered. Hence, the scope of this discussion ranges from physicochemical characterisation requirements for nanomaterials and interference of nanomaterials with nanotoxicology assays to broader issues such as minimum information checklists, toxicology data quality schemes and computational approaches that facilitate evaluation of the completeness and quality of (curated) data. This discussion is informed by a literature review and a survey of key nanomaterial data curation stakeholders. Finally, drawing upon this discussion, recommendations are presented concerning the central question: how should the completeness and quality of curated nanomaterial data be evaluated?Nanotechnology is of increasing significance. Curation of nanomaterial data into electronic databases offers opportunities to better understand and predict

  14. Introverts and extraverts reflecting on the experience of Parish Ministry : conversation between training incumbents and curates

    OpenAIRE

    FRANCIS, Leslie J.; Smith, Greg

    2016-01-01

    Psychological type theory suggests that introverts and extraverts may approach Christian ministry somewhat differently. This theory was tested within the context of a residential workshop attended by 15 curates, 12 of whom were accompanied by their training incumbents. Twelve themes were identified within responses to the question, “What does talk about introversion and extraversion illuminate in the ministry of incumbent and curate and in the life of the parish?” The themes from the perspect...

  15. Prognostic Factors for Patients after Curative Resection for Proximal Gastric Cancer

    Institute of Scientific and Technical Information of China (English)

    赵东晖; 徐惠绵; 李凯; 孙哲

    2010-01-01

    The factors influencing the long-term survival of patients with proximal gastric cancer (PGC) after curative resection were investigated. Data from 171 patients who underwent curative resection for PGC were retrospectively analyzed. The patients were grouped according to the clinicopathological factors and operative procedures. The tumor depth (T stage) and lymph node metastasis (pN stage) were graded according to the fifth edition of TNM Staging System published by UICC in 1997. The metastatic lymph node r...

  16. Directly e-mailing authors of newly published papers encourages community curation.

    Science.gov (United States)

    Bunt, Stephanie M; Grumbling, Gary B; Field, Helen I; Marygold, Steven J; Brown, Nicholas H; Millburn, Gillian H

    2012-01-01

    Much of the data within Model Organism Databases (MODs) comes from manual curation of the primary research literature. Given limited funding and an increasing density of published material, a significant challenge facing all MODs is how to efficiently and effectively prioritize the most relevant research papers for detailed curation. Here, we report recent improvements to the triaging process used by FlyBase. We describe an automated method to directly e-mail corresponding authors of new papers, requesting that they list the genes studied and indicate ('flag') the types of data described in the paper using an online tool. Based on the author-assigned flags, papers are then prioritized for detailed curation and channelled to appropriate curator teams for full data extraction. The overall response rate has been 44% and the flagging of data types by authors is sufficiently accurate for effective prioritization of papers. In summary, we have established a sustainable community curation program, with the result that FlyBase curators now spend less time triaging and can devote more effort to the specialized task of detailed data extraction. Database URL: http://flybase.org/

  17. LncRNAWiki: harnessing community knowledge in collaborative curation of human long non-coding RNAs

    KAUST Repository

    Ma, L.

    2014-11-15

    Long non-coding RNAs (lncRNAs) perform a diversity of functions in numerous important biological processes and are implicated in many human diseases. In this report we present lncRNAWiki (http://lncrna.big.ac.cn), a wiki-based platform that is open-content and publicly editable and aimed at community-based curation and collection of information on human lncRNAs. Current related databases are dependent primarily on curation by experts, making it laborious to annotate the exponentially accumulated information on lncRNAs, which inevitably requires collective efforts in community-based curation of lncRNAs. Unlike existing databases, lncRNAWiki features comprehensive integration of information on human lncRNAs obtained from multiple different resources and allows not only existing lncRNAs to be edited, updated and curated by different users but also the addition of newly identified lncRNAs by any user. It harnesses community collective knowledge in collecting, editing and annotating human lncRNAs and rewards community-curated efforts by providing explicit authorship based on quantified contributions. LncRNAWiki relies on the underling knowledge of scientific community for collective and collaborative curation of human lncRNAs and thus has the potential to serve as an up-to-date and comprehensive knowledgebase for human lncRNAs.

  18. Data Curation Education Grounded in Earth Sciences and the Science of Data

    Science.gov (United States)

    Palmer, C. L.

    2015-12-01

    This presentation looks back over ten years of experience advancing data curation education at two Information Schools, highlighting the vital role of earth science case studies, expertise, and collaborations in development of curriculum and internships. We also consider current data curation practices and workforce demand in data centers in the geosciences, drawing on studies conducted in the Data Curation Education in Research Centers (DCERC) initiative and the Site-Based Data Curation project. Outcomes from this decade of data curation research and education has reinforced the importance of key areas of information science in preparing data professionals to respond to the needs of user communities, provide services across disciplines, invest in standards and interoperability, and promote open data practices. However, a serious void remains in principles to guide education and practice that are distinct to the development of data systems and services that meet both local and global aims. We identify principles emerging from recent empirical studies on the reuse value of data in the earth sciences and propose an approach for advancing data curation education that depends on systematic coordination with data intensive research and propagation of current best practices from data centers into curriculum. This collaborative model can increase both domain-based and cross-disciplinary expertise among data professionals, ultimately improving data systems and services in our universities and data centers while building the new base of knowledge needed for a foundational science of data.

  19. JSC Advanced Curation: Research and Development for Current Collections and Future Sample Return Mission Demands

    Science.gov (United States)

    Fries, M. D.; Allen, C. C.; Calaway, M. J.; Evans, C. A.; Stansbery, E. K.

    2015-01-01

    Curation of NASA's astromaterials sample collections is a demanding and evolving activity that supports valuable science from NASA missions for generations, long after the samples are returned to Earth. For example, NASA continues to loan hundreds of Apollo program samples to investigators every year and those samples are often analyzed using instruments that did not exist at the time of the Apollo missions themselves. The samples are curated in a manner that minimizes overall contamination, enabling clean, new high-sensitivity measurements and new science results over 40 years after their return to Earth. As our exploration of the Solar System progresses, upcoming and future NASA sample return missions will return new samples with stringent contamination control, sample environmental control, and Planetary Protection requirements. Therefore, an essential element of a healthy astromaterials curation program is a research and development (R&D) effort that characterizes and employs new technologies to maintain current collections and enable new missions - an Advanced Curation effort. JSC's Astromaterials Acquisition & Curation Office is continually performing Advanced Curation research, identifying and defining knowledge gaps about research, development, and validation/verification topics that are critical to support current and future NASA astromaterials sample collections. The following are highlighted knowledge gaps and research opportunities.

  20. Conversations between Twitter social media and historical archives: a digital curation study

    Directory of Open Access Journals (Sweden)

    Maria José Vicentini Jorente

    2017-04-01

    Full Text Available Introduction: Digital Curation, in post-custodial times, convergent to Information Design, propose curation strategies; among the steps to be performed, is the interaction. Twitter helps with this approach and communication, facilitates information sharing as well as enables the storytelling Curation. Objective: To present innovative Digital Curation initiatives in Twitter and its potential to share information preserved by Public Historical Archives. Methodology: We characterize it as a theoretical and exploratory research on the application of Twitter in the perspective of Digital Curation, interdisciplinary to Information Science. Ten public historical archives were analyzed, in which their convergence with Twitter was verified; and an investigation of two archives profiles to identify their contents was conducted. Finally, initiatives to narrate historical events are presented. Results: Twitter offers Archives the possibility to work on historical event narratives; simultaneously publish on the platform the basic documents of the narration and build a diverse digital collection of what is physically kept by the institution. Conclusions: Actions described in Digital Curation are the activities of postcustodial nature information professionals perform in Archives. We emphasize that the post-custodial term consists of a temporal category and we can add the concept of extended custody, which is not temporal, but of extension.

  1. Practices of research data curation in institutional repositories: A qualitative view from repository staff.

    Science.gov (United States)

    Lee, Dong Joon; Stvilia, Besiki

    2017-01-01

    The importance of managing research data has been emphasized by the government, funding agencies, and scholarly communities. Increased access to research data increases the impact and efficiency of scientific activities and funding. Thus, many research institutions have established or plan to establish research data curation services as part of their Institutional Repositories (IRs). However, in order to design effective research data curation services in IRs, and to build active research data providers and user communities around those IRs, it is essential to study current data curation practices and provide rich descriptions of the sociotechnical factors and relationships shaping those practices. Based on 13 interviews with 15 IR staff members from 13 large research universities in the United States, this paper provides a rich, qualitative description of research data curation and use practices in IRs. In particular, the paper identifies data curation and use activities in IRs, as well as their structures, roles played, skills needed, contradictions and problems present, solutions sought, and workarounds applied. The paper can inform the development of best practice guides, infrastructure and service templates, as well as education in research data curation in Library and Information Science (LIS) schools.

  2. Curative activity of insecticides against plum curculio (Coleoptera: Curculionidae) in tart cherries.

    Science.gov (United States)

    Hoffmann, Eric J; Vandervoort, Christine; Wise, John C

    2009-10-01

    Tart cherry, Prunus cerasus L. variety Montmorency, fruit were infested with plum curculio, Conotrachelus nenuphar (Herbst) (Coleoptera: Curculionidae), and treated with insecticides to target late instars, neonates, and eggs. The organophosphates azinphos-methyl and phosmet and the neonicotinoid thiamethoxam reduced larval emergence rates by >90% for all life stage targets; after >30 d, few surviving larvae were found inside fruit. Acetamiprid and thiacloprid also had curative activity and yielded >75% reductions in emergence and few surviving larvae in the fruit after >30 d. The juvenile hormone analog pyriproxyfen reduced larval emergence, but 66% of fruit that was treated to target late-instars still had live larvae inside of them after >30 d. Novaluron, chlorantraniliprole, and esfenvalerate had no curative activity. Indoxacarb had limited curative activity, and all targeted life stages had larval emergence. Internal and external residues were analyzed and are discussed in relation to their penetration and curative potential. The curative activity of azinphos-methyl has played an important role in meeting federal standards for infestation-free tart cherries at processing. Regulatory changes are eliminating the use of this compound, and new integrated pest management programs for plum curculio will need to address the loss of azinphos-methyl's curative activity.

  3. OzFlux data: network integration from collection to curation

    Science.gov (United States)

    Isaac, Peter; Cleverly, James; McHugh, Ian; van Gorsel, Eva; Ewenz, Cacilia; Beringer, Jason

    2017-06-01

    Measurement of the exchange of energy and mass between the surface and the atmospheric boundary-layer by the eddy covariance technique has undergone great change in the last 2 decades. Early studies of these exchanges were confined to brief field campaigns in carefully controlled conditions followed by months of data analysis. Current practice is to run tower-based eddy covariance systems continuously over several years due to the need for continuous monitoring as part of a global effort to develop local-, regional-, continental- and global-scale budgets of carbon, water and energy. Efficient methods of processing the increased quantities of data are needed to maximise the time available for analysis and interpretation. Standardised methods are needed to remove differences in data processing as possible contributors to observed spatial variability. Furthermore, public availability of these data sets assists with undertaking global research efforts. The OzFlux data path has been developed (i) to provide a standard set of quality control and post-processing tools across the network, thereby facilitating inter-site integration and spatial comparisons; (ii) to increase the time available to researchers for analysis and interpretation by reducing the time spent collecting and processing data; (iii) to propagate both data and metadata to the final product; and (iv) to facilitate the use of the OzFlux data by adopting a standard file format and making the data available from web-based portals. Discovery of the OzFlux data set is facilitated through incorporation in FLUXNET data syntheses and the publication of collection metadata via the RIF-CS format. This paper serves two purposes. The first is to describe the data sets, along with their quality control and post-processing, for the other papers of this Special Issue. The second is to provide an example of one solution to the data collection and curation challenges that are encountered by similar flux tower networks

  4. Information Models, Data Requirements, and Agile Data Curation

    Science.gov (United States)

    Hughes, John S.; Crichton, Dan; Ritschel, Bernd; Hardman, Sean; Joyner, Ron

    2015-04-01

    The Planetary Data System's next generation system, PDS4, is an example of the successful use of an ontology-based Information Model (IM) to drive the development and operations of a data system. In traditional systems engineering, requirements or statements about what is necessary for the system are collected and analyzed for input into the design stage of systems development. With the advent of big data the requirements associated with data have begun to dominate and an ontology-based information model can be used to provide a formalized and rigorous set of data requirements. These requirements address not only the usual issues of data quantity, quality, and disposition but also data representation, integrity, provenance, context, and semantics. In addition the use of these data requirements during system's development has many characteristics of Agile Curation as proposed by Young et al. [Taking Another Look at the Data Management Life Cycle: Deconstruction, Agile, and Community, AGU 2014], namely adaptive planning, evolutionary development, early delivery, continuous improvement, and rapid and flexible response to change. For example customers can be satisfied through early and continuous delivery of system software and services that are configured directly from the information model. This presentation will describe the PDS4 architecture and its three principle parts: the ontology-based Information Model (IM), the federated registries and repositories, and the REST-based service layer for search, retrieval, and distribution. The development of the IM will be highlighted with special emphasis on knowledge acquisition, the impact of the IM on development and operations, and the use of shared ontologies at multiple governance levels to promote system interoperability and data correlation.

  5. The Protective Effect of the Ethanol Leaf Extract of Andrographis Paniculata on Cisplatin-Induced Acute Kidney Injury in Rats Through nrf2/KIM-1 Signalling Pathway.

    Science.gov (United States)

    Adeoye, Bisi Olajumoke; Asenuga, Ebunoluwa Racheal; Oyagbemi, Ademola Adetokunbo; Omobowale, Temidayo Olutayo; Adedapo, Adeolu A

    2017-09-12

    The ethanol leaf extract of Andrographis paniculata was used to ameliorate the renal toxicity induced by cisplatin in 28 rats divided into four groups of seven rats per group. Group A received normal saline for the duration of the experiment. Group B animals were treated with cisplatin (10 mg/kg i.p) on day 1 and 3 days after received normal saline for the next 7 days while groups C and D animals also received 10 mg/kg dose of cisplatin on day 1 but after 3 days were then respectively treated with 200 and 400 mg/kg doses of the extract of Andrographis paniculata for the remaining 7 days through oral administration. Serum chemistry was used for the determination of markers of oxidative stress, anti-oxidant enzymes, serum biomarkers etc. Histopathology and immunohistochemistry were also carried out. Results showed that all oxidative stress markers assayed were significantly increased in group B animals but reverse is the case for groups C and D. On the other hand, antioxidant enzymes assayed experienced significant increase for groups C and D while these parameters experienced significant decrease for group B animals. Histopathology showed severe infiltration of inflammatory cells into renal tissues of group B animals whereas for groups C and D animals, only moderate glomerular degeneration was noted. In immunohistochemistry, while there is higher expression of KIM-1 for group B, there was a lower expression in groups C and D. Again, there was lower expression of Nrf2 for group B but higher expressions in groups C and D animals. © Georg Thieme Verlag KG Stuttgart · New York.

  6. CPAD, Curated Protein Aggregation Database: A Repository of Manually Curated Experimental Data on Protein and Peptide Aggregation.

    Science.gov (United States)

    Thangakani, A Mary; Nagarajan, R; Kumar, Sandeep; Sakthivel, R; Velmurugan, D; Gromiha, M Michael

    2016-01-01

    Accurate distinction between peptide sequences that can form amyloid-fibrils or amorphous β-aggregates, identification of potential aggregation prone regions in proteins, and prediction of change in aggregation rate of a protein upon mutation(s) are critical to research on protein misfolding diseases, such as Alzheimer's and Parkinson's, as well as biotechnological production of protein based therapeutics. We have developed a Curated Protein Aggregation Database (CPAD), which has collected results from experimental studies performed by scientific community aimed at understanding protein/peptide aggregation. CPAD contains more than 2300 experimentally observed aggregation rates upon mutations in known amyloidogenic proteins. Each entry includes numerical values for the following parameters: change in rate of aggregation as measured by fluorescence intensity or turbidity, name and source of the protein, Uniprot and Protein Data Bank codes, single point as well as multiple mutations, and literature citation. The data in CPAD has been supplemented with five different types of additional information: (i) Amyloid fibril forming hexa-peptides, (ii) Amorphous β-aggregating hexa-peptides, (iii) Amyloid fibril forming peptides of different lengths, (iv) Amyloid fibril forming hexa-peptides whose crystal structures are available in the Protein Data Bank (PDB) and (v) Experimentally validated aggregation prone regions found in amyloidogenic proteins. Furthermore, CPAD is linked to other related databases and resources, such as Uniprot, Protein Data Bank, PUBMED, GAP, TANGO, WALTZ etc. We have set up a web interface with different search and display options so that users have the ability to get the data in multiple ways. CPAD is freely available at http://www.iitm.ac.in/bioinfo/CPAD/. The potential applications of CPAD have also been discussed.

  7. Agile data management for curation of genomes to watershed datasets

    Science.gov (United States)

    Varadharajan, C.; Agarwal, D.; Faybishenko, B.; Versteeg, R.

    2015-12-01

    A software platform is being developed for data management and assimilation [DMA] as part of the U.S. Department of Energy's Genomes to Watershed Sustainable Systems Science Focus Area 2.0. The DMA components and capabilities are driven by the project science priorities and the development is based on agile development techniques. The goal of the DMA software platform is to enable users to integrate and synthesize diverse and disparate field, laboratory, and simulation datasets, including geological, geochemical, geophysical, microbiological, hydrological, and meteorological data across a range of spatial and temporal scales. The DMA objectives are (a) developing an integrated interface to the datasets, (b) storing field monitoring data, laboratory analytical results of water and sediments samples collected into a database, (c) providing automated QA/QC analysis of data and (d) working with data providers to modify high-priority field and laboratory data collection and reporting procedures as needed. The first three objectives are driven by user needs, while the last objective is driven by data management needs. The project needs and priorities are reassessed regularly with the users. After each user session we identify development priorities to match the identified user priorities. For instance, data QA/QC and collection activities have focused on the data and products needed for on-going scientific analyses (e.g. water level and geochemistry). We have also developed, tested and released a broker and portal that integrates diverse datasets from two different databases used for curation of project data. The development of the user interface was based on a user-centered design process involving several user interviews and constant interaction with data providers. The initial version focuses on the most requested feature - i.e. finding the data needed for analyses through an intuitive interface. Once the data is found, the user can immediately plot and download data

  8. Curation and Computational Design of Bioenergy-Related Metabolic Pathways

    Energy Technology Data Exchange (ETDEWEB)

    Karp, Peter D. [SRI International, Menlo Park, CA (United States)

    2014-09-12

    Pathway Tools is a systems-biology software package written by SRI International (SRI) that produces Pathway/Genome Databases (PGDBs) for organisms with a sequenced genome. Pathway Tools also provides a wide range of capabilities for analyzing predicted metabolic networks and user-generated omics data. More than 5,000 academic, industrial, and government groups have licensed Pathway Tools. This user community includes researchers at all three DOE bioenergy centers, as well as academic and industrial metabolic engineering (ME) groups. An integral part of the Pathway Tools software is MetaCyc, a large, multiorganism database of metabolic pathways and enzymes that SRI and its academic collaborators manually curate. This project included two main goals: I. Enhance the MetaCyc content of bioenergy-related enzymes and pathways. II. Develop computational tools for engineering metabolic pathways that satisfy specified design goals, in particular for bioenergy-related pathways. In part I, SRI proposed to significantly expand the coverage of bioenergy-related metabolic information in MetaCyc, followed by the generation of organism-specific PGDBs for all energy-relevant organisms sequenced at the DOE Joint Genome Institute (JGI). Part I objectives included: 1: Expand the content of MetaCyc to include bioenergy-related enzymes and pathways. 2: Enhance the Pathway Tools software to enable display of complex polymer degradation processes. 3: Create new PGDBs for the energy-related organisms sequenced by JGI, update existing PGDBs with new MetaCyc content, and make these data available to JBEI via the BioCyc website. In part II, SRI proposed to develop an efficient computational tool for the engineering of metabolic pathways. Part II objectives included: 4: Develop computational tools for generating metabolic pathways that satisfy specified design goals, enabling users to specify parameters such as starting and ending compounds, and preferred or disallowed intermediate compounds

  9. A hybrid human and machine resource curation pipeline for the Neuroscience Information Framework.

    Science.gov (United States)

    Bandrowski, A E; Cachat, J; Li, Y; Müller, H M; Sternberg, P W; Ciccarese, P; Clark, T; Marenco, L; Wang, R; Astakhov, V; Grethe, J S; Martone, M E

    2012-01-01

    The breadth of information resources available to researchers on the Internet continues to expand, particularly in light of recently implemented data-sharing policies required by funding agencies. However, the nature of dense, multifaceted neuroscience data and the design of contemporary search engine systems makes efficient, reliable and relevant discovery of such information a significant challenge. This challenge is specifically pertinent for online databases, whose dynamic content is 'hidden' from search engines. The Neuroscience Information Framework (NIF; http://www.neuinfo.org) was funded by the NIH Blueprint for Neuroscience Research to address the problem of finding and utilizing neuroscience-relevant resources such as software tools, data sets, experimental animals and antibodies across the Internet. From the outset, NIF sought to provide an accounting of available resources, whereas developing technical solutions to finding, accessing and utilizing them. The curators therefore, are tasked with identifying and registering resources, examining data, writing configuration files to index and display data and keeping the contents current. In the initial phases of the project, all aspects of the registration and curation processes were manual. However, as the number of resources grew, manual curation became impractical. This report describes our experiences and successes with developing automated resource discovery and semiautomated type characterization with text-mining scripts that facilitate curation team efforts to discover, integrate and display new content. We also describe the DISCO framework, a suite of automated web services that significantly reduce manual curation efforts to periodically check for resource updates. Lastly, we discuss DOMEO, a semi-automated annotation tool that improves the discovery and curation of resources that are not necessarily website-based (i.e. reagents, software tools). Although the ultimate goal of automation was to

  10. Automated PDF highlighting to support faster curation of literature for Parkinson's and Alzheimer's disease.

    Science.gov (United States)

    Wu, Honghan; Oellrich, Anika; Girges, Christine; de Bono, Bernard; Hubbard, Tim J P; Dobson, Richard J B

    2017-01-01

    Neurodegenerative disorders such as Parkinson's and Alzheimer's disease are devastating and costly illnesses, a source of major global burden. In order to provide successful interventions for patients and reduce costs, both causes and pathological processes need to be understood. The ApiNATOMY project aims to contribute to our understanding of neurodegenerative disorders by manually curating and abstracting data from the vast body of literature amassed on these illnesses. As curation is labour-intensive, we aimed to speed up the process by automatically highlighting those parts of the PDF document of primary importance to the curator. Using techniques similar to those of summarisation, we developed an algorithm that relies on linguistic, semantic and spatial features. Employing this algorithm on a test set manually corrected for tool imprecision, we achieved a macro F 1 -measure of 0.51, which is an increase of 132% compared to the best bag-of-words baseline model. A user based evaluation was also conducted to assess the usefulness of the methodology on 40 unseen publications, which reveals that in 85% of cases all highlighted sentences are relevant to the curation task and in about 65% of the cases, the highlights are sufficient to support the knowledge curation task without needing to consult the full text. In conclusion, we believe that these are promising results for a step in automating the recognition of curation-relevant sentences. Refining our approach to pre-digest papers will lead to faster processing and cost reduction in the curation process. https://github.com/KHP-Informatics/NapEasy.

  11. The role of libraries in curation and preservation of research data in Germany: findings of a survey

    OpenAIRE

    Oßwald, Achim; Strathmann, Stefan

    2012-01-01

    In the last few years the issue of curation of research data has become a topic of enhanced interest in scientific communities. But there is no clear understanding of how to deal with curation of research data. Regarding the situation in Germany, there was no clear picture of the methods that different academic disciplines use to preserve and curate their research data. Even more there was no clear understanding and consensus which role libraries could or should play in this issue. A baseline...

  12. The DigCurV Curriculum Framework for Digital Curation in the Cultural Heritage Sector

    Directory of Open Access Journals (Sweden)

    Laura Molloy

    2014-07-01

    Full Text Available In 2013, the DigCurV collaborative network completed development of a Curriculum Framework for digital curation skills in the European cultural heritage sector. DigCurV synthesised a variety of established skills and competence models in the digital curation and LIS sectors with expertise from digital curation professionals, in order to develop a new Curriculum Framework. The resulting Framework provides a common language and helps define the skills, knowledge and abilities that are necessary for the development of digital curation training; for benchmarking existing programmes; and for promoting the continuing production, improvement and refinement of digital curation training programmes. This paper describes the salient points of this work, including how the project team conducted the research necessary to develop the Framework, the structure of the Framework, the processes used to validate the Framework, and three ‘lenses’ onto the Framework. The paper also provides suggestions as to how the Framework might be used, including a description of potential audiences and purposes.

  13. Organic Contamination Baseline Study in NASA Johnson Space Center Astromaterials Curation Laboratories

    Science.gov (United States)

    Calaway, Michael J.; Allen, Carlton C.; Allton, Judith H.

    2014-01-01

    Future robotic and human spaceflight missions to the Moon, Mars, asteroids, and comets will require curating astromaterial samples with minimal inorganic and organic contamination to preserve the scientific integrity of each sample. 21st century sample return missions will focus on strict protocols for reducing organic contamination that have not been seen since the Apollo manned lunar landing program. To properly curate these materials, the Astromaterials Acquisition and Curation Office under the Astromaterial Research and Exploration Science Directorate at NASA Johnson Space Center houses and protects all extraterrestrial materials brought back to Earth that are controlled by the United States government. During fiscal year 2012, we conducted a year-long project to compile historical documentation and laboratory tests involving organic investigations at these facilities. In addition, we developed a plan to determine the current state of organic cleanliness in curation laboratories housing astromaterials. This was accomplished by focusing on current procedures and protocols for cleaning, sample handling, and storage. While the intention of this report is to give a comprehensive overview of the current state of organic cleanliness in JSC curation laboratories, it also provides a baseline for determining whether our cleaning procedures and sample handling protocols need to be adapted and/or augmented to meet the new requirements for future human spaceflight and robotic sample return missions.

  14. Content curation en periodismo (y en documentación periodística

    Directory of Open Access Journals (Sweden)

    Javier Guallar

    2014-05-01

    Full Text Available Desde hace unos pocos años están con nosotros los conceptos de content curation y de content curator como actividad o sistema y como profesional o especialista, respectivamente. Aunque el origen del término se vincule al mundo del marketing –se considera como artículo fundacional “Manifesto for the content curator” del marketer Rohit Bhargava (2009-, y sus características se identifiquen en buena medida con las del profesional de la Información y la Documentación, la content curation va más allá de una disciplina concreta o de un rol profesional determinado. Ambos perfiles citados, marketers y bibliotecarios-documentalistas, pueden hacer content curation por supuesto, pero también otros, como educadores, por ejemplo. Y, como es el caso que tratamos aquí, periodistas (y documentalistas de prensa. Porque en estas breves líneas nos vamos a centrar en presentar el papel de la content curation en el ámbito del periodismo.

  15. From manual curation to visualization of gene families and networks across Solanaceae plant species

    Science.gov (United States)

    Pujar, Anuradha; Menda, Naama; Bombarely, Aureliano; Edwards, Jeremy D.; Strickler, Susan R.; Mueller, Lukas A.

    2013-01-01

    High-quality manual annotation methods and practices need to be scaled to the increased rate of genomic data production. Curation based on gene families and gene networks is one approach that can significantly increase both curation efficiency and quality. The Sol Genomics Network (SGN; http://solgenomics.net) is a comparative genomics platform, with genetic, genomic and phenotypic information of the Solanaceae family and its closely related species that incorporates a community-based gene and phenotype curation system. In this article, we describe a manual curation system for gene families aimed at facilitating curation, querying and visualization of gene interaction patterns underlying complex biological processes, including an interface for efficiently capturing information from experiments with large data sets reported in the literature. Well-annotated multigene families are useful for further exploration of genome organization and gene evolution across species. As an example, we illustrate the system with the multigene transcription factor families, WRKY and Small Auxin Up-regulated RNA (SAUR), which both play important roles in responding to abiotic stresses in plants. Database URL: http://solgenomics.net/ PMID:23681907

  16. Determination of protective properties of Bardejovske Kuple spa curative waters by rotational viscometry and ABTS assay

    Directory of Open Access Journals (Sweden)

    TOPOLSKA Dominika

    2014-02-01

    Full Text Available Mineral waters from Bardejovske Kupele spa are natural, strongly mineralized, with healing effects. They are classified as hydrocarbonic - containing chloride and sodium - carbonic, cold, hypotonic, with a relatively high boric acid content. Potential anti-oxidative effects of curative waters from Bardejovske Kupele were investigated against the hyaluronan (HA degradation. High-molar-mass HA was exposed to the action of ascorbate and cupric ions, which initiate free-radical chain degradation. Time-dependent changes of dynamic viscosity (h of the HA solutions were monitored by rotational viscometry. The radical scavenging capacity of curative waters was determined by the ABTS assay. Despite a significantly high content of transition metal ions, especially iron, remarkable protective effects of the two curative spa waters were found, namely Alzbeta and Klara. Even though “Alzbeta´s“ iron content was 3.5-fold higher than “Klara´s“, “Alzbeta“ was shown to have better protective properties against the HA degradation compared to “Klara“. Bolus addition of ferric ions to the reaction system instead of the natural iron-containing curative water caused a significant HA degradation. The ABTS decolorization assay revealed that the curative spa waters were proven as poorly effective scavengers of the ABTS·+ cation radical.

  17. Serum vascular endothelial growth factor is a potential biomarker of metastatic recurrence after curative resection of hepatocellular carcinoma

    Institute of Scientific and Technical Information of China (English)

    Qi Niu; Zhao You Tang; Zeng Chen Ma; Lun Xiu Qin; Lian Hai Zhang

    2000-01-01

    Hepatocellular carcinoma (HCC) is one of the most common malignancies in China. To date, surgery is still the best solution to it. However, metastatic recurrences after curative hepatic resections are very common. Tang et al have reported that recurrence rate within 5 years of curative hepatic resection is 61.5% [1]. As curative hepatic resection has a high tendency for metastatic recurrence, therapeutic interventions such as transarterial embolization and antiangiogenesis have been tried to further improve prognosis of HCC patients. Therefore, establishing a dependable, sensitive, easy, and economical method to predict metastatic recurrence following curative hepatic resection is of clinical urgency.

  18. State of the Art of Cost and Benefit Models for Digital Curation

    DEFF Research Database (Denmark)

    Kejser, Ulla Bøgvad; Davidson, Joy; Wang, David

    2014-01-01

    This paper presents the results of an evaluation carried out by the EU 4C project to assess how well current digital curation cost and benefit models meet a range of stakeholders’ needs. This work aims to elicit a means of modelling that enables comparing financial information across organisations......, to support decision-making and for selecting the most efficient processes – all of which are critical for ensuring sustainability of digital curation investment. The evaluation revealed that the most prominent challenges are associated with the models’ usability, their inability to model quality and benefits...... of curation, and the lack of a clear terminology and conceptual description of costs and benefits. The paper provides recommendations on how these gaps in cost and benefit modelling can be bridged....

  19. Ci4SeR--curation interface for semantic resources--evaluation with adverse drug reactions.

    Science.gov (United States)

    Souvignet, Julien; Asfari, Hadyl; Declerck, Gunnar; Lardon, Jérémy; Trombert-Paviot, Béatrice; Jaulent, Marie-Christine; Bousquet, Cédric

    2014-01-01

    Evaluation and validation have become a crucial problem for the development of semantic resources. We developed Ci4SeR, a Graphical User Interface to optimize the curation work (not taking into account structural aspects), suitable for any type of resource with lightweight description logic. We tested it on OntoADR, an ontology of adverse drug reactions. A single curator has reviewed 326 terms (1020 axioms) in an estimated time of 120 hours (2.71 concepts and 8.5 axioms reviewed per hour) and added 1874 new axioms (15.6 axioms per hour). Compared with previous manual endeavours, the interface allows increasing the speed-rate of reviewed concepts by 68% and axiom addition by 486%. A wider use of Ci4SeR would help semantic resources curation and improve completeness of knowledge modelling.

  20. Controlling Nutritional Status (CONUT) score is a prognostic marker for gastric cancer patients after curative resection.

    Science.gov (United States)

    Kuroda, Daisuke; Sawayama, Hiroshi; Kurashige, Junji; Iwatsuki, Masaaki; Eto, Tsugio; Tokunaga, Ryuma; Kitano, Yuki; Yamamura, Kensuke; Ouchi, Mayuko; Nakamura, Kenichi; Baba, Yoshifumi; Sakamoto, Yasuo; Yamashita, Yoichi; Yoshida, Naoya; Chikamoto, Akira; Baba, Hideo

    2017-06-27

    Controlling Nutritional Status (CONUT), as calculated from serum albumin, total cholesterol concentration, and total lymphocyte count, was previously shown to be useful for nutritional assessment. The current study investigated the potential use of CONUT as a prognostic marker in gastric cancer patients after curative resection. Preoperative CONUT was retrospectively calculated in 416 gastric cancer patients who underwent curative resection at Kumamoto University Hospital from 2005 to 2014. The patients were divided into two groups: CONUT-high (≥4) and CONUT-low (≤3), according to time-dependent receiver operating characteristic (ROC) analysis. The associations of CONUT with clinicopathological factors and survival were evaluated. CONUT-high patients were significantly older (p nutritional status but also for predicting long-term OS in gastric cancer patients after curative resection.

  1. Construction of biological networks from unstructured information based on a semi-automated curation workflow.

    Science.gov (United States)

    Szostak, Justyna; Ansari, Sam; Madan, Sumit; Fluck, Juliane; Talikka, Marja; Iskandar, Anita; De Leon, Hector; Hofmann-Apitius, Martin; Peitsch, Manuel C; Hoeng, Julia

    2015-06-17

    Capture and representation of scientific knowledge in a structured format are essential to improve the understanding of biological mechanisms involved in complex diseases. Biological knowledge and knowledge about standardized terminologies are difficult to capture from literature in a usable form. A semi-automated knowledge extraction workflow is presented that was developed to allow users to extract causal and correlative relationships from scientific literature and to transcribe them into the computable and human readable Biological Expression Language (BEL). The workflow combines state-of-the-art linguistic tools for recognition of various entities and extraction of knowledge from literature sources. Unlike most other approaches, the workflow outputs the results to a curation interface for manual curation and converts them into BEL documents that can be compiled to form biological networks. We developed a new semi-automated knowledge extraction workflow that was designed to capture and organize scientific knowledge and reduce the required curation skills and effort for this task. The workflow was used to build a network that represents the cellular and molecular mechanisms implicated in atherosclerotic plaque destabilization in an apolipoprotein-E-deficient (ApoE(-/-)) mouse model. The network was generated using knowledge extracted from the primary literature. The resultant atherosclerotic plaque destabilization network contains 304 nodes and 743 edges supported by 33 PubMed referenced articles. A comparison between the semi-automated and conventional curation processes showed similar results, but significantly reduced curation effort for the semi-automated process. Creating structured knowledge from unstructured text is an important step for the mechanistic interpretation and reusability of knowledge. Our new semi-automated knowledge extraction workflow reduced the curation skills and effort required to capture and organize scientific knowledge. The

  2. Ranking relations between diseases, drugs and genes for a curation task

    Directory of Open Access Journals (Sweden)

    Clematide Simon

    2012-10-01

    Full Text Available Abstract Background One of the key pieces of information which biomedical text mining systems are expected to extract from the literature are interactions among different types of biomedical entities (proteins, genes, diseases, drugs, etc.. Several large resources of curated relations between biomedical entities are currently available, such as the Pharmacogenomics Knowledge Base (PharmGKB or the Comparative Toxicogenomics Database (CTD. Biomedical text mining systems, and in particular those which deal with the extraction of relationships among entities, could make better use of the wealth of already curated material. Results We propose a simple and effective method based on logistic regression (also known as maximum entropy modeling for an optimized ranking of relation candidates utilizing curated abstracts. Furthermore, we examine the effects and difficulties of using widely available metadata (i.e. MeSH terms and chemical substance index terms for relation extraction. Cross-validation experiments result in an improvement of the ranking quality in terms of AUCiP/R by 39% (PharmGKB and 116% (CTD against a frequency-based baseline of 0.39 (PharmGKB and 0.21 (CTD. For the TAP-10 metrics, we achieve an improvement of 53% (PharmGKB and 134% (CTD against the same baseline system (0.21 PharmGKB and 0.15 CTD. Conclusions Our experiments with the PharmGKB and the CTD database show a strong positive effect for the ranking of relation candidates utilizing the vast amount of curated relations covered by currently available knowledge databases. The tasks of concept identification and candidate relation generation profit from the adaptation to previously curated material. This presents an effective and practical method suitable for conservative extension and re-validation of biomedical relations from texts that has been successfully used for curation experiments with the PharmGKB and CTD database.

  3. Evaluation of the Curative Effect of External Beam Radiotherapy and Brachytherapy for Tongue Carcinoma

    Institute of Scientific and Technical Information of China (English)

    Ping Wang; Qingsong Pang

    2007-01-01

    OBJECTIVE To evaluate the curative effect of external beam radiotherapy (EBRT) and brachytherapy (BT) for tongue carcinoma. METHODS From 1991 to 2003, 35 patients received EBRT and BT in our department. We analyzed their curative and side effects retrospectively. RESULTS Local control was 80%. The 3-year overall (OS) and disease specific survival (DSS) rates were 75% and 79%. One patient developed metastases. Three patients (9%) developed different late complications. CONCLUSIONS Local regional control, survival, and complications in patients with tongue carcinoma treated by EBRT and BT have been satisfactory.

  4. Prognostic impact of metastatic lymph node ratio on gastric cancer after curative distal gastrectomy

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    AIM:To investigate the prognostic impact of metastatic lymph node ratio(rN) on gastric cancer after curative distal gastrectomy.METHODS:A total of 634 gastric cancer patients who underwent curative resection(R0) of lymph nodes at distal gastrectomy in 1995-2004.Correlations between positive nodes and retrieved nodes,between rN and retrieved nodes,and between rN and negative lymph node(LN) count were analyzed respectively.Prognostic factors were identif ied by univariate and multivariate analyses.Staging acc...

  5. A Common Ground: Communication and Alliance between Cataloger and Curator for Improved Access to Rare Books and Special Collections.

    Science.gov (United States)

    Bradshaw, Elaine Beckley; Wagner, Stephen C.

    2000-01-01

    Examines rare book cataloging from the perspectives of cataloger and curator; discusses the areas where a cataloger-curator alliance can affect cataloging, as well as relevant factors over which the two have little control; and promotes a concept of customized cataloging for special collections materials. (Contains 17 references.) (Author/MES)

  6. Expert curation in UniProtKB: a case study on dealing with conflicting and erroneous data.

    Science.gov (United States)

    Poux, Sylvain; Magrane, Michele; Arighi, Cecilia N; Bridge, Alan; O'Donovan, Claire; Laiho, Kati

    2014-01-01

    UniProtKB/Swiss-Prot provides expert curation with information extracted from literature and curator-evaluated computational analysis. As knowledgebases continue to play an increasingly important role in scientific research, a number of studies have evaluated their accuracy and revealed various errors. While some are curation errors, others are the result of incorrect information published in the scientific literature. By taking the example of sirtuin-5, a complex annotation case, we will describe the curation procedure of UniProtKB/Swiss-Prot and detail how we report conflicting information in the database. We will demonstrate the importance of collaboration between resources to ensure curation consistency and the value of contributions from the user community in helping maintain error-free resources. Database URL: www.uniprot.org.

  7. PathwayBooster: a tool to support the curation of metabolic pathways.

    Science.gov (United States)

    Liberal, Rodrigo; Lisowska, Beata K; Leak, David J; Pinney, John W

    2015-03-15

    Despite several recent advances in the automated generation of draft metabolic reconstructions, the manual curation of these networks to produce high quality genome-scale metabolic models remains a labour-intensive and challenging task. We present PathwayBooster, an open-source software tool to support the manual comparison and curation of metabolic models. It combines gene annotations from GenBank files and other sources with information retrieved from the metabolic databases BRENDA and KEGG to produce a set of pathway diagrams and reports summarising the evidence for the presence of a reaction in a given organism's metabolic network. By comparing multiple sources of evidence within a common framework, PathwayBooster assists the curator in the identification of likely false positive (misannotated enzyme) and false negative (pathway hole) reactions. Reaction evidence may be taken from alternative annotations of the same genome and/or a set of closely related organisms. By integrating and visualising evidence from multiple sources, PathwayBooster reduces the manual effort required in the curation of a metabolic model. The software is available online at http://www.theosysbio.bio.ic.ac.uk/resources/pathwaybooster/ .

  8. Current Trends and Future Directions in Data Curation Research and Education

    Science.gov (United States)

    Weber, Nicholas M.; Palmer, Carole L.; Chao, Tiffany C.

    2012-01-01

    Digital research data have introduced a new set of collection, preservation, and service demands into the tradition of digital librarianship. Consequently, the role of an information professional has evolved to include the activities of data curation. This new field more specifically addresses the needs of stewarding and preserving digital…

  9. Data curation for a VALID Archive of Dutch Language Impairment Data

    NARCIS (Netherlands)

    van den Heuvel, H.; Sanders, E.; Klatter, J.; van Hout, R.; Fikkert, P.; Baker, A.; de Jong, J.; Wijnen, F.; Trilsbeek, P.

    2014-01-01

    The VALID Data Archive is an open multimedia data archive in which data from children and adults with language and/or communication problems are brought together. A pilot project, funded by CLARIN-NL, was carried out in which five existing data sets were curated. This pilot enabled us to build up ex

  10. Content Curation for Research: A Framework for Building a “Data Museum”

    Directory of Open Access Journals (Sweden)

    San Cannon

    2015-06-01

    Full Text Available In the current digital age, data are everywhere and are continually being created, collected and otherwise captured by a range of users for a variety of applications. Curating digital content is a growing concern both for business users and academic researchers. Selecting, collecting, preserving and archiving digital assets, especially research data sets, are important steps in the research life cycle and can help expand the boundaries of research by allowing data to be reused. Creating research data sets often starts with selecting input data sources; in this age of new or “big” data, that choice set keeps expanding, thereby making it more difficult and time consuming to discover and understand the vast data landscape when beginning an empirical research project. This paper proposes an approach to make finding and learning about data easier and less time-consuming for researchers. While cognizant of the role of digital curation for research data sets, we focus on the traditional “museum” definition of curation to outline how data-oriented content curation can support research. The process of selecting, evaluating and presenting information about potential data inputs can help researchers more easily understand how certain data sets are used and better determine which data sources might be fit for their purposes. Although the paper draws on examples from economics citing U.S. data, the techniques could be used across disciplines and countries.

  11. Curation-Based Network Marketing: Strategies for Network Growth and Electronic Word-of-Mouth Diffusion

    Science.gov (United States)

    Church, Earnie Mitchell, Jr.

    2013-01-01

    In the last couple of years, a new aspect of online social networking has emerged, in which the strength of social network connections is based not on social ties but mutually shared interests. This dissertation studies these "curation-based" online social networks (CBN) and their suitability for the diffusion of electronic word-of-mouth…

  12. Introverts and Extraverts Reflecting on the Experience of Parish Ministry: Conversation between Training Incumbents and Curates

    Science.gov (United States)

    Francis, Leslie J.; Smith, Greg

    2016-01-01

    Psychological type theory suggests that introverts and extraverts may approach Christian ministry somewhat differently. This theory was tested within the context of a residential workshop attended by 15 curates, 12 of whom were accompanied by their training incumbents. Twelve themes were identified within responses to the question, "What does…

  13. Competency-Based Curriculum: An Effective Approach to Digital Curation Education

    Science.gov (United States)

    Kim, Jeonghyun

    2015-01-01

    The University of North Texas conducted a project involving rigorous curriculum development and instructional design to address the goal of building capacity in the Library and Information Sciences curriculum. To prepare information professionals with the competencies needed for digital curation and data management practice, the project developed…

  14. The Five Cs of Digital Curation: Supporting Twenty-First-Century Teaching and Learning

    Science.gov (United States)

    Deschaine, Mark E.; Sharma, Sue Ann

    2015-01-01

    Digital curation is a process that allows university professors to adapt and adopt resources from multidisciplinary fields to meet the educational needs of twenty-first-century learners. Looking through the lens of new media literacy studies (Vasquez, Harste, & Albers, 2010) and new literacies studies (Gee, 2010), we propose that university…

  15. Prognostic significance of clusterin expression in advanced-stage cervical cancer treated with curative intended radiotherapy.

    Science.gov (United States)

    Watari, Hidemichi; Kinoshita, Rumiko; Han, Yimin; Wang, Lei; Hosaka, Masayoshi; Taguchi, Hiroshi; Tsuchiya, Kazuhiko; Tanaka, Shinya; Shirato, Hiroki; Sakuragi, Noriaki

    2012-03-01

    Overexpression of clusterin (CLU), an antiapoptotic molecule, has been reported to induce resistance to radiotherapy (RT) in a variety of cancer cell types. The aim of this study was to evaluate the significance of CLU expression to predict survival of patients with advanced-stage cervical cancer who received curative intended RT. Biopsy tissue specimens of advanced-stage cervical cancer before curative intended RT were obtained from 34 patients who were treated at Hokkaido University Hospital between 1998 and 2008 and whose complete medical records were available. The expression of CLU protein was analyzed by immunohistochemistry. Findings were evaluated in relation to several clinicopathological factors. Survival analyses were performed using the Kaplan-Meier curves and the log-rank test. Independent prognostic factors were determined by multivariate Cox regression analysis. Clusterin protein was mainly present in the cytoplasm of cervical cancer cells. The expression of CLU protein in cervical cancer tissues before curative intended RT was not significantly related to any clinicopathological factors analyzed, including age, clinical stage, histologic type, and response to RT. Univariate analysis on prognostic factors showed that histologic type (P = 0.001), and CLU expression (P = 0.02) were related to survival. Multivariate analysis revealed that both histologic type (P = 0.002), and CLU expression (P = 0.02) were independent prognostic factors for overall survival. We conclude that CLU could be a new molecular marker to predict overall survival of patients with advanced-stage cervical cancer treated with curative intended RT.

  16. CARD 2017: expansion and model-centric curation of the Comprehensive Antibiotic Resistance Database

    Science.gov (United States)

    The Comprehensive Antibiotic Resistance Database (CARD; http://arpcard.mcmaster.ca) is a manually curated resource containing high quality reference data on the molecular basis of antimicrobial resistance (AMR), with an emphasis on the genes, proteins, and mutations involved in AMR. CARD is ontologi...

  17. Social Media Selves: College Students' Curation of Self and Others through Facebook

    Science.gov (United States)

    Kasch, David Michael

    2013-01-01

    This qualitative study used cyber-ethnography and grounded theory to explore the ways in which 35 undergraduate students crafted and refined self-presentations on the social network site Facebook. Findings included the identification of two unique forms of self-presentation that students enacted: a "curated self" and a "commodified…

  18. Anastomotic Leak Increases Distant Recurrence and Long-Term Mortality After Curative Resection for Colonic Cancer

    DEFF Research Database (Denmark)

    Krarup, Peter-Martin; Nordholm-Carstensen, Andreas; Jorgensen, Lars N

    2014-01-01

    OBJECTIVE: To investigate the impact of anastomotic leak (AL) on disease recurrence and long-term mortality in patients alive 120 days after curative resection for colonic cancer. BACKGROUND: There is no solid data as to whether AL after colonic cancer surgery increases the risk of disease recurr...

  19. Research on short-term curative effect of VATS-assisted NUSS procedure in treating PE

    Institute of Scientific and Technical Information of China (English)

    Xin-Hui Rao; Yun-Han Liu; Jin-Song Liang; Gang Chen; Jian Li

    2015-01-01

    Objective: To study the short-term curative effect and the occurrence of postoperative complications of VATS-assisted NUSS procedure in treating congenital pectus excavatum (PE). Methods: 96 patients with congenital PE admitted into our hospital from March, 2008 to June, 2014 were chosen and divided into the study group and the control group randomly. Patients in the study group received VATS-assisted NUSS procedure while patients in the control group were treated with traditional NUSS procedure. Blood pressure, heart rate, operating time, blood loss, the length of hospital stay and ICU stay of all the patients during perioperative period were recorded. And a three-month follow-up was performed to record the short-term curative effects and the occurrence of postoperative complications.Results: The operating time, blood loss, length of hospital stay of the study group were remarkably less than those of the control group (P0.05). The excellent and good rate of curative effect and the total score of M-SSQ of the study group were significantly higher than those of the control group (P<0.05), while the occurrence of postoperative complications of the study group was significantly lower than that of the control group (P<0.05).Conclusions: With better short-term curative effect and less postoperative complications, VATS-assisted NUSS procedure could be regarded as a reliable and effective therapy for congenital PE.

  20. Postoperative Helicobacter pylori Infection as a Prognostic Factor for Gastric Cancer Patients after Curative Resection.

    Science.gov (United States)

    Jung, Da Hyun; Lee, Yong Chan; Kim, Jie-Hyun; Chung, Hyunsoo; Park, Jun Chul; Shin, Sung Kwan; Lee, Sang Kil; Kim, Hyoung-Il; Hyung, Woo Jin; Noh, Sung Hoon

    2017-09-15

    Few studies have evaluated the effect of Helicobacter pylori infection on the prognosis of patients diagnosed with gastric cancer (GC) after curative surgery. We investigated the association between the H. pylori infection status and clinical outcome after surgery. We assessed the H. pylori status of 314 patients who underwent curative resection for GC. The H. pylori status was examined using a rapid urease test 2 months after resection. Patients were followed for 10 years after surgery. An H. pylori infection was observed in 128 of 314 patients. The median follow-up period was 93.5 months. A Kaplan-Meier analysis indicated that patients with H. pylori had a higher cumulative survival rate than those who were negative for H. pylori. Patients with stage II cancer who tested negative for H. pylori were associated with a poor outcome. In a multivariate analysis, H. pylori-negative status was a significant independent prognostic factor for poor overall survival. Having a negative H. pylori infection status seems to indicate poor prognosis for patients with GC who have undergone curative resection. Further prospective controlled studies are needed to evaluate the mechanism by which H. pylori affects GC patients after curative surgery in Korea.

  1. Current Trends and Future Directions in Data Curation Research and Education

    Science.gov (United States)

    Weber, Nicholas M.; Palmer, Carole L.; Chao, Tiffany C.

    2012-01-01

    Digital research data have introduced a new set of collection, preservation, and service demands into the tradition of digital librarianship. Consequently, the role of an information professional has evolved to include the activities of data curation. This new field more specifically addresses the needs of stewarding and preserving digital…

  2. Data Stewardship: Environmental Data Curation and a Web-of-Repositories

    Directory of Open Access Journals (Sweden)

    Karen S. Baker

    2009-10-01

    Full Text Available Scientific researchers today frequently package measurements and associated metadata as digital datasets in anticipation of storage in data repositories. Through the lens of environmental data stewardship, we consider the data repository as an organizational element central to data curation. One aspect of non-commercial repositories, their distance-from-origin of the data, is explored in terms of near and remote categories. Three idealized repository types are distinguished – local, center, and archive - paralleling research, resource, and reference collection categories respectively. Repository type characteristics such as scope, structure, and goals are discussed. Repository similarities in terms of roles, activities and responsibilities are also examined. Data stewardship is related to care of research data and responsible scientific communication supported by an infrastructure that coordinates curation activities; data curation is defined as a set of repeated and repeatable activities focusing on tending data and creating data products within a particular arena. The concept of “sphere-of-context” is introduced as an aid to distinguishing repository types. Conceptualizing a “web-of-repositories” accommodates a variety of repository types and represents an ecologically inclusive approach to data curation.

  3. A Study of Faculty Data Curation Behaviors and Attitudes at a Teaching-Centered University

    Science.gov (United States)

    Scaramozzino, Jeanine Marie; Ramírez, Marisa L.; McGaughey, Karen J.

    2012-01-01

    Academic libraries need reliable information on researcher data needs, data curation practices, and attitudes to identify and craft appropriate services that support outreach and teaching. This paper describes information gathered from a survey distributed to the College of Science and Mathematics faculty at California Polytechnic State…

  4. Automated alignment-based curation of gene models in filamentous fungi

    NARCIS (Netherlands)

    Burgt, van der A.; Severing, E.I.; Collemare, J.A.R.; Wit, de P.J.G.M.

    2014-01-01

    Background Automated gene-calling is still an error-prone process, particularly for the highly plastic genomes of fungal species. Improvement through quality control and manual curation of gene models is a time-consuming process that requires skilled biologists and is only marginally performed. The

  5. State of the Art of Cost and Benefit Models for Digital Curation

    DEFF Research Database (Denmark)

    Kejser, Ulla Bøgvad; Davidson, Joy; Wang, David

    2014-01-01

    This paper presents the results of an evaluation carried out by the EU 4C project to assess how well current digital curation cost and benefit models meet a range of stakeholders’ needs. This work aims to elicit a means of modelling that enables comparing financial information across organisation...

  6. Competency-Based Curriculum: An Effective Approach to Digital Curation Education

    Science.gov (United States)

    Kim, Jeonghyun

    2015-01-01

    The University of North Texas conducted a project involving rigorous curriculum development and instructional design to address the goal of building capacity in the Library and Information Sciences curriculum. To prepare information professionals with the competencies needed for digital curation and data management practice, the project developed…

  7. Patient Preferences for the Disclosure of Prognosis After Esophagectomy for Cancer with Curative Intent

    NARCIS (Netherlands)

    Lagarde, Sjoerd M.; Franssen, Sanne J.; van Werven, Jochem R.; Smets, Ellen M. A.; Tran, T. C. Khe; Tilanus, Hugo W.; Plukker, John Th. M.; de Haes, Johanna C. J. M.; van Lanschot, J. Jan B.

    2008-01-01

    Introduction: The aim of this study was to determine the preferences for content, style, and format of prognostic information of patients after potentially curative esophagectomy for cancer and to explore predictors of these preferences. Patients and Methods: This multicenter study included a consec

  8. Active and Social Data Curation: Reinventing the Business of Community-scale Lifecycle Data Management

    Science.gov (United States)

    McDonald, R. H.; Kumar, P.; Plale, B. A.; Myers, J.; Hedstrom, M. L.

    2012-12-01

    Effective long-term curation and preservation of data for community use has historically been limited to high-value and homogeneous collections produced by mission-oriented organizations. The technologies and practices that have been applied in these cases, e.g. relational data bases, development of comprehensive standardized vocabularies, and centralized support for reference data collections, are arguably applicable to the much broader range of data generated by the long tail of investigator-led research, with the logical conclusion of such an argument leading to the call for training, evangelism, and vastly increased funding as the best means of broadening community-scale data management. In this paper, we question this reasoning and explore how alternative approaches focused on the overall data lifecycle and the sociological and business realities of distributed multi-disciplinary research communities might dramatically lower costs, increase value, and consequently drive dramatic advances in our ability to use and re-use data, and ultimately enable more rapid scientific advance. Specifically, we introduce the concepts of active and social curation as a means to decrease coordination costs, align costs and values for individual data producers and data consumers, and improve the immediacy of returns for data curation investments. Further, we describe the specific architecture and services for active and social curation that are being prototyped within the Sustainable Environment - Actionable Data (SEAD) project within NSF's DataNet network and discuss how they are motivated by the long-tail dynamics in the cross-disciplinary sustainability research community.

  9. Curation of Asteroid Bennu Samples for the OSIRIS-REx Mission

    Science.gov (United States)

    Righter, K.; Nakumara-Messenger, K.

    2015-01-01

    The OSIRIS-REx asteroid sample return mission will collect approximately150 g of material from carbonaceous asteroid Bennu and return it to Earth in 2023. The sample will be curated along with NASA's other astromaterials sample collections at Johnson Space Center (JSC) in Houston. As part of the mission planning, JSC will be engaged in the following four general activities.

  10. Text mining and manual curation of chemical-gene-disease networks for the comparative toxicogenomics database (CTD).

    Science.gov (United States)

    Wiegers, Thomas C; Davis, Allan Peter; Cohen, K Bretonnel; Hirschman, Lynette; Mattingly, Carolyn J

    2009-10-08

    The Comparative Toxicogenomics Database (CTD) is a publicly available resource that promotes understanding about the etiology of environmental diseases. It provides manually curated chemical-gene/protein interactions and chemical- and gene-disease relationships from the peer-reviewed, published literature. The goals of the research reported here were to establish a baseline analysis of current CTD curation, develop a text-mining prototype from readily available open source components, and evaluate its potential value in augmenting curation efficiency and increasing data coverage. Prototype text-mining applications were developed and evaluated using a CTD data set consisting of manually curated molecular interactions and relationships from 1,600 documents. Preliminary results indicated that the prototype found 80% of the gene, chemical, and disease terms appearing in curated interactions. These terms were used to re-rank documents for curation, resulting in increases in mean average precision (63% for the baseline vs. 73% for a rule-based re-ranking), and in the correlation coefficient of rank vs. number of curatable interactions per document (baseline 0.14 vs. 0.38 for the rule-based re-ranking). This text-mining project is unique in its integration of existing tools into a single workflow with direct application to CTD. We performed a baseline assessment of the inter-curator consistency and coverage in CTD, which allowed us to measure the potential of these integrated tools to improve prioritization of journal articles for manual curation. Our study presents a feasible and cost-effective approach for developing a text mining solution to enhance manual curation throughput and efficiency.

  11. Discovering New Global Climate Patterns: Curating a 21-Year High Temporal (Hourly) and Spatial (40km) Resolution Reanalysis Dataset

    Science.gov (United States)

    Hou, C. Y.; Dattore, R.; Peng, G. S.

    2014-12-01

    The National Center for Atmospheric Research's Global Climate Four-Dimensional Data Assimilation (CFDDA) Hourly 40km Reanalysis dataset is a dynamically downscaled dataset with high temporal and spatial resolution. The dataset contains three-dimensional hourly analyses in netCDF format for the global atmospheric state from 1985 to 2005 on a 40km horizontal grid (0.4°grid increment) with 28 vertical levels, providing good representation of local forcing and diurnal variation of processes in the planetary boundary layer. This project aimed to make the dataset publicly available, accessible, and usable in order to provide a unique resource to allow and promote studies of new climate characteristics. When the curation project started, it had been five years since the data files were generated. Also, although the Principal Investigator (PI) had generated a user document at the end of the project in 2009, the document had not been maintained. Furthermore, the PI had moved to a new institution, and the remaining team members were reassigned to other projects. These factors made data curation in the areas of verifying data quality, harvest metadata descriptions, documenting provenance information especially challenging. As a result, the project's curation process found that: Data curator's skill and knowledge helped make decisions, such as file format and structure and workflow documentation, that had significant, positive impact on the ease of the dataset's management and long term preservation. Use of data curation tools, such as the Data Curation Profiles Toolkit's guidelines, revealed important information for promoting the data's usability and enhancing preservation planning. Involving data curators during each stage of the data curation life cycle instead of at the end could improve the curation process' efficiency. Overall, the project showed that proper resources invested in the curation process would give datasets the best chance to fulfill their potential to

  12. Kant en los problemas de filosofía de la mente contemporánea entre D. Davidson y J. Kim: un argumento a favor del Monismo Anómalo

    OpenAIRE

    Martínez Gómez, José Nicolás

    2016-01-01

    El Monismo Anómalo que Donald Davidson postuló como posible derrotero a propósito de los problemas latentes en filosofía de la mente contemporánea ha sido víctima de serias críticas, en especial aquellas planteadas por Jaegwon Kim. Sin embargo, una lectura que incluya las referencia que Davidson hizo del proyecto que Kant desarrolló en la Tercera Antinomia de la Razón Pura puede servir para ofrecer una lectura a favor de su proyecto.

  13. Kim Brandt, Kingdom of Beauty: Mingei and the Politics of Folk Art in Imperial Japan (Le royaume de la beauté : le Mingei et la politique de l’art populaire dans le Japon impérial

    OpenAIRE

    Sablé-Denans, Nadia

    2014-01-01

    L’exposition proposée par le Musée du quai Branly en 2008-2009 sur les objets et l’esthétique mingei a donné l’occasion de parcourir les derniers ouvrages parus sur le sujet. La monographie de Kim Brandt, professeure associée en histoire japonaise à l’Université Columbia, mérite sa place parmi ces lectures. Chronologiquement organisé, Kingdom of Beauty expose l’histoire du mouvement pour les Arts populaires de ses origines, dans les années 1920, à la fin de la Seconde Guerre mondiale, en lien...

  14. Argo: an integrative, interactive, text mining-based workbench supporting curation

    Science.gov (United States)

    Rak, Rafal; Rowley, Andrew; Black, William; Ananiadou, Sophia

    2012-01-01

    Curation of biomedical literature is often supported by the automatic analysis of textual content that generally involves a sequence of individual processing components. Text mining (TM) has been used to enhance the process of manual biocuration, but has been focused on specific databases and tasks rather than an environment integrating TM tools into the curation pipeline, catering for a variety of tasks, types of information and applications. Processing components usually come from different sources and often lack interoperability. The well established Unstructured Information Management Architecture is a framework that addresses interoperability by defining common data structures and interfaces. However, most of the efforts are targeted towards software developers and are not suitable for curators, or are otherwise inconvenient to use on a higher level of abstraction. To overcome these issues we introduce Argo, an interoperable, integrative, interactive and collaborative system for text analysis with a convenient graphic user interface to ease the development of processing workflows and boost productivity in labour-intensive manual curation. Robust, scalable text analytics follow a modular approach, adopting component modules for distinct levels of text analysis. The user interface is available entirely through a web browser that saves the user from going through often complicated and platform-dependent installation procedures. Argo comes with a predefined set of processing components commonly used in text analysis, while giving the users the ability to deposit their own components. The system accommodates various areas and levels of user expertise, from TM and computational linguistics to ontology-based curation. One of the key functionalities of Argo is its ability to seamlessly incorporate user-interactive components, such as manual annotation editors, into otherwise completely automatic pipelines. As a use case, we demonstrate the functionality of an in

  15. Text mining facilitates database curation - extraction of mutation-disease associations from Bio-medical literature.

    Science.gov (United States)

    Ravikumar, Komandur Elayavilli; Wagholikar, Kavishwar B; Li, Dingcheng; Kocher, Jean-Pierre; Liu, Hongfang

    2015-06-06

    Advances in the next generation sequencing technology has accelerated the pace of individualized medicine (IM), which aims to incorporate genetic/genomic information into medicine. One immediate need in interpreting sequencing data is the assembly of information about genetic variants and their corresponding associations with other entities (e.g., diseases or medications). Even with dedicated effort to capture such information in biological databases, much of this information remains 'locked' in the unstructured text of biomedical publications. There is a substantial lag between the publication and the subsequent abstraction of such information into databases. Multiple text mining systems have been developed, but most of them focus on the sentence level association extraction with performance evaluation based on gold standard text annotations specifically prepared for text mining systems. We developed and evaluated a text mining system, MutD, which extracts protein mutation-disease associations from MEDLINE abstracts by incorporating discourse level analysis, using a benchmark data set extracted from curated database records. MutD achieves an F-measure of 64.3% for reconstructing protein mutation disease associations in curated database records. Discourse level analysis component of MutD contributed to a gain of more than 10% in F-measure when compared against the sentence level association extraction. Our error analysis indicates that 23 of the 64 precision errors are true associations that were not captured by database curators and 68 of the 113 recall errors are caused by the absence of associated disease entities in the abstract. After adjusting for the defects in the curated database, the revised F-measure of MutD in association detection reaches 81.5%. Our quantitative analysis reveals that MutD can effectively extract protein mutation disease associations when benchmarking based on curated database records. The analysis also demonstrates that incorporating

  16. On Films Directed by Ki-duk Kim and Dual Cultural Context in Criticism%金基德电影及批评的二元文化语境

    Institute of Scientific and Technical Information of China (English)

    裴媛媛

    2015-01-01

    By adopting symbolic signs in his independent films, Ki-duk Kim combines mysteries in Eastern culture and rational reflection in Western culture. He aims at the western European market, and attempts to impose Eastern cultural elements to the Westerners, causing a wide range of criticism made by criticizers in his own country. By an analysis of the films directed by Ki-duk Kim, it is proposed that the dual cultural context makes it possible that people can expect the co-existence of multi-cultural elements.%金基德的独立电影通常采用符号化的象征手法,将东方文化的神性感知与西方文化的理性反思融合在一起。他立足于西欧市场,试图把东方文化元素贩卖到西方去,这看似一种国际视野,却惹来本土批论家的一片唏嘘。综观金基德的电影创作及批评接受,二元文化语境的双重叙事,为实现多元文化的通约共存,提供了一种理论预设和期待可能性。

  17. Outcomes of the 'Data Curation for Geobiology at Yellowstone National Park' Workshop

    Science.gov (United States)

    Thomer, A.; Palmer, C. L.; Fouke, B. W.; Rodman, A.; Choudhury, G. S.; Baker, K. S.; Asangba, A. E.; Wickett, K.; DiLauro, T.; Varvel, V.

    2013-12-01

    The continuing proliferation of geological and biological data generated at scientifically significant sites (such as hot springs, coral reefs, volcanic fields and other unique, data-rich locales) has created a clear need for the curation and active management of these data. However, there has been little exploration of what these curation processes and policies would entail. To that end, the Site-Based Data Curation (SBDC) project is developing a framework of guidelines and processes for the curation of research data generated at scientifically significant sites. A workshop was held in April 2013 at Yellowstone National Park (YNP) to gather input from scientists and stakeholders. Workshop participants included nine researchers actively conducting geobiology research at YNP, and seven YNP representatives, including permitting staff and information professionals from the YNP research library and archive. Researchers came from a range of research areas -- geology, molecular and microbial biology, ecology, environmental engineering, and science education. Through group discussions, breakout sessions and hands-on activities, we sought to generate policy recommendations and curation guidelines for the collection, representation, sharing and quality control of geobiological datasets. We report on key themes that emerged from workshop discussions, including: - participants' broad conceptions of the long-term usefulness, reusability and value of data. - the benefits of aggregating site-specific data in general, and geobiological data in particular. - the importance of capturing a dataset's originating context, and the potential usefulness of photographs as a reliable and easy way of documenting context. - researchers' and resource managers' overlapping priorities with regards to 'big picture' data collection and management in the long-term. Overall, we found that workshop participants were enthusiastic and optimistic about future collaboration and development of community

  18. LiverCancerMarkerRIF: a liver cancer biomarker interactive curation system combining text mining and expert annotations

    Science.gov (United States)

    Dai, Hong-Jie; Wu, Johnny Chi-Yang; Lin, Wei-San; Reyes, Aaron James F.; dela Rosa, Mira Anne C.; Syed-Abdul, Shabbir; Tsai, Richard Tzong-Han; Hsu, Wen-Lian

    2014-01-01

    Biomarkers are biomolecules in the human body that can indicate disease states and abnormal biological processes. Biomarkers are often used during clinical trials to identify patients with cancers. Although biomedical research related to biomarkers has increased over the years and substantial effort has been expended to obtain results in these studies, the specific results obtained often contain ambiguities, and the results might contradict each other. Therefore, the information gathered from these studies must be appropriately integrated and organized to facilitate experimentation on biomarkers. In this study, we used liver cancer as the target and developed a text-mining–based curation system named LiverCancerMarkerRIF, which allows users to retrieve biomarker-related narrations and curators to curate supporting evidence on liver cancer biomarkers directly while browsing PubMed. In contrast to most of the other curation tools that require curators to navigate away from PubMed and accommodate distinct user interfaces or Web sites to complete the curation process, our system provides a user-friendly method for accessing text-mining–aided information and a concise interface to assist curators while they remain at the PubMed Web site. Biomedical text-mining techniques are applied to automatically recognize biomedical concepts such as genes, microRNA, diseases and investigative technologies, which can be used to evaluate the potential of a certain gene as a biomarker. Through the participation in the BioCreative IV user-interactive task, we examined the feasibility of using this novel type of augmented browsing-based curation method, and collaborated with curators to curate biomarker evidential sentences related to liver cancer. The positive feedback received from curators indicates that the proposed method can be effectively used for curation. A publicly available online database containing all the aforementioned information has been constructed at http

  19. Surveillance of patients following surgery with curative intent for colorectal cancer

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Surveillance after resection of colorectal cancer with curative intent is an important component of post-operative care. Clinical review, imaging, colonoscopy, and cost to the community are among significant issues to consider in planning a surveillance regime. This review aims to identify the available evidence for the use of surveillance and its individual components. The literature pertaining to follow-up of patients following potentially curative surgery for colorectal cancer was reviewed in order to formulate a summary of the wide range of clinical practice. There is evidence of improved survival of patients undergoing more intense follow-up compared with those having minimal surveillance, with an estimated overall 5-year gain of up to 10%. The efficacy of individual components of follow-up regimes remains unclear, but an review, liver imaging, and colonoscopy appears to be of benefit It is cost-effective and can be specialist or community-based.

  20. Curating Complex, Dynamic and Distributed Data: Telehealth as a Laboratory for Strategy

    Directory of Open Access Journals (Sweden)

    Jenny Ure

    2011-10-01

    Full Text Available Telehealth monitoring data is now being collected across large populations of patients with chronic diseases such as stroke, hypertension, COPD and dementia. These large, complex and heterogeneous datasets, including distributed sensor and mobile datasets, present real opportunities for knowledge discovery and re-use, however they also generate new challenges for curation. This paper uses qualitative research with stakeholders in two nationally-funded telehealth projects to outline the perceptions, practices and preferences of different stakeholders with regard to data curation. Telehealth provides a living laboratory for the very different challenges implicit in designing and managing data infrastructure for embedded and ubiquitous computing. Here, technical and human agents are distributed, and interaction and state change is a central component of design, rather than an inconvenient challenge to it. The authors argue that there are lessons to be learned from other domains where data infrastructure has been radically rethought to address these challenges.

  1. A site-specific curated database for the microorganisms of activated sludge and anaerobic digesters

    DEFF Research Database (Denmark)

    McIlroy, Simon Jon; Kirkegaard, Rasmus Hansen; McIlroy, Bianca

    the composition and dynamics of the most abundant organisms. However, to understand the relationship between the population dynamics and operational parameters of the system, a functional role must be attributed to each organism. The Microbial Database for Activated Sludge (MiDAS) and Anaerobic Digesters (AD......) presented here provides a site specific curated taxonomy for abundant and important microorganisms and integrates it into a community knowledge web platform about the microbes in activated sludge (AS) and their associated ADs (www.midasfieldguide.org). The MiDAS taxonomy, a manual curation of the SILVA......, to improve the classification of unknown organisms and link these names to the wealth of present and future functional information about their ecology....

  2. Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking

    DEFF Research Database (Denmark)

    Wang, Mingxun; Carver, Jeremy J.; Pevzner, Pavel

    2016-01-01

    The potential of the diverse chemistries present in natural products (NP) for biotechnology and medicine remains untapped because NP databases are not searchable with raw data and the NP community has no way to share data other than in published papers. Although mass spectrometry (MS) techniques...... are well-suited to high-throughput characterization of NP, there is a pressing need for an infrastructure to enable sharing and curation of data. We present Global Natural Products Social Molecular Networking (GNPS; http://gnps.ucsd.edu), an open-access knowledge base for community-wide organization...... and sharing of raw, processed or identified tandem mass (MS/MS) spectrometry data. In GNPS, crowdsourced curation of freely available community-wide reference MS libraries will underpin improved annotations. Data-driven social-networking should facilitate identification of spectra and foster collaborations...

  3. Changing the Curation Equation: A Data Lifecycle Approach to Lowering Costs and Increasing Value

    Science.gov (United States)

    Myers, J.; Hedstrom, M.; Plale, B. A.; Kumar, P.; McDonald, R.; Kooper, R.; Marini, L.; Kouper, I.; Chandrasekar, K.

    2013-12-01

    What if everything that researchers know about their data, and everything their applications know, were directly available to curators? What if all the information that data consumers discover and infer about data were also available? What if curation and preservation activities occurred incrementally, during research projects instead of after they end, and could be leveraged to make it easier to manage research data from the moment of its creation? These are questions that the Sustainable Environments - Actionable Data (SEAD) project, funded as part of the National Science Foundation's DataNet partnership, was designed to answer. Data curation is challenging, but it is made more difficult by the historical separation of data production, data use, and formal curation activities across organizations, locations, and applications, and across time. Modern computing and networking technologies allow a much different approach in which data and metadata can easily flow between these activities throughout the data lifecycle, and in which heterogeneous and evolving data and metadata can be managed. Sustainability research, SEAD's initial focus area, is a clear example of an area where the nature of the research (cross-disciplinary, integrating heterogeneous data from independent sources, small teams, rapid evolution of sensing and analysis techniques) and the barriers and costs inherent in traditional methods have limited adoption of existing curation tools and techniques, to the detriment of overall scientific progress. To explore these ideas and create a sustainable curation capability for communities such as sustainability research, the SEAD team has developed and is now deploying an interacting set of open source data services that demonstrate this approach. These services provide end-to-end support for management of data during research projects; publication of that data into long-term archives; and integration of it into community networks of publications, research

  4. Curative effect of minimally invasive sclera buckling on single retinal detachment

    Directory of Open Access Journals (Sweden)

    Yun-Huan Li

    2015-02-01

    Full Text Available AIM: To investigate the curative effect of minimally invasive sclera buckling on single retinal detachment. METHODS:Totally, 100 cases of patients with retinal detachment(106 eyesenrolled in our hospital were randomly divided into observation group and control group, 53 eyes in each group. Patients in observation group were treated with minimally invasive sclera buckling, while patients in control group received traditional limbal conjunctival incision. After surgery, patients were all followed up for 6~18mo, during which the retinal recurrence situation, degree of vision enhancement and compliance occurrence rate was recorded. RESULTS: The retinal reattachment rate once of observation group(96.22%was significantly higher than that of control group(88.68%, there was statistically significance(PPPCONCLUSION: The improved minimally invasive sclera buckling can significantly enhance the curative effect for retinal detachment, decrease the compliance occurrence rate, improve vision function, and is a scientific, practical and rigorous tool for retinal detachment treatment.

  5. When a Patient Declines Curative Care: Management of a Ruptured Aortic Aneurysm

    Directory of Open Access Journals (Sweden)

    Sangeeta Lamba

    2013-09-01

    Full Text Available The management of major vascular emergencies in the emergency department (ED involves rapid, aggressive resuscitation followed by emergent definitive surgery. However, for some patients this traditional approach may not be consistent with their goals and values. We explore the appropriate way to determine best treatment practices when patients elect to forego curative care in the ED, while reviewing such a case. We present the case of a 72-year-old patient who presented to the ED with a ruptured abdominal aortic aneurysm, but refused surgery. We discuss the transition of the patient from a curative to a comfort care approach with appropriate direct referral to hospice from the ED. Using principles of autonomy, decision-making capacity, informed consent, prognostication, and goals-of-care, ED clinicians are best able to align their approach with patients’ goals and values. [West J Emerg Med. 2013;14(5:555–558.

  6. MouseCyc: a curated biochemical pathways database for the laboratory mouse

    OpenAIRE

    Evsikov, Alexei V.; Dolan, Mary E.; Genrich, Michael P; Patek, Emily; Bult, Carol J.

    2009-01-01

    Linking biochemical genetic data to the reference genome for the laboratory mouse is important for comparative physiology and for developing mouse models of human biology and disease. We describe here a new database of curated metabolic pathways for the laboratory mouse called MouseCyc . MouseCyc has been integrated with genetic and genomic data for the laboratory mouse available from the Mouse Genome Informatics database and with pathway data from other organisms, including human.

  7. Community intelligence in knowledge curation: an application to managing scientific nomenclature.

    Directory of Open Access Journals (Sweden)

    Lin Dai

    Full Text Available Harnessing community intelligence in knowledge curation bears significant promise in dealing with communication and education in the flood of scientific knowledge. As knowledge is accumulated at ever-faster rates, scientific nomenclature, a particular kind of knowledge, is concurrently generated in all kinds of fields. Since nomenclature is a system of terms used to name things in a particular discipline, accurate translation of scientific nomenclature in different languages is of critical importance, not only for communications and collaborations with English-speaking people, but also for knowledge dissemination among people in the non-English-speaking world, particularly young students and researchers. However, it lacks of accuracy and standardization when translating scientific nomenclature from English to other languages, especially for those languages that do not belong to the same language family as English. To address this issue, here we propose for the first time the application of community intelligence in scientific nomenclature management, namely, harnessing collective intelligence for translation of scientific nomenclature from English to other languages. As community intelligence applied to knowledge curation is primarily aided by wiki and Chinese is the native language for about one-fifth of the world's population, we put the proposed application into practice, by developing a wiki-based English-to-Chinese Scientific Nomenclature Dictionary (ESND; http://esnd.big.ac.cn. ESND is a wiki-based, publicly editable and open-content platform, exploiting the whole power of the scientific community in collectively and collaboratively managing scientific nomenclature. Based on community curation, ESND is capable of achieving accurate, standard, and comprehensive scientific nomenclature, demonstrating a valuable application of community intelligence in knowledge curation.

  8. Special Article: Howard Dittrick: curator to the McMechans' legacy journal.

    Science.gov (United States)

    Bause, George S; Edmonson, James M

    2012-12-01

    A noted medical historian and museum curator, Canadian American Howard Dittrick was a Cleveland gynecologist who served as Directing Editor of Current Researches in Anesthesia and Analgesia (1940-1954). In the aftermath of World War II, even after Congresses of Anesthetists had resumed, Dittrick and his editorial board allowed their yellow, then tan-covered journal, the so-called "yellow peril," to languish into near irrelevance.

  9. Prognostic factors of T4 gastric cancer patients undergoing potentially curative resection

    Institute of Scientific and Technical Information of China (English)

    Naoto Fukuda; Yasuyuki Sugiyama; Joji Wada

    2011-01-01

    AIM: To investigate the prognostic factors of T4 gas-tric cancer patients without distant metastasis who could undergo potentially curative resection. METHODS: We retrospectively analyzed the clinical data of 71 consecutive patients diagnosed with T4 gas-tric cancer and who underwent curative gastrectomy at our institutions. The clinicopathological factors that could be associated with overall survival were evalu-ated. The cumulative survival was determined by the Kaplan-Meier method, and univariate comparisons be-tween the groups were performed using the log-rank test. Multivariate analysis was performed using the Cox proportional hazard model and a step-wise procedure.RESULTS: The study patients comprised 53 men (74.6%) and 18 women (25.4%) aged 39-89 years (mean, 68.9 years). Nineteen patients (26.8%) had postoperative morbidity: pancreatic fistula developed in 6 patients (8.5%) and was the most frequent compli-cation, followed by anastomosis stricture in 5 patients (7.0%). During the follow-up period, 28 patients (39.4%) died because of gastric cancer recurrence, and 3 (4.2%) died because of another disease or accident. For all patients, the estimated overall survival was 34.1% at 5 years. Univariate analyses identified the following statis-tically significant prognostic factors in T4 gastric cancer patients who underwent potentially curative resection: peritoneal washing cytology (P < 0.01), number of met-astatic lymph nodes (P < 0.05), and venous invasion (P < 0.05). In multivariate analyses, only peritoneal wash-ing cytology was identified as an independent prognos-tic factor (HR = 3.62, 95% CI = 1.37-9.57) for long-term survival. CONCLUSION: Positive peritoneal washing cytology was the only independent poor prognostic factor for T4 gastric cancer patients who could be treated with potentially curative resection.

  10. Curative to palliative care-transition and communication issues: Surgeons perspective

    Directory of Open Access Journals (Sweden)

    S V Suryanarayana Deo

    2013-01-01

    Full Text Available Transition of a cancer patient from curative to palliative stage is one of the most difficult and challenging phases of cancer care both from patient and physician point of view. Most of the time the treating surgeons are expected to facilitate this transition but due to a number of reasons surgeons often fail to fulfill this crucial responsibility. This article highlights the various issues involved in the transition phase from a surgeons perspective.

  11. Curative to palliative care-transition and communication issues: surgeons perspective.

    Science.gov (United States)

    Suryanarayana Deo, Sv; Thejus, T

    2013-05-01

    Transition of a cancer patient from curative to palliative stage is one of the most difficult and challenging phases of cancer care both from patient and physician point of view. Most of the time the treating surgeons are expected to facilitate this transition but due to a number of reasons surgeons often fail to fulfill this crucial responsibility. This article highlights the various issues involved in the transition phase from a surgeons perspective.

  12. Role of preoperative selective portal vein embolization in two-step curative hepatectomy for hepatocellular carcinoma

    Institute of Scientific and Technical Information of China (English)

    Wu Ji; Jie-Shou Li; Ling-Tang Li; Wu-Hong Liu; Kuan-Sheng Ma; Xiang-Tian Wang; Zhen-Ping He; Jia-Hong Dong

    2003-01-01

    AIM: To determine the feasibility and role of ultrasoundguided preoperative selective portal vein embolization (POSPVE) in the two-step hepatectomy of patients with advanced primary hepatocellular carcinoma (HCC).METHODS: Fifty patients with advanced HCC who were not suitable for curative hepatectomy were treated by ultrasound-guided percutaneous transhepatic POSPVE with fine needles. The successful rate, side effects and complications of POSPVE, changes of hepatic lobe volume and two-step curative hepatectomy rate after POSPVE were observed.RESULTS: POSPVE was successfully performed in 47(94.0 %) patients. In patients whose right portal vein branches were embolized, their right hepatic volume decreased and left hepatic volume increased gradually. The ratio of right hepatic volume to total hepatic volume decreased from 62.4 % before POSPVE to 60.5 %, 57.2 %and 52.8 % after 1, 2 and 3 weeks respectively. The side effects included different degree of pain in liver area (38cases), slight fever (27 cases), nausea and vomiting (9cases). The level of aspartate alanine transaminase (AST),alanine transaminase (ALT) and total bilirubin (TBIL)increased after POSPVE, but returned to preoperative level in 1 week. After 2-4 weeks, two-step curative hepatectomy for HCC was successfully performed on 23 (52.3 %) patients.There were no such severe complications as ectopic embolization, local hemorrhage and bile leakage.CONCLUSION: Ultrasound-guided percutaneous transhepatic POSPVE with fine needles is feasible and safe. It can extend the indications of curative hepatectomy of HCC, and increase the safety of hepatectomy.

  13. Agile Data Curation: A conceptual framework and approach for practitioner data management

    Science.gov (United States)

    Young, J. W.; Benedict, K. K.; Lenhardt, W. C.

    2015-12-01

    Data management occurs across a range of science and related activities such as decision-support. Exemplars within the science community operate data management systems that are extensively planned before implementation, staffed with robust data management expertise, equipped with appropriate services and technologies, and often highly structured. However, this is not the only approach to data management and almost certainly not the typical experience. The other end of the spectrum is often an ad hoc practitioner team, with changing requirements, limited training in data management, and resource constrained for both equipment and human resources. Much of the existing data management literature serves the exemplar community and ignores the ad hoc practitioners. Somewhere in the middle are examples where data are repurposed for new uses thereby generating new data management challenges. This submission presents a conceptualization of an Agile Data Curation approach that provides foundational principles for data management efforts operating across the spectrum of data generation and use from large science systems to efforts with constrained resources, limited expertise, and evolving requirements. The underlying principles to Agile Data Curation are a reapplication of agile software development principles to data management. The historical reality for many data management efforts is operating in a practioner environment so Agile Data Curation utilizes historical and current case studies to validate the foundational principles and through comparison learn lessons for future application. This submission will provide an overview of the Agile Data Curation, cover the foundational principles to the approach, and introduce a framework for gathering, classifying, and applying lessons from case studies of practitioner data management.

  14. Tumor Marker Levels Before and After Curative Treatment of Hepatocellular Carcinoma as Predictors of Patient Survival.

    OpenAIRE

    Nanashima, Atsushi; Taura, Naota; Abo, Takafumi; ICHIKAWA, TATSUKI; Sakamoto, Ichiro; Nagayasu, Takeshi; Nakao, Kazuhiko

    2011-01-01

    BACKGROUND: α-fetoprotein (AFP) is used as a marker for hepatocellular carcinoma (HCC), which is influenced by hepatitis. Protein-induced vitamin K absence or antagonist II (PIVKA-II) is a sensitive diagnostic marker. Changes in these markers after treatment may reflect curability and predict outcome. METHODS: We conducted an analysis of prognosis in 470 HCC patients who received curative treatments, and examined the relationship between changes in AFP and PIVKA-II levels after 1 month of tre...

  15. Automated alignment-based curation of gene models in filamentous fungi

    OpenAIRE

    2014-01-01

    Background Automated gene-calling is still an error-prone process, particularly for the highly plastic genomes of fungal species. Improvement through quality control and manual curation of gene models is a time-consuming process that requires skilled biologists and is only marginally performed. The wealth of available fungal genomes has not yet been exploited by an automated method that applies quality control of gene models in order to obtain more accurate genome annotations. Results We prov...

  16. Scalping Surgery – Dermatologic Indications beyond Curative Primary Skin Cancer Surgery

    Science.gov (United States)

    Wollina, Uwe; Langner, Dana; Hansel, Gesina; Koch, André; Tchernev, Georgi

    2017-01-01

    Skin tumours are among the most frequent tumour types of mankind. In the case of large tumours, field cancerization, or satellitosis scalping surgery is a possible option. The procedure can also be used in a palliative setting with tumour debulking. Less common indications are multiple benign tumours of the scalp and chronic inflammatory scalp dermatoses not responding to medical treatment. We present a case series and discuss surgical modalities beyond curative surgery of primary skin cancer. PMID:28785321

  17. Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database

    Science.gov (United States)

    Grondin, Cynthia J.; Davis, Allan Peter; Wiegers, Thomas C.; King, Benjamin L.; Wiegers, Jolene A.; Reif, David M.; Hoppin, Jane A.; Mattingly, Carolyn J.

    2016-01-01

    Background: Exposure science studies the interactions and outcomes between environmental stressors and human or ecological receptors. To augment its role in understanding human health and the exposome, we aimed to centralize and integrate exposure science data into the broader biological framework of the Comparative Toxicogenomics Database (CTD), a public resource that promotes understanding of environmental chemicals and their effects on human health. Objectives: We integrated exposure data within the CTD to provide a centralized, freely available resource that facilitates identification of connections between real-world exposures, chemicals, genes/proteins, diseases, biological processes, and molecular pathways. Methods: We developed a manual curation paradigm that captures exposure data from the scientific literature using controlled vocabularies and free text within the context of four primary exposure concepts: stressor, receptor, exposure event, and exposure outcome. Using data from the Agricultural Health Study, we have illustrated the benefits of both centralization and integration of exposure information with CTD core data. Results: We have described our curation process, demonstrated how exposure data can be accessed and analyzed in the CTD, and shown how this integration provides a broad biological context for exposure data to promote mechanistic understanding of environmental influences on human health. Conclusions: Curation and integration of exposure data within the CTD provides researchers with new opportunities to correlate exposures with human health outcomes, to identify underlying potential molecular mechanisms, and to improve understanding about the exposome. Citation: Grondin CJ, Davis AP, Wiegers TC, King BL, Wiegers JA, Reif DM, Hoppin JA, Mattingly CJ. 2016. Advancing exposure science through chemical data curation and integration in the Comparative Toxicogenomics Database. Environ Health Perspect 124:1592–1599; http://dx.doi.org/10

  18. The New War Correspondents: the Rise of Civic Media Curation in Urban Warfare

    OpenAIRE

    Monroy-Hernández, Andrés; Boyd, Danah; Kiciman, Emre; De Choudhury, Munmun; Counts, Scott

    2015-01-01

    In this paper we examine the information sharing practices of people living in cities amid armed conflict. We describe the volume and frequency of microblogging activity on Twitter from four cities afflicted by the Mexican Drug War, showing how citizens use social media to alert one another and to comment on the violence that plagues their communities. We then investigate the emergence of civic media "curators," individuals who act as "war correspondents" by aggregating and disseminating info...

  19. Curative therapies are superior to standard of care (transarterial chemoembolization) for intermediate stage hepatocellular carcinoma.

    Science.gov (United States)

    Pecorelli, Anna; Lenzi, Barbara; Gramenzi, Annagiulia; Garuti, Francesca; Farinati, Fabio; Giannini, Edoardo G; Ciccarese, Francesca; Piscaglia, Fabio; Rapaccini, Gian Lodovico; Di Marco, Maria; Caturelli, Eugenio; Zoli, Marco; Borzio, Franco; Sacco, Rodolfo; Cabibbo, Giuseppe; Felder, Martina; Morisco, Filomena; Gasbarrini, Antonio; Baroni, Gianluca Svegliati; Foschi, Francesco G; Biasini, Elisabetta; Masotto, Alberto; Virdone, Roberto; Bernardi, Mauro; Trevisani, Franco

    2017-03-01

    The Barcelona Clinic Liver Cancer intermediate stage (BCLC-B) of hepatocellular carcinoma (HCC) includes extremely heterogeneous patients in terms of tumour burden and liver function. Transarterial-chemoembolization (TACE) is the first-line treatment for these patients although it may be risky/useless for someone, while others could undergo curative treatments. This study assesses the treatment type performed in a large cohort of BCLC-B patients and its outcome. Retrospective analysis of 485 consecutive BCLC-B patients from the ITA.LI.CA database diagnosed with naïve HCC after 1999. Patients were stratified by treatment. 29 patients (6%) were lost to follow-up before receiving treatment. Treatment distribution was: TACE (233, 51.1%), curative treatments (145 patients, 31.8%), sorafenib (18, 3.9%), other (39, 8.5%), best supportive care (BSC) (21, 4.6%). Median survival (95% CI) was 45 months (37.4-52.7) for curative treatments, 30 (24.7-35.3) for TACE, 14 (10.5-17.5) for sorafenib, 14 (5.2-22.7) for other treatments and 10 (6.0-14.2) for BSC (PHR 0.197, 95%CI: 0.098-0.395) more than TACE (HR 0.408, 95%CI: 0.211-0.789) (Ppractice TACE represents the first-line therapy in an half of patients with naïve BCLC-B HCC since treatment choice is driven not only by liver function and nodule characteristics, but also by contraindications to procedures, comorbidities, age and patient opinion. The treatment type is an independent prognostic factor in BCLC-B patients and curative options offer the best outcome. © 2016 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.

  20. Enriching Education with Exemplars in Practice: Iterative Development of Data Curation Internships

    Directory of Open Access Journals (Sweden)

    Matthew S. Mayernik

    2015-02-01

    Full Text Available Partnerships between educational programs and research centers are vital to meeting the escalating workforce demands in data curation. They offer a platform for educators to increase their knowledge of current best practices and emerging challenges in the field. Student internships can be key to the success of these partnerships, not just for the students who gain authentic experience in facilities that excel at data intensive research and data services. Such partnerships provide an effective platform for rich and mutually beneficial engagement among educators, data professionals, scientists, and students. This paper reports on results from the Data Curation Education in Research Centers (DCERC program aimed at developing a model for data curation education featuring field experiences in exemplar research centers. A strength of the DCERC model is its emphasis on facilitating mutual exchange of information among the DCERC program mentors and students. This model has evolved as a result of iterative and gradual refinements to the program model based upon information gathered from the formative evaluation. These refinements not only resulted in improved outcomes for the program participants but also, we believe, a more sustainable model for the program that leverages the knowledge base of the research scientists and students through peer-to-peer learning, rather than a traditional expert to trainee model. This paper describes formative evaluation findings that shaped the development of the DCERC program. We conclude with a discussion of the critical features of this model for the development of similar programs, and a data curation workforce that is able to accommodate and adapt to emergent data needs in a variety of environments.

  1. Updates in Rhea—a manually curated resource of biochemical reactions

    Science.gov (United States)

    Morgat, Anne; Axelsen, Kristian B.; Lombardot, Thierry; Alcántara, Rafael; Aimo, Lucila; Zerara, Mohamed; Niknejad, Anne; Belda, Eugeni; Hyka-Nouspikel, Nevila; Coudert, Elisabeth; Redaschi, Nicole; Bougueleret, Lydie; Steinbeck, Christoph; Xenarios, Ioannis; Bridge, Alan

    2015-01-01

    Rhea (http://www.ebi.ac.uk/rhea) is a comprehensive and non-redundant resource of expert-curated biochemical reactions described using species from the ChEBI (Chemical Entities of Biological Interest) ontology of small molecules. Rhea has been designed for the functional annotation of enzymes and the description of genome-scale metabolic networks, providing stoichiometrically balanced enzyme-catalyzed reactions (covering the IUBMB Enzyme Nomenclature list and additional reactions), transport reactions and spontaneously occurring reactions. Rhea reactions are extensively curated with links to source literature and are mapped to other publicly available enzyme and pathway databases such as Reactome, BioCyc, KEGG and UniPathway, through manual curation and computational methods. Here we describe developments in Rhea since our last report in the 2012 database issue of Nucleic Acids Research. These include significant growth in the number of Rhea reactions and the inclusion of reactions involving complex macromolecules such as proteins, nucleic acids and other polymers that lie outside the scope of ChEBI. Together these developments will significantly increase the utility of Rhea as a tool for the description, analysis and reconciliation of genome-scale metabolic models. PMID:25332395

  2. Updates in Rhea--a manually curated resource of biochemical reactions.

    Science.gov (United States)

    Morgat, Anne; Axelsen, Kristian B; Lombardot, Thierry; Alcántara, Rafael; Aimo, Lucila; Zerara, Mohamed; Niknejad, Anne; Belda, Eugeni; Hyka-Nouspikel, Nevila; Coudert, Elisabeth; Redaschi, Nicole; Bougueleret, Lydie; Steinbeck, Christoph; Xenarios, Ioannis; Bridge, Alan

    2015-01-01

    Rhea (http://www.ebi.ac.uk/rhea) is a comprehensive and non-redundant resource of expert-curated biochemical reactions described using species from the ChEBI (Chemical Entities of Biological Interest) ontology of small molecules. Rhea has been designed for the functional annotation of enzymes and the description of genome-scale metabolic networks, providing stoichiometrically balanced enzyme-catalyzed reactions (covering the IUBMB Enzyme Nomenclature list and additional reactions), transport reactions and spontaneously occurring reactions. Rhea reactions are extensively curated with links to source literature and are mapped to other publicly available enzyme and pathway databases such as Reactome, BioCyc, KEGG and UniPathway, through manual curation and computational methods. Here we describe developments in Rhea since our last report in the 2012 database issue of Nucleic Acids Research. These include significant growth in the number of Rhea reactions and the inclusion of reactions involving complex macromolecules such as proteins, nucleic acids and other polymers that lie outside the scope of ChEBI. Together these developments will significantly increase the utility of Rhea as a tool for the description, analysis and reconciliation of genome-scale metabolic models. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

  3. Mining clinical attributes of genomic variants through assisted literature curation in Egas.

    Science.gov (United States)

    Matos, Sérgio; Campos, David; Pinho, Renato; Silva, Raquel M; Mort, Matthew; Cooper, David N; Oliveira, José Luís

    2016-01-01

    The veritable deluge of biological data over recent years has led to the establishment of a considerable number of knowledge resources that compile curated information extracted from the literature and store it in structured form, facilitating its use and exploitation. In this article, we focus on the curation of inherited genetic variants and associated clinical attributes, such as zygosity, penetrance or inheritance mode, and describe the use of Egas for this task. Egas is a web-based platform for text-mining assisted literature curation that focuses on usability through modern design solutions and simple user interactions. Egas offers a flexible and customizable tool that allows defining the concept types and relations of interest for a given annotation task, as well as the ontologies used for normalizing each concept type. Further, annotations may be performed on raw documents or on the results of automated concept identification and relation extraction tools. Users can inspect, correct or remove automatic text-mining results, manually add new annotations, and export the results to standard formats. Egas is compatible with the most recent versions of Google Chrome, Mozilla Firefox, Internet Explorer and Safari and is available for use at https://demo.bmd-software.com/egas/Database URL: https://demo.bmd-software.com/egas/.

  4. 3DSwap: Curated knowledgebase of proteins involved in 3D domain swapping

    KAUST Repository

    Shameer, Khader

    2011-09-29

    Three-dimensional domain swapping is a unique protein structural phenomenon where two or more protein chains in a protein oligomer share a common structural segment between individual chains. This phenomenon is observed in an array of protein structures in oligomeric conformation. Protein structures in swapped conformations perform diverse functional roles and are also associated with deposition diseases in humans. We have performed in-depth literature curation and structural bioinformatics analyses to develop an integrated knowledgebase of proteins involved in 3D domain swapping. The hallmark of 3D domain swapping is the presence of distinct structural segments such as the hinge and swapped regions. We have curated the literature to delineate the boundaries of these regions. In addition, we have defined several new concepts like \\'secondary major interface\\' to represent the interface properties arising as a result of 3D domain swapping, and a new quantitative measure for the \\'extent of swapping\\' in structures. The catalog of proteins reported in 3DSwap knowledgebase has been generated using an integrated structural bioinformatics workflow of database searches, literature curation, by structure visualization and sequence-structure-function analyses. The current version of the 3DSwap knowledgebase reports 293 protein structures, the analysis of such a compendium of protein structures will further the understanding molecular factors driving 3D domain swapping. The Author(s) 2011.

  5. Survival nomogram for curatively resected Korean gastric cancer patients: multicenter retrospective analysis with external validation.

    Directory of Open Access Journals (Sweden)

    Bang Wool Eom

    Full Text Available A small number of nomograms have been previously developed to predict the individual survival of patients who undergo curative resection for gastric cancer. However, all were derived from single high-volume centers. The aim of this study was to develop and validate a nomogram for gastric cancer patients using a multicenter database.We reviewed the clinicopathological and survival data of 2012 patients who underwent curative resection for gastric cancer between 2001 and 2006 at eight centers. Among these centers, six institutions were randomly assigned to the development set, and the other two centers were assigned to the validation set. Multivariate analysis using the Cox proportional hazard regression model was performed, and discrimination and calibration were evaluated by external validation.Multivariate analyses revealed that age, tumor size, lymphovascular invasion, depth of invasion, and metastatic lymph nodes were significant prognostic factors for overall survival. In the external validation, the concordance index was 0.831 (95% confidence interval, 0.784-0.878, and Hosmer-Lemeshow chi-square statistic was 3.92 (P = 0.917.We developed and validated a nomogram to predict 5-year overall survival after curative resection for gastric cancer based on a multicenter database. This nomogram can be broadly applied even in general hospitals and is useful for counseling patients, and scheduling follow-up.

  6. Hybrid curation of gene–mutation relations combining automated extraction and crowdsourcing

    Science.gov (United States)

    Burger, John D.; Doughty, Emily; Khare, Ritu; Wei, Chih-Hsuan; Mishra, Rajashree; Aberdeen, John; Tresner-Kirsch, David; Wellner, Ben; Kann, Maricel G.; Lu, Zhiyong; Hirschman, Lynette

    2014-01-01

    Background: This article describes capture of biological information using a hybrid approach that combines natural language processing to extract biological entities and crowdsourcing with annotators recruited via Amazon Mechanical Turk to judge correctness of candidate biological relations. These techniques were applied to extract gene– mutation relations from biomedical abstracts with the goal of supporting production scale capture of gene–mutation–disease findings as an open source resource for personalized medicine. Results: The hybrid system could be configured to provide good performance for gene–mutation extraction (precision ∼82%; recall ∼70% against an expert-generated gold standard) at a cost of $0.76 per abstract. This demonstrates that crowd labor platforms such as Amazon Mechanical Turk can be used to recruit quality annotators, even in an application requiring subject matter expertise; aggregated Turker judgments for gene–mutation relations exceeded 90% accuracy. Over half of the precision errors were due to mismatches against the gold standard hidden from annotator view (e.g. incorrect EntrezGene identifier or incorrect mutation position extracted), or incomplete task instructions (e.g. the need to exclude nonhuman mutations). Conclusions: The hybrid curation model provides a readily scalable cost-effective approach to curation, particularly if coupled with expert human review to filter precision errors. We plan to generalize the framework and make it available as open source software. Database URL: http://www.mitre.org/publications/technical-papers/hybrid-curation-of-gene-mutation-relations-combining-automated PMID:25246425

  7. Data Albums: An Event Driven Search, Aggregation and Curation Tool for Earth Science

    Science.gov (United States)

    Ramachandran, Rahul; Kulkarni, Ajinkya; Maskey, Manil; Bakare, Rohan; Basyal, Sabin; Li, Xiang; Flynn, Shannon

    2014-01-01

    Approaches used in Earth science research such as case study analysis and climatology studies involve discovering and gathering diverse data sets and information to support the research goals. To gather relevant data and information for case studies and climatology analysis is both tedious and time consuming. Current Earth science data systems are designed with the assumption that researchers access data primarily by instrument or geophysical parameter. In cases where researchers are interested in studying a significant event, they have to manually assemble a variety of datasets relevant to it by searching the different distributed data systems. This paper presents a specialized search, aggregation and curation tool for Earth science to address these challenges. The search rool automatically creates curated 'Data Albums', aggregated collections of information related to a specific event, containing links to relevant data files [granules] from different instruments, tools and services for visualization and analysis, and information about the event contained in news reports, images or videos to supplement research analysis. Curation in the tool is driven via an ontology based relevancy ranking algorithm to filter out non relevant information and data.

  8. Curative effects of small incision cataract surgery versus phacoemulsification: a Meta-analysis

    Directory of Open Access Journals (Sweden)

    Chang-Jian Yang

    2013-08-01

    Full Text Available AIM: To evaluate the curative efficacy of small incision cataract surgery(SICSversus phacoemulsification(Phaco.METHODS: A computerized literature search was carried out in Chinese Biomedical Database(CBM, Wanfang Data, VIP and Chinese National Knowledge Infrastructure(CNKIto collect articles published between 1989-2013 concerning the curative efficacy of SICS versus Phaco. The studies were assessed in terms of clinical case-control criteria. Meta-analysis were performed to assess the visual acuity, the complications rates between SICS and Phaco 90 days after surgery. Treatment effects were measured as risk difference(RDbetween SICS and Phaco. Fixed and random effect models were employed to combine results after a heterogeneity test. RESULTS:A total of 8 studies were included in our Meta-analysis. At 90 days postoperative time, there were no significant differences between the two groups at the visual acuity >0.5(P=0.14; and no significant differences on the complications rates of corneal astigmatism, corneal edema, posterior capsular rupture and anterior iris reaction(P>0.05.CONCLUSION: These results suggest that there is no different on the curative effects of SICS and Phaco for cataract.

  9. Clinical curative effect observation of therapy of Chinese drug iontophoresis in treatment of degenerative osteoarthropathy.

    Science.gov (United States)

    Geng, Xiao-Lin; Lu, Tan; Yang, Li-Bin; Zhou, Qin-Lan; Qin, Hua; Liang, Qiudong

    2015-07-01

    Degenerative osteoarthropathy is a kind of arthrosis induced by various factors, with main pathological feature of articular cartilage and syndesmophyte formation. In recent years, its morbidity increases year by year and tend to appear more among young people. Its curative effect has yet to be improved. This paper mainly discussed the clinical curative effect of therapy of Chinese drug iontophoresis in degenerative osteoarthropathy. A total of 296 cases of degenerative osteoarthropathy was randomly divided into two groups (with no consideration on gender): Chinese drug iontophoresis group: joint was treated by therapy of Chinese drug iontophoresis and MTZ-F experiment; frequency electrotherapy group: joint was only treated by medium frequency electrotherapy. Two groups were both treated for 30 min for one time, 1 time for a day, total for 4 weeks. Result of the study found that, total effective rate of medium frequency electrotherapy group was 74.3%, Chinese medicine iontophoresis group was 93.2%; curative effect of Chinese medicine iontophoresis group was superior to electrotherapy group. It indicates that, Chinese medicine iontophoresis has good clinical effect in the treatment of osteoarthropathy and deserves to be popularized and applied.

  10. Preventive and curative effect of Woodfordia fruticosa Kurz flowers on thioacetamide induced oxidative stress in rats

    Institute of Scientific and Technical Information of China (English)

    A Nitha; PN Ansil; SP Prabha; PJ Wills; MS Latha

    2012-01-01

    Objective: To evaluate the preventive and curative effect of Woodfordia fruticosa (W. fruticosa) Kurz flowers on thioacetamide induced oxidative stress in rats. Methods: Two different doses of methanolic extract of W. fruticosa (MEWF 100 mg/kg and 200 mg/kg) were used to study the antioxidant activity in experimental rats against thioacetamide (TAA) induced oxidative stress in preventive and curative models. Single dose of TAA (100 mg/kg; s.c.) was administered to the rats in all groups except the normal control. Various serum enzymes like aspartate aminotransferase (AST), alanine aminotransferase (ALT), alkaline phosphatase (ALP) and Lactate dehydrogenase (LDH) were studied. The antioxidant status of liver and kidney were evaluated by the following parameters like catalase (CAT), glutathione peroxidase (GPx), glutathione reductase (GR), glutathione-S-transferase (GST), reduced glutathione (GSH) and malondialdehyde (MDA). Histopathological changes of liver tissue were also evaluated. Results: MEWF significantly (P<0.05) prevented and reversed the elevation of serum AST, ALT, ALP, LDH, and tissue malondialdehyde levels in both the experimental models. Hepatic and renal GSH, GST, GR, GPx, and catalase levels were remarkably increased by the treatment with the extract in both the experimental models. In the case of MDA the hepatic and renal levels were decreased by the treatment with the extract. Conclusion: This study demonstrates the protective and curative effects of MEWF, and thus scientifically supports the use of this plant in traditional medicine for the treatment of liver disorders.

  11. Curative Effect of Special Acupuncture Techniques on Female Urethral Syndrome and its Relationship with the Course of Treatment

    Institute of Scientific and Technical Information of China (English)

    WANG Si-you; CHEN Guo-mei; CUI Yi-jun; ZHANG Shu-jing; ZHANG Gen-feng

    2003-01-01

    Purpose To observe the curative effect of special acupuncture techniques on female urethral syndrome and its relationship with the course of treatment.Method Four abdominal and four sacral empirical points were acupunctured with special techniques and electricity. A difference in curative effect was investigated between different numbers of treatments. Results The clinical cure rate reached 15.2% just after ≤ 10 (7.3 ± 1.3) treatments. The curative effect was significantly better after 20-40 (32.1 ± 5.8) treatments than after ≤ 10 (7.3± 1.3) treatments (χ2 = 10.086, P <0.05). The clinical cure rate reached 43.5% in the former. Conclusion Special acupuncture techniques have a good clinical effect on female urethral syndrome. The curative effect improves with an increase in the number of treatments.

  12. Prognostic associations of preoperative plasma levels of fibrinogen and D-dimer after curative resection in patients with colorectal cancer

    Institute of Scientific and Technical Information of China (English)

    王俊锋

    2013-01-01

    Objective To explore the associations of preoperative plasma levels of fibrinogen and D-dimer with clinico-pathologic parameters and overall survival in colorectal cancer patients after curative resection.Methods From

  13. Curative effect and costs of surgical and gamma knife treatments on intractable epilepsy caused by temporal-hippocampal sclerosis.

    Science.gov (United States)

    Han, Z T; Chen, Q X

    2015-07-31

    This study aimed to investigate the curative effect and costs of surgical and gamma knife treatments on intractable epilepsy caused by temporal-hippocampal sclerosis. The subjects comprised patients who suffered from intractable epilepsy caused by temporal-hippocampal sclerosis and received treatment in the Department of Neurosurgery of our hospital between 2010 and 2011. After obtaining their consent, patients were evaluated and selected to receive surgical or gamma knife treatments. In the surgical group, the short-term curative rate was 92.60% and the average cost was US$ 1311.50 while in the gamma knife group, the short-term curative rate was 53.79%, and the average cost was US$ 2786.90. Both surgical and gamma knife treatments of intractable epilepsy caused by temporal-hippocampal sclerosis are safe and effective, but the short-term curative effect of surgical treatment is better than that of gamma knife, and its cost is lower.

  14. Archive of Geosample Information from the Geological Survey of Canada Atlantic (GSC A) Marine Geoscience Curation Facility

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The Geological Survey of Canada Atlantic (GSC A) Marine Geoscience Curation Facility contributed information on 40,428 cores, grabs, and dredges in their holdings to...

  15. Text mining effectively scores and ranks the literature for improving chemical-gene-disease curation at the comparative toxicogenomics database.

    Science.gov (United States)

    Davis, Allan Peter; Wiegers, Thomas C; Johnson, Robin J; Lay, Jean M; Lennon-Hopkins, Kelley; Saraceni-Richards, Cynthia; Sciaky, Daniela; Murphy, Cynthia Grondin; Mattingly, Carolyn J

    2013-01-01

    The Comparative Toxicogenomics Database (CTD; http://ctdbase.org/) is a public resource that curates interactions between environmental chemicals and gene products, and their relationships to diseases, as a means of understanding the effects of environmental chemicals on human health. CTD provides a triad of core information in the form of chemical-gene, chemical-disease, and gene-disease interactions that are manually curated from scientific articles. To increase the efficiency, productivity, and data coverage of manual curation, we have leveraged text mining to help rank and prioritize the triaged literature. Here, we describe our text-mining process that computes and assigns each article a document relevancy score (DRS), wherein a high DRS suggests that an article is more likely to be relevant for curation at CTD. We evaluated our process by first text mining a corpus of 14,904 articles triaged for seven heavy metals (cadmium, cobalt, copper, lead, manganese, mercury, and nickel). Based upon initial analysis, a representative subset corpus of 3,583 articles was then selected from the 14,094 articles and sent to five CTD biocurators for review. The resulting curation of these 3,583 articles was analyzed for a variety of parameters, including article relevancy, novel data content, interaction yield rate, mean average precision, and biological and toxicological interpretability. We show that for all measured parameters, the DRS is an effective indicator for scoring and improving the ranking of literature for the curation of chemical-gene-disease information at CTD. Here, we demonstrate how fully incorporating text mining-based DRS scoring into our curation pipeline enhances manual curation by prioritizing more relevant articles, thereby increasing data content, productivity, and efficiency.

  16. Text mining effectively scores and ranks the literature for improving chemical-gene-disease curation at the comparative toxicogenomics database.

    Directory of Open Access Journals (Sweden)

    Allan Peter Davis

    Full Text Available The Comparative Toxicogenomics Database (CTD; http://ctdbase.org/ is a public resource that curates interactions between environmental chemicals and gene products, and their relationships to diseases, as a means of understanding the effects of environmental chemicals on human health. CTD provides a triad of core information in the form of chemical-gene, chemical-disease, and gene-disease interactions that are manually curated from scientific articles. To increase the efficiency, productivity, and data coverage of manual curation, we have leveraged text mining to help rank and prioritize the triaged literature. Here, we describe our text-mining process that computes and assigns each article a document relevancy score (DRS, wherein a high DRS suggests that an article is more likely to be relevant for curation at CTD. We evaluated our process by first text mining a corpus of 14,904 articles triaged for seven heavy metals (cadmium, cobalt, copper, lead, manganese, mercury, and nickel. Based upon initial analysis, a representative subset corpus of 3,583 articles was then selected from the 14,094 articles and sent to five CTD biocurators for review. The resulting curation of these 3,583 articles was analyzed for a variety of parameters, including article relevancy, novel data content, interaction yield rate, mean average precision, and biological and toxicological interpretability. We show that for all measured parameters, the DRS is an effective indicator for scoring and improving the ranking of literature for the curation of chemical-gene-disease information at CTD. Here, we demonstrate how fully incorporating text mining-based DRS scoring into our curation pipeline enhances manual curation by prioritizing more relevant articles, thereby increasing data content, productivity, and efficiency.

  17. The Nanomaterial Data Curation Initiative: A collaborative approach to assessing, evaluating, and advancing the state of the field

    Directory of Open Access Journals (Sweden)

    Christine Ogilvie Hendren

    2015-08-01

    Full Text Available The Nanomaterial Data Curation Initiative (NDCI, a project of the National Cancer Informatics Program Nanotechnology Working Group (NCIP NanoWG, explores the critical aspect of data curation within the development of informatics approaches to understanding nanomaterial behavior. Data repositories and tools for integrating and interrogating complex nanomaterial datasets are gaining widespread interest, with multiple projects now appearing in the US and the EU. Even in these early stages of development, a single common aspect shared across all nanoinformatics resources is that data must be curated into them. Through exploration of sub-topics related to all activities necessary to enable, execute, and improve the curation process, the NDCI will provide a substantive analysis of nanomaterial data curation itself, as well as a platform for multiple other important discussions to advance the field of nanoinformatics. This article outlines the NDCI project and lays the foundation for a series of papers on nanomaterial data curation. The NDCI purpose is to: 1 present and evaluate the current state of nanomaterial data curation across the field on multiple specific data curation topics, 2 propose ways to leverage and advance progress for both individual efforts and the nanomaterial data community as a whole, and 3 provide opportunities for similar publication series on the details of the interactive needs and workflows of data customers, data creators, and data analysts. Initial responses from stakeholder liaisons throughout the nanoinformatics community reveal a shared view that it will be critical to focus on integration of datasets with specific orientation toward the purposes for which the individual resources were created, as well as the purpose for integrating multiple resources. Early acknowledgement and undertaking of complex topics such as uncertainty, reproducibility, and interoperability is proposed as an important path to addressing key

  18. Phylesystem: a git-based data store for community-curated phylogenetic estimates.

    Science.gov (United States)

    McTavish, Emily Jane; Hinchliff, Cody E; Allman, James F; Brown, Joseph W; Cranston, Karen A; Holder, Mark T; Rees, Jonathan A; Smith, Stephen A

    2015-09-01

    Phylogenetic estimates from published studies can be archived using general platforms like Dryad (Vision, 2010) or TreeBASE (Sanderson et al., 1994). Such services fulfill a crucial role in ensuring transparency and reproducibility in phylogenetic research. However, digital tree data files often require some editing (e.g. rerooting) to improve the accuracy and reusability of the phylogenetic statements. Furthermore, establishing the mapping between tip labels used in a tree and taxa in a single common taxonomy dramatically improves the ability of other researchers to reuse phylogenetic estimates. As the process of curating a published phylogenetic estimate is not error-free, retaining a full record of the provenance of edits to a tree is crucial for openness, allowing editors to receive credit for their work and making errors introduced during curation easier to correct. Here, we report the development of software infrastructure to support the open curation of phylogenetic data by the community of biologists. The backend of the system provides an interface for the standard database operations of creating, reading, updating and deleting records by making commits to a git repository. The record of the history of edits to a tree is preserved by git's version control features. Hosting this data store on GitHub (http://github.com/) provides open access to the data store using tools familiar to many developers. We have deployed a server running the 'phylesystem-api', which wraps the interactions with git and GitHub. The Open Tree of Life project has also developed and deployed a JavaScript application that uses the phylesystem-api and other web services to enable input and curation of published phylogenetic statements. Source code for the web service layer is available at https://github.com/OpenTreeOfLife/phylesystem-api. The data store can be cloned from: https://github.com/OpenTreeOfLife/phylesystem. A web application that uses the phylesystem web services is deployed

  19. Radical curative efficacy of tafenoquine combination regimens in Plasmodium cynomolgi-infected Rhesus monkeys (Macaca mulatta

    Directory of Open Access Journals (Sweden)

    Kenworthy David

    2011-07-01

    Full Text Available Abstract Background Tafenoquine is an 8-aminoquinoline being developed for radical cure (blood and liver stage elimination of Plasmodium vivax. During monotherapy treatment, the compound exhibits slow parasite and fever clearance times, and toxicity in glucose-6-phosphate dehydrogenase (G6PD deficiency is a concern. Combination with other antimalarials may mitigate these concerns. Methods In 2005, the radical curative efficacy of tafenoquine combinations was investigated in Plasmodium cynomolgi-infected naïve Indian-origin Rhesus monkeys. In the first cohort, groups of two monkeys were treated with a three-day regimen of tafenoquine at different doses alone and in combination with a three-day chloroquine regimen to determine the minimum curative dose (MCD. In the second cohort, the radical curative efficacy of a single-day regimen of tafenoquine-mefloquine was compared to that of two three-day regimens comprising tafenoquine at its MCD with chloroquine or artemether-lumefantrine in groups of six monkeys. In a final cohort, the efficacy of the MCD of tafenoquine against hypnozoites alone and in combination with chloroquine was investigated in groups of six monkeys after quinine pre-treatment to eliminate asexual parasites. Plasma tafenoquine, chloroquine and desethylchloroquine concentrations were determined by LC-MS in order to compare doses of the drugs to those used clinically in humans. Results The total MCD of tafenoquine required in combination regimens for radical cure was ten-fold lower (1.8 mg/kg versus 18 mg/kg than for monotherapy. This regimen (1.8 mg/kg was equally efficacious as monotherapy or in combination with chloroquine after quinine pre-treatment to eliminate asexual stages. The same dose of (1.8 mg/kg was radically curative in combination with artemether-lumefantrine. Tafenoquine was also radically curative when combined with mefloquine. The MCD of tafenoquine monotherapy for radical cure (18 mg/kg appears to be biologically

  20. Automatic vs. manual curation of a multi-source chemical dictionary: the impact on text mining

    Directory of Open Access Journals (Sweden)

    Hettne Kristina M

    2010-03-01

    Full Text Available Abstract Background Previously, we developed a combined dictionary dubbed Chemlist for the identification of small molecules and drugs in text based on a number of publicly available databases and tested it on an annotated corpus. To achieve an acceptable recall and precision we used a number of automatic and semi-automatic processing steps together with disambiguation rules. However, it remained to be investigated which impact an extensive manual curation of a multi-source chemical dictionary would have on chemical term identification in text. ChemSpider is a chemical database that has undergone extensive manual curation aimed at establishing valid chemical name-to-structure relationships. Results We acquired the component of ChemSpider containing only manually curated names and synonyms. Rule-based term filtering, semi-automatic manual curation, and disambiguation rules were applied. We tested the dictionary from ChemSpider on an annotated corpus and compared the results with those for the Chemlist dictionary. The ChemSpider dictionary of ca. 80 k names was only a 1/3 to a 1/4 the size of Chemlist at around 300 k. The ChemSpider dictionary had a precision of 0.43 and a recall of 0.19 before the application of filtering and disambiguation and a precision of 0.87 and a recall of 0.19 after filtering and disambiguation. The Chemlist dictionary had a precision of 0.20 and a recall of 0.47 before the application of filtering and disambiguation and a precision of 0.67 and a recall of 0.40 after filtering and disambiguation. Conclusions We conclude the following: (1 The ChemSpider dictionary achieved the best precision but the Chemlist dictionary had a higher recall and the best F-score; (2 Rule-based filtering and disambiguation is necessary to achieve a high precision for both the automatically generated and the manually curated dictionary. ChemSpider is available as a web service at http://www.chemspider.com/ and the Chemlist dictionary is freely

  1. Advancing Site-Based Data Curation for Geobiology: The Yellowstone Exemplar (Invited)

    Science.gov (United States)

    Palmer, C. L.; Fouke, B. W.; Rodman, A.; Choudhury, G. S.

    2013-12-01

    While advances in the management and archiving of scientific digital data are proceeding apace, there is an urgent need for data curation services to collect and provide access to high-value data fit for reuse. The Site-Based Data Curation (SBDC) project is establishing a framework of guidelines and processes for the curation of research data generated at scientifically significant sites. The project is a collaboration among information scientists, geobiologists, data archiving experts, and resource managers at Yellowstone National Park (YNP). Based on our previous work with the Data Conservancy on indicators of value for research data, several factors made YNP an optimal site for developing the SBDC framework, including unique environmental conditions, a permitting process for data collection, and opportunities for geo-located longitudinal data and multiple data sources for triangulation and context. Stakeholder analysis is informing the SBDC requirements, through engagement with geologists, geochemists, and microbiologists conducting research at YNP and personnel from the Yellowstone Center for Resources and other YNP units. To date, results include data value indicators specific to site-based research, minimum and optimal parameters for data description and metadata, and a strategy for organizing data around sampling events. New value indicators identified by the scientists include ease of access to park locations for verification and correction of data, and stable environmental conditions important for controlling variables. Researchers see high potential for data aggregated from the many individual investigators conducting permitted research at YNP, however reuse is clearly contingent on detailed and consistent sampling records. Major applications of SBDC include identifying connections in dynamic systems, spatial temporal synthesis, analyzing variability within and across geological features, tracking site evolution, assessing anomalies, and greater awareness

  2. Evolutionary characters, phenotypes and ontologies: curating data from the systematic biology literature.

    Directory of Open Access Journals (Sweden)

    Wasila M Dahdul

    Full Text Available BACKGROUND: The wealth of phenotypic descriptions documented in the published articles, monographs, and dissertations of phylogenetic systematics is traditionally reported in a free-text format, and it is therefore largely inaccessible for linkage to biological databases for genetics, development, and phenotypes, and difficult to manage for large-scale integrative work. The Phenoscape project aims to represent these complex and detailed descriptions with rich and formal semantics that are amenable to computation and integration with phenotype data from other fields of biology. This entails reconceptualizing the traditional free-text characters into the computable Entity-Quality (EQ formalism using ontologies. METHODOLOGY/PRINCIPAL FINDINGS: We used ontologies and the EQ formalism to curate a collection of 47 phylogenetic studies on ostariophysan fishes (including catfishes, characins, minnows, knifefishes and their relatives with the goal of integrating these complex phenotype descriptions with information from an existing model organism database (zebrafish, http://zfin.org. We developed a curation workflow for the collection of character, taxonomic and specimen data from these publications. A total of 4,617 phenotypic characters (10,512 states for 3,449 taxa, primarily species, were curated into EQ formalism (for a total of 12,861 EQ statements using anatomical and taxonomic terms from teleost-specific ontologies (Teleost Anatomy Ontology and Teleost Taxonomy Ontology in combination with terms from a quality ontology (Phenotype and Trait Ontology. Standards and guidelines for consistently and accurately representing phenotypes were developed in response to the challenges that were evident from two annotation experiments and from feedback from curators. CONCLUSIONS/SIGNIFICANCE: The challenges we encountered and many of the curation standards and methods for improving consistency that we developed are generally applicable to any effort to

  3. Automated PDF highlighting to support faster curation of literature for Parkinson’s and Alzheimer’s disease

    Science.gov (United States)

    Oellrich, Anika; Girges, Christine; de Bono, Bernard; Hubbard, Tim J.P.; Dobson, Richard J.B.

    2017-01-01

    Abstract Neurodegenerative disorders such as Parkinson’s and Alzheimer’s disease are devastating and costly illnesses, a source of major global burden. In order to provide successful interventions for patients and reduce costs, both causes and pathological processes need to be understood. The ApiNATOMY project aims to contribute to our understanding of neurodegenerative disorders by manually curating and abstracting data from the vast body of literature amassed on these illnesses. As curation is labour-intensive, we aimed to speed up the process by automatically highlighting those parts of the PDF document of primary importance to the curator. Using techniques similar to those of summarisation, we developed an algorithm that relies on linguistic, semantic and spatial features. Employing this algorithm on a test set manually corrected for tool imprecision, we achieved a macro F1-measure of 0.51, which is an increase of 132% compared to the best bag-of-words baseline model. A user based evaluation was also conducted to assess the usefulness of the methodology on 40 unseen publications, which reveals that in 85% of cases all highlighted sentences are relevant to the curation task and in about 65% of the cases, the highlights are sufficient to support the knowledge curation task without needing to consult the full text. In conclusion, we believe that these are promising results for a step in automating the recognition of curation-relevant sentences. Refining our approach to pre-digest papers will lead to faster processing and cost reduction in the curation process. Database URL: https://github.com/KHP-Informatics/NapEasy PMID:28365743

  4. Technology Development and Advanced Planning for Curation of Returned Mars Samples

    Science.gov (United States)

    Lindstrom, D. J.; Allen, C. C.

    2002-05-01

    NASA/Johnson Space Center (JSC) curates extraterrestrial samples, providing the international science community with lunar rock and soil returned by the Apollo astronauts, meteorites collected in Antarctica, cosmic dust collected in the stratosphere, and hardware exposed to the space environment. Curation comprises initial characterization of new samples, preparation and allocation of samples for research, and clean, secure long-term storage. The foundations of this effort are the specialized cleanrooms (class 10 to 10,000) for each of the four types of materials, the supporting facilities, and the people, many of whom have been doing detailed work in clean environments for decades. JSC is also preparing to curate the next generation of extraterrestrial samples. These include samples collected from the solar wind, a comet, and an asteroid. Early planning and R&D are underway to support post-mission sample handling and curation of samples returned from Mars. One of the strong scientific reasons for returning samples from Mars is to search for evidence of current or past life in the samples. Because of the remote possibility that the samples may contain life forms that are hazardous to the terrestrial biosphere, the National Research Council has recommended that all samples returned from Mars be kept under strict biological containment until tests show that they can safely be released to other laboratories. It is possible that Mars samples may contain only scarce or subtle traces of life or prebiotic chemistry that could readily be overwhelmed by terrestrial contamination. Thus, the facilities used to contain, process, and analyze samples from Mars must have a combination of high-level biocontainment and organic / inorganic chemical cleanliness that is unprecedented. JSC has been conducting feasibility studies and developing designs for a sample receiving facility that would offer biocontainment at least the equivalent of current maximum containment BSL-4 (Bio

  5. Hayabusa Recovery, Curation and Preliminary Sample Analysis: Lessons Learned from Recent Sample Return Mission

    Science.gov (United States)

    Zolensky, Michael E.

    2011-01-01

    I describe lessons learned from my participation on the Hayabusa Mission, which returned regolith grains from asteroid Itokawa in 2010 [1], comparing this with the recently returned Stardust Spacecraft, which sampled the Jupiter Family comet Wild 2. Spacecraft Recovery Operations: The mission Science and Curation teams must actively participate in planning, testing and implementing spacecraft recovery operations. The crash of the Genesis spacecraft underscored the importance of thinking through multiple contingency scenarios and practicing field recovery for these potential circumstances. Having the contingency supplies on-hand was critical, and at least one full year of planning for Stardust and Hayabusa recovery operations was necessary. Care must be taken to coordinate recovery operations with local organizations and inform relevant government bodies well in advance. Recovery plans for both Stardust and Hayabusa had to be adjusted for unexpectedly wet landing site conditions. Documentation of every step of spacecraft recovery and deintegration was necessary, and collection and analysis of launch and landing site soils was critical. We found the operation of the Woomera Text Range (South Australia) to be excellent in the case of Hayabusa, and in many respects this site is superior to the Utah Test and Training Range (used for Stardust) in the USA. Recovery operations for all recovered spacecraft suffered from the lack of a hermetic seal for the samples. Mission engineers should be pushed to provide hermetic seals for returned samples. Sample Curation Issues: More than two full years were required to prepare curation facilities for Stardust and Hayabusa. Despite this seemingly adequate lead time, major changes to curation procedures were required once the actual state of the returned samples became apparent. Sample databases must be fully implemented before sample return for Stardust we did not adequately think through all of the possible sub sampling and

  6. Prognostic nomogram for patients with hepatocellular carcinoma underwent adjuvant transarterial chemoembolization following curative resection

    Science.gov (United States)

    Jing, Chu-Yu; Fu, Yi-Peng; Zheng, Su-Su; Yi, Yong; Shen, Hu-Jia; Huang, Jin-Long; Xu, Xin; Lin, Jia-Jia; Zhou, Jian; Fan, Jia; Ren, Zheng-Gang; Qiu, Shuang-Jian; Zhang, Bo-Heng

    2017-01-01

    Abstract Adjuvant transarterial chemoembolization (TACE) is a major option for postoperative hepatocellular carcinoma (HCC) patients with recurrence risk factors. However, individualized predictive models for subgroup of these patients are limited. This study aimed to develop a prognostic nomogram for patients with HCC underwent adjuvant TACE following curative resection. A cohort comprising 144 HCC patients who received adjuvant TACE following curative resection in the Zhongshan Hospital were analyzed. The nomogram was formulated based on independent prognostic indicators for overall survival (OS). The performance of the nomogram was evaluated by the concordance index (C-index), calibration curve, and decision curve analysis (DCA) and compared with the conventional staging systems. The results were validated in an independent cohort of 86 patients with the same inclusion criteria. Serum alpha-fetoprotein (AFP), hyper-sensitive C-reactive protein (hs-CRP), incomplete tumor encapsulation, and double positive staining of Cytokeratin 7 and Cytokeratin 19 on tumor cells were identified as independent predictors for OS. The C-indices of the nomogram for OS prediction in the training cohort and validation cohort were 0.787 (95%CI 0.775–0.799) and 0.714 (95%CI 0.695–0.733), respectively. In both the training and validation cohorts, the calibration plot showed good consistency between the nomogram-predicted and the observed survival. Furthermore, the established nomogram was superior to the conventional staging systems in terms of C-index and clinical net benefit on DCA. The proposed nomogram provided an accurate prediction on risk stratification for HCC patients underwent adjuvant TACE following curative resection. PMID:28296727

  7. Preventive and curative effect of Pistacia lentiscus oil in experimental colitis.

    Science.gov (United States)

    Naouar, Mustafa S; Mekki, Lilia Zouiten; Charfi, Lamia; Boubaker, Jalel; Filali, Azza

    2016-10-01

    to investigate the anti-inflammatory effect of the Pistacia lentiscus oil in experimental colitis model. Colitis was induced in male rats by instillation of 2,4,6-trinitrobenzenesulfonic acid (TNBS) in all groups. The experimental groups consisted of: 5 rats received Lentisc oil 2months before colitis induction (preventive group), 5 rats received the oil on the day of colitis induction (curative group) and 5 control rats. Lentisc oil was extracted from the ripe fruit of the plant by the cold press method and was analyzed by spectro-chromatography. Lentisc oil has been inserted with a standard diet at the dose of 30mg oil/100g of food/rat. The lentisc oil sample is composed mainly by Oleic acid (47.96%), Palmitic acid (27.94%) and Linoleic acid (20.22%).There was a significant difference between control rats and treated rats with lentisc oil concerned body mass (p=0.009), bleeding index (p=0.005 and p=0.018) and diarrhea (p=0.012). Histological examination revealed a clear difference between the control and preventive groups with disappearance of erosion, decreased of cryptitis, irregular crypts and crypt loss in the preventive group. Curative group showed a significant decrease of ulceration, hyperplasia, cryptitis, irregular crypts and crypt loss compared to the control group. There was an attenuation of inflammation in the preventive group compared to the curative group without statistically significant. Lentisc oil administration could provide a protective effect on intestinal inflammation in colitis rats induced by TNBS mainly when it is administered at a young age in preventive mode. This beneficial effect would involve a modification of arachidonic acid metabolism. Copyright © 2016 Elsevier Masson SAS. All rights reserved.

  8. [Comparative study on curative effects of stroke treated with acupuncture by NIRS].

    Science.gov (United States)

    Li, Hong; Hou, Zhong-wei; Bai, Yu-lan; Gu, Shi-zhe

    2011-11-01

    To compare the intracephalic imaging differences of stroke treated with combined therapy of scalp and body acupuncture and body acupuncture only, in order to apply the image basis for the differences of clinical curative effects. Twenty cases of stroke were randomized into a body acupuncture group (group A) and a scalp and body acupuncture group (group B), ten cases in each group respectively. In group A, body acupuncture was applied simply, and different acupoints were selected according to the symptoms: Shousanli (LI 10), Jianliao (TE 14), Huantiao (GB 30) and Jiaji (EX-B 2) etc. were selected for hemiplegia, Fengchi (GB 20), Xiaguan (ST 7) and Quanliao (SI 18) etc. were for facial paralysis, Fengfu (GV 16) and Lianquan (CV 23) etc. were for aphasia. In group B, combined therapy were applied, the body acupoints selection was same as above; for scalp acupoints, corresponding motor area, sensory area and foot motor sensory area were selected. Instant changes of local cerebral blood flow before and after treatment were examined and evaluated by NIRS and the curative effects of both groups were evaluated. The total therapeutic effective rate was 90.0% (9/10) and the basically cured rate was 30.0% (3/10) in group A; and 100.0% (10/10) and 50.0% (5/10) respectively in group B, indicating that the clinical curative effect in group B was superior to that in group A at 20, 30 min of acupuncture treatment (P acupuncture treatment (all P Acupuncture can significantly increase blood flow and oxygen saturation in brain cortex, and the effect with combined therapy of scalp and body acupuncture is superior to that with body acupuncture.

  9. The significance of urine microscopy and urinary kidney injury molecular 1 and neutrophil gelatinase associated lipocalin in patients with primary kidney disease complicated with acute tubular interstitial lesion%尿沉渣联合尿KIM-1、NGAL在诊断原发性肾脏病合并急性肾小管间质病变中的意义

    Institute of Scientific and Technical Information of China (English)

    刘亚红; 苑丽华

    2015-01-01

    目的 观察原发性慢性肾脏病(CKD)合并急性肾小管间质病变(ATIL)时尿沉渣积分情况和尿肾损伤因子1(KIM-1)、中性粒细胞明胶酶相关脂质运载蛋白(NGAL)水平的变化,以期早期、准确发现ATIL.方法 经临床和病理确诊为CKD并发ATIL病例52例,对照组为无急性肾损伤(AKI)的原发性CKD患者33例,15例健康人为正常对照组.比较三组尿KIM-1、NGAL水平与尿沉渣积分的不同.结果 ①三组的尿KIM-1、NGAL水平和尿沉渣积分相比较,原发性CKD并发ATIL患者均高于其他两组(P<0.05),无AKI的CKD患者高于健康对照组(P<0.05);②尿KIM-1、NGAL水平与尿沉渣评分呈正相关(r=0.711,0.683,P<0.05),三者又均与CKD患者的ATIL严重程度呈正相关(r=0.892,0.735,0.745,P<0.05);③N-乙酰-β-D-氨基葡萄糖苷酶(NAG)、视黄醇结合蛋白(RBP)和α1-微球蛋白(α1-MG)尚在正常范围的患者尿KIM-1、NGAL水平已有升高,肾脏组织病理证实存在不同程度的ATIL;④尿KIM-1、NGAL、光抑素C(CysC)、NAG诊断ATIL的ROC曲线下面积大于尿RBP、α1-MG.尿沉渣诊断ATIL的受试者工作(ROC)曲线下面积为84%.尿KIM-1、NGAL联合尿沉渣积分诊断ATIL的准确性达100%.结论 尿沉渣联合尿KIM-1、NGAL可作为诊断原发性CKD并发ATIL的早期、无创、敏感的指标.%Objectives We explored urinary sediment scoring on the basis of the number of renal tubular epithelial cells and granular casts and the urinary level of KIM-1 and NGAL in patients with primary and chronic kidney disease (CKD) complicated with acute tubular interstitial lesion(ATIL),in order to find tubular interstitial injury early and accurately.Methods Data of 52 cases of primary CKD with ATIL and of 33 cases of CKD without acute kidney injury (AKI)admitted to Second Affiliated Hospital of Xingtai Medical College from February 2012 to February 2013 were analyzed.Urinary sediment scoring on the basis of the number of renal tubular epithelial

  10. EURO-CARES: European Roadmap for a Sample Return Curation Facility and Planetary Protection Implications.

    Science.gov (United States)

    Brucato, John Robert

    2016-07-01

    A mature European planetary exploration program and evolving sample return mission plans gathers the interest of a wider scientific community. The interest is generated from studying extraterrestrial samples in the laborato-ry providing new opportunities to address fundamental issues on the origin and evolution of the Solar System, on the primordial cosmochemistry, and on the nature of the building blocks of terrestrial planets and on the origin of life. Major space agencies are currently planning for missions that will collect samples from a variety of Solar Sys-tem environments, from primitive (carbonaceous) small bodies, from the Moon, Mars and its moons and, final-ly, from icy moons of the outer planets. A dedicated sample return curation facility is seen as an essential re-quirement for the receiving, assessment, characterization and secure preservation of the collected extraterrestrial samples and potentially their safe distribution to the scientific community. EURO-CARES is a European Commission study funded under the Horizon-2020 program. The strategic objec-tive of EURO-CARES is to create a roadmap for the implementation of a European Extraterrestrial Sample Cu-ration Facility. The facility has to provide safe storage and handling of extraterrestrial samples and has to enable the preliminary characterization in order to achieve the required effectiveness and collaborative outcomes for the whole international scientific community. For example, samples returned from Mars could pose a threat on the Earth's biosphere if any living extraterrestrial organism are present in the samples. Thus planetary protection is an essential aspect of all Mars sample return missions that will affect the retrival and transport from the point of return, sample handling, infrastructure methodology and management of a future curation facility. Analysis of the state of the art of Planetary Protection technology shows there are considerable possibilities to define and develop

  11. Text Mining Genotype-Phenotype Relationships from Biomedical Literature for Database Curation and Precision Medicine.

    Science.gov (United States)

    Singhal, Ayush; Simmons, Michael; Lu, Zhiyong

    2016-11-01

    The practice of precision medicine will ultimately require databases of genes and mutations for healthcare providers to reference in order to understand the clinical implications of each patient's genetic makeup. Although the highest quality databases require manual curation, text mining tools can facilitate the curation process, increasing accuracy, coverage, and productivity. However, to date there are no available text mining tools that offer high-accuracy performance for extracting such triplets from biomedical literature. In this paper we propose a high-performance machine learning approach to automate the extraction of disease-gene-variant triplets from biomedical literature. Our approach is unique because we identify the genes and protein products associated with each mutation from not just the local text content, but from a global context as well (from the Internet and from all literature in PubMed). Our approach also incorporates protein sequence validation and disease association using a novel text-mining-based machine learning approach. We extract disease-gene-variant triplets from all abstracts in PubMed related to a set of ten important diseases (breast cancer, prostate cancer, pancreatic cancer, lung cancer, acute myeloid leukemia, Alzheimer's disease, hemochromatosis, age-related macular degeneration (AMD), diabetes mellitus, and cystic fibrosis). We then evaluate our approach in two ways: (1) a direct comparison with the state of the art using benchmark datasets; (2) a validation study comparing the results of our approach with entries in a popular human-curated database (UniProt) for each of the previously mentioned diseases. In the benchmark comparison, our full approach achieves a 28% improvement in F1-measure (from 0.62 to 0.79) over the state-of-the-art results. For the validation study with UniProt Knowledgebase (KB), we present a thorough analysis of the results and errors. Across all diseases, our approach returned 272 triplets (disease

  12. Repetitive response to gemcitabine that led to curative resection in cholangiocarcinoma

    Institute of Scientific and Technical Information of China (English)

    Seong Hun Kim; In Hee Kim; Sang Wook Kim; Seung-Ok Lee

    2009-01-01

    This study reports a case of unresectable intrahepatic mass-forming cholangiocarcinoma which showed a dramatic response to gemcitabine that led to curative resection and a long-term survival of more than five years. Six and five cycles of gemcitabine monotherapy were administered separately over a three-year period and a radical excision was performed at 4.5 years after diagnosis. This case indicates the role of gemcitabine as a neoadjuvant chemotherapeutic agent for cholangiocarcinoma and guarantees a randomized controlled prospective study.

  13. Digital Curation Education and Training: From Digitization to Graduate Curricula to MOOCs

    Directory of Open Access Journals (Sweden)

    Helen R. Tibbo

    2015-02-01

    Full Text Available This paper traces the development of digital and data curation curricula. Due to the brief length of this paper, the focus is on North American initiatives and primarily on continuing education programs. It explores the strengths and weaknesses of professional workshops and the creation of graduate-level courses, certificates, degrees and MOOCs, as well as the role of funding agencies in this process. It concludes with an analysis of what is missing and what is needed to create the workforce required to steward digital assets in the foreseeable future.

  14. Synthetic Polymer with a Structure-Driven Hepatic Deposition and Curative Pharmacological Activity in Hepatic Cells

    DEFF Research Database (Denmark)

    Riber, Camilla Frich; Halling Folkmar Andersen, Anna; Anegaard Rolskov, Lærke

    2017-01-01

    Synthetic polymers make strong contributions as tools for delivery of biological drugs and chemotherapeutics. The most praised characteristic of polymers in these applications is complete lack of pharmacological function such as to minimize the side effects within the human body. In contrast......, and pharmacokinetic properties not observed in close structural analogues. Specifically, PEAA reveals capacity to bind to albumin with ensuing natural hepatic deposition in vivo and exhibits concurrent inhibitory activity against the hepatitis C virus and inflammation in hepatic cells. Our findings provide a view...... on synthetic polymers as curative, functional agents and present PEAA as a unique biomedical tool with applications related to health of the human liver....

  15. The French initiative for scientific cores virtual curating : a user-oriented integrated approach

    Science.gov (United States)

    Pignol, Cécile; Godinho, Elodie; Galabertier, Bruno; Caillo, Arnaud; Bernardet, Karim; Augustin, Laurent; Crouzet, Christian; Billy, Isabelle; Teste, Gregory; Moreno, Eva; Tosello, Vanessa; Crosta, Xavier; Chappellaz, Jérome; Calzas, Michel; Rousseau, Denis-Didier; Arnaud, Fabien

    2016-04-01

    Managing scientific data is probably one the most challenging issue in modern science. The question is made even more sensitive with the need of preserving and managing high value fragile geological sam-ples: cores. Large international scientific programs, such as IODP or ICDP are leading an intense effort to solve this problem and propose detailed high standard work- and dataflows thorough core handling and curating. However most results derived from rather small-scale research programs in which data and sample management is generally managed only locally - when it is … The national excellence equipment program (Equipex) CLIMCOR aims at developing French facilities for coring and drilling investigations. It concerns indiscriminately ice, marine and continental samples. As part of this initiative, we initiated a reflexion about core curating and associated coring-data management. The aim of the project is to conserve all metadata from fieldwork in an integrated cyber-environment which will evolve toward laboratory-acquired data storage in a near future. In that aim, our demarche was conducted through an close relationship with field operators as well laboratory core curators in order to propose user-oriented solutions. The national core curating initiative currently proposes a single web portal in which all scientifics teams can store their field data. For legacy samples, this will requires the establishment of a dedicated core lists with associated metadata. For forthcoming samples, we propose a mobile application, under Android environment to capture technical and scientific metadata on the field. This application is linked with a unique coring tools library and is adapted to most coring devices (gravity, drilling, percussion, etc...) including multiple sections and holes coring operations. Those field data can be uploaded automatically to the national portal, but also referenced through international standards or persistent identifiers (IGSN, ORCID and INSPIRE

  16. Analysis of the Curative Effect of Electroacupuncture plus Qigong on Ulcerative Colonitis

    Institute of Scientific and Technical Information of China (English)

    LIU Yan-shou; WANG Si-you

    2003-01-01

    The clinical effect of acupuncture plus qigong on ulcerative colonitis was analyzed in 113 cases.They were randomly divided into electroacupuncture plus qigong group (treatment group, in short), acupmoxi group and qigong groups. The results showed that the cure rate was 77% in the treatment group, 57% in the acupmoxi group and 53% in the qigong group. A chi square test showed a significant difference ( P < 0.01 ),indicating that electroacupuncture plus qigong had a marked curative effect and suggesting that early treatment can produce a satisfactory effect.

  17. Observation of curative effect of modified canalith reposition on 48 cases with benign paroxysmal positional vertigo

    Directory of Open Access Journals (Sweden)

    LAN Jun

    2012-02-01

    Full Text Available Objective To investigate the therapeutic efficacy of the canalith repositioning maneuver in benign paroxysmal positional vertigo (BPPV. Methods The modified Epley procedure, Semont maneuver and Barbecue maneuver were applied in 48 cases of BPPV. Followed for one year, the curative effects were observed. Results After treatment in modified canalith reposition, the recovery rate was 89.58% , and effective rate was 100% . Followed for one year, the recurrence rate was 6.25% . Conclusion Modified canalith reposition for BPPV has no contraindications, and no special adverse reactions. It is simple and can fastly relieve symptoms. The cost and recurrence rate are low. It is suitable for clinical application.

  18. Quality of life after curative liver resection: A single center analysis

    Institute of Scientific and Technical Information of China (English)

    Helge; Bruns; Kirsten; Krtschmer; Ulf; Hinz; Anette; Brechtel; Monika; Keller; Markus; W; Büchler; Peter; Schemmer

    2010-01-01

    AIM: To evaluate quality of life (QoL) after curative liver resection and identify variables associated with decreased QoL. METHODS: From October 2001 to July 2004, 323 patients underwent liver resection. At 3-36 mo after discharge, 188 patients were disease free. QoL was assessed using the Short Form (SF)-12 Health Survey with mental and physical component scales (SF-12 MCS and PCS), supplemented with generic questions concerning pain and liver-specific items. RESULTS: Sixty-eight percent (128/188) returne...

  19. The updated RGD Pathway Portal utilizes increased curation efficiency and provides expanded pathway information.

    Science.gov (United States)

    Hayman, G Thomas; Jayaraman, Pushkala; Petri, Victoria; Tutaj, Marek; Liu, Weisong; De Pons, Jeff; Dwinell, Melinda R; Shimoyama, Mary

    2013-02-05

    The RGD Pathway Portal provides pathway annotations for rat, human and mouse genes and pathway diagrams and suites, all interconnected via the pathway ontology. Diagram pages present the diagram and description, with diagram objects linked to additional resources. A newly-developed dual-functionality web application composes the diagram page. Curators input the description, diagram, references and additional pathway objects. The application combines these with tables of rat, human and mouse pathway genes, including genetic information, analysis tool and reference links, and disease, phenotype and other pathway annotations to pathway genes. The application increases the information content of diagram pages while expediting publication.

  20. Text Mining Genotype-Phenotype Relationships from Biomedical Literature for Database Curation and Precision Medicine.

    Directory of Open Access Journals (Sweden)

    Ayush Singhal

    2016-11-01

    Full Text Available The practice of precision medicine will ultimately require databases of genes and mutations for healthcare providers to reference in order to understand the clinical implications of each patient's genetic makeup. Although the highest quality databases require manual curation, text mining tools can facilitate the curation process, increasing accuracy, coverage, and productivity. However, to date there are no available text mining tools that offer high-accuracy performance for extracting such triplets from biomedical literature. In this paper we propose a high-performance machine learning approach to automate the extraction of disease-gene-variant triplets from biomedical literature. Our approach is unique because we identify the genes and protein products associated with each mutation from not just the local text content, but from a global context as well (from the Internet and from all literature in PubMed. Our approach also incorporates protein sequence validation and disease association using a novel text-mining-based machine learning approach. We extract disease-gene-variant triplets from all abstracts in PubMed related to a set of ten important diseases (breast cancer, prostate cancer, pancreatic cancer, lung cancer, acute myeloid leukemia, Alzheimer's disease, hemochromatosis, age-related macular degeneration (AMD, diabetes mellitus, and cystic fibrosis. We then evaluate our approach in two ways: (1 a direct comparison with the state of the art using benchmark datasets; (2 a validation study comparing the results of our approach with entries in a popular human-curated database (UniProt for each of the previously mentioned diseases. In the benchmark comparison, our full approach achieves a 28% improvement in F1-measure (from 0.62 to 0.79 over the state-of-the-art results. For the validation study with UniProt Knowledgebase (KB, we present a thorough analysis of the results and errors. Across all diseases, our approach returned 272 triplets

  1. If we build it, will they come? Curation and use of the ESO telescope bibliography

    Science.gov (United States)

    Grothkopf, Uta; Meakins, Silvia; Bordelon, Dominic

    2015-12-01

    The ESO Telescope Bibliography (telbib) is a database of refereed papers published by the ESO users community. It links data in the ESO Science Archive with the published literature, and vice versa. Developed and maintained by the ESO library, telbib also provides insights into the organization's research output and impact as measured through bibliometric studies. Curating telbib is a multi-step process that involves extensive tagging of the database records. Based on selected use cases, this talk will explain how the rich metadata provide parameters for reports and statistics in order to investigate the performance of ESO's facilities and to understand trends and developments in the publishing behaviour of the user community.

  2. From Map Curator to Information Manager Or The Last of the Dinosaurs

    Directory of Open Access Journals (Sweden)

    Peter Korsgaard

    2008-09-01

    Full Text Available The National Survey and Cadastre of Denmark has now made such progress in scanning its collection of maps and putting it on the internet that the question arises: What to do next? There are several options: improving the quality of the metadata; incorporating maps from other institutions etc. But the expert knowledge of map curators is crucial in serving users, and their knowledge must be passed on to future generations. Finally, the author points out that much thought must be given to the process of collecting maps digitally made.

  3. Curating New Media by Focusing on the Recipient’s Attitude: Immateriality and Entertainment

    Directory of Open Access Journals (Sweden)

    Narvika Bovcon

    2011-11-01

    Full Text Available Curating new media art exhibitions challenges the understanding of how new media technologies reconfigure user’s relation to reality. Artists explore the potential of new communication models to encode ideas and experiences that relate to familiar concepts and to new paradigms. The paper presents two aspects that characterize communication in new media, its problematic materiality and playfulness,and illustrates them with two ArtNetLab group exhibitions: Immaterial and Enter/tain. The object that the curatorial practice reconstructs in the two experimental exhibitions is the attitude that the gallery visitor or the user assumes when coming into contact with a communicative artifact.

  4. Neoadjuvant transcatheter arterial chemoembolization does not provide survival benefit compared to curative therapy alone in single hepatocellular carcinoma.

    Science.gov (United States)

    Yeh, Ming-Lun; Huang, Ching-I; Huang, Chung-Feng; Hsieh, Ming-Yen; Huang, Jee-Fu; Dai, Chia-Yen; Lin, Zu-Yau; Chen, Shinn-Cherng; Yu, Ming-Lung; Chuang, Wan-Long

    2015-02-01

    The role of transcatheter arterial chemoembolization (TACE) prior to curative therapy is still unclear. The aim of our study was to elucidate the survival of single hepatocellular carcinoma (HCC) and also to clarify whether TACE plus sequential curative therapy provides benefits in single HCC. A total of 470 patients with a diagnosis of single HCC between 2005 and 2010 were studied. The factors associated with clinical outcomes were analyzed. The outcomes between patients who underwent neoadjuvant TACE and those who did not were also compared. The 1-, 3-, and 5-year overall survival (OS) rates of all patients were 92.6%, 73.3%, and 59.6%, respectively. Child-Pugh class A [HR: 2.04, 95% confidence interval (CI): 1.277-3.254, p = 0.003], very early stage Barcelona Clinic Liver Cancer (BCLC) (HR: 2.03, 95% CI: 1.021-4.025, p = 0.043), tumor size class A (HR: 1.57, 95% CI: 1.068-2.294, p = 0.022) and curative-based therapy (HR: 1.51, 95% CI: 1.128-2.028, p = 0.006) were significantly associated with better DFS. Neoadjuvant TACE did not provide benefit compared with curative therapy alone in subgroup analysis. In conclusion, neoadjuvant TACE is not recommended in single HCC patients who may indicate for curative therapy. Copyright © 2014. Published by Elsevier Taiwan.

  5. An Institutional Community-Driven effort to Curate and Preserve Geospatial Data using GeoBlacklight

    Science.gov (United States)

    Petters, J.; Coleman, S.; Andrea, O.

    2016-12-01

    A variety of geospatial data is produced or collected by both academic researchers and non-academic groups in the Virginia Tech community. In an effort to preserve, curate and make this geospatial data discoverable, the University Libraries have been building a local implementation of GeoBlacklight, a multi-institutional open-source collaborative project to improve the discoverability and sharing of geospatial data. We will discuss the local implementation of Geoblacklight at Virginia Tech, focusing on the efforts necessary to make it a sustainable resource for the institution and local community going forward. This includes technical challenges such as the development of uniform workflows for geospatial data produced within and outside the course of research, but organizational and economic barriers must be overcome as well. In spearheading this GeoBlacklight effort the Libraries have partnered with University Facilities and University IT. The IT group manages the storage and backup of geospatial data, allowing our group to focus on geospatial data collection and curation. Both IT and University Facilities are in possession of localized geospatial data of interest to Viriginia Tech researchers that all parties agreed should be made discoverable and accessible. The interest and involvement of these and other university stakeholders is key to establishing the sustainability of the infrastructure and the capabilities it can provide to the Virginia Tech community and beyond.

  6. The Indications and Clinical Curative Effects of Modified Neck Dissection in Head and Neck Cancers

    Institute of Scientific and Technical Information of China (English)

    GuohaoWu; WeiweiUu; FujinChen; ZongyuanZeng; HaoLi; MingSong; MaowenWei; QuanZhang; AnkuiYang; WenkuanChen

    2004-01-01

    OBJECTIVE Functional neck dissection was first described by Bocca and Pignataro in 1967. It has been used in clinical practice for years, but remains controversial among neck-surgery experts. This study was designed to evaluate indications and curative effects of functional-neck dissection (FND). METHODS One hundred and fifty-two cases which underwent FND were reviewed with an analysis of pathological specimens and follow-up datas. RESULTS The series of FND included 20 cases of tongue carcinoma, 23 cases of larynx carcinoma, 96 cases of thyroid papillary adenocarcinoma, 9 cases of follicular adenocarcinoma and 4 cases of medullary adenocarcinoma; the five-year recurrence rate for tongue carcinoma was 12.5%, 14.3%, 40.0% and for a larynx carcinoma was 20.0%, 16.7%, 50.0% in N0 stage, N1 stage, N2a stage, respectively. The 5-year recurrence rate of thyroid papillary adenocarcinoma was 6.5%, 7.1% in N1a, N1b, respectively. CONCLUSION Functional neck dissection is indicated in early and low malignant head and neck neoplasms and results in satisfactory curative effects.

  7. Metachronous Ampulla of Vater Carcinoma after Curative-Intent Surgery for Klatskin Tumor.

    Science.gov (United States)

    Chirita, D; Calita, M; Grasu, M; Dumitru, R; Gramaticu, I; Croitoru, A; Ionescu, M; Dumitrascu, T

    2015-01-01

    Resection represents the single hope for long-term survival in a patient diagnosed with a hilar cholangiocarcinoma (Klatskin tumor). However, the largest part of these patients develops a recurrent disease. Second metachronous periampullary cancers after a curative-intent surgery for a Klatskin tumor represent an exceptional pathology, and the management of these patients was poorly documented. Hereby, it is presented a 32-year-old patient with bile duct resection, left hemi-hepatectomy and loco-regional lymph nodes dissection, for a type IIIB Bismuth-Corlette Klatskin tumor, which, furthermore, 6 years later, underwent a pancreaticoduodenectomy for a metachronous carcinoma of the ampulla of Vater. The management and outcomes were discussed in the reported case, along with a literature review of the previously published patients. In conclusion, a metachronous periampullary carcinoma after resection of a Klatskin tumor should be distinguished from a loco-regional recurrent disease. While most of the patients with recurrences are suitable to only chemotherapy and or radiotherapy, a second curative-intent surgery (i.e., pancreaticoduodenectomy) is feasible in the largest part of the patients with a metachronous cancer, with good long-term outcomes.

  8. Crafting Linked Open Data for Cultural Heritage: Mapping and Curation Tools for the Linked Jazz Project

    Directory of Open Access Journals (Sweden)

    M. Cristina Pattuelli

    2013-07-01

    Full Text Available This paper describes tools and methods developed as part of Linked Jazz, a project that uses Linked Open Data (LOD to reveal personal and professional relationships among jazz musicians based on interviews from jazz archives. The overarching aim of Linked Jazz is to explore the possibilities offered by LOD to enhance the visibility of cultural heritage materials and enrich the semantics that describe them. While the full Linked Jazz dataset is still under development, this paper presents two applications that have laid the foundation for the creation of this dataset: the Mapping and Curator Tool, and the Transcript Analyzer. These applications have served primarily for data preparation, analysis, and curation and are representative of the types of tools and methods needed to craft linked data from digital content available on the web. This paper discusses these two domain-agnostic tools developed to create LOD from digital textual documents and offers insight into the process behind the creation of LOD in general.

  9. Clinical Outcomes of Resectable Esophageal Cancer with Supraclavicular Lymph Node Metastases Treated with Curative Intent.

    Science.gov (United States)

    Honma, Yoshitaka; Hokamura, Nobukazu; Nagashima, Kengo; Sudo, Kazuki; Shoji, Hirokazu; Iwasa, Satoru; Takashima, Atsuo; Kato, Ken; Hamaguchi, Tetsuya; Boku, Narikazu; Umezawa, Rei; Ito, Yoshinori; Itami, Jun; Koyanagi, Kazuo; Igaki, Hiroyasu; Tachimori, Yuji

    2017-07-01

    In the seventh edition of the Union for International Cancer Control (UICC) TNM classification, supraclavicular lymph node (SCLN) in regard to thoracic esophageal cancer (EC) is regarded as a distant organ, therefore, if resectable, SCLN metastasis is considered a candidate for systemic chemotherapy. The purpose of this study was to clarify the survival outcome in patients with resectable thoracic EC with SCLN metastases (M1LYM) treated with curative intent. Clinical outcomes in patients with resectable thoracic EC with SCLN metastases (M1LYM) treated by esophagectomy or definitive chemoradiotherapy (dCRT) were retrospectively analyzed. A total of 102 patients were divided in three groups: Surgery with perioperative therapy, n=45; surgery alone, n=19; and dCRT, n=38. Overall, median progression-free survival and median survival time were 9.3 and 26.7 months, respectively. The median survival time was 27.5 months in the group treated with surgery with perioperative treatment, 50.6 months in those treated with surgery alone, and 22 months in the dCRT group. No significant survival difference was seen among the three groups. Over 30% of patients with resectable M1LYM treated with curative intent achieved long-term survival. Copyright© 2017, International Institute of Anticancer Research (Dr. George J. Delinasios), All rights reserved.

  10. A curated and standardized adverse drug event resource to accelerate drug safety research.

    Science.gov (United States)

    Banda, Juan M; Evans, Lee; Vanguri, Rami S; Tatonetti, Nicholas P; Ryan, Patrick B; Shah, Nigam H

    2016-05-10

    Identification of adverse drug reactions (ADRs) during the post-marketing phase is one of the most important goals of drug safety surveillance. Spontaneous reporting systems (SRS) data, which are the mainstay of traditional drug safety surveillance, are used for hypothesis generation and to validate the newer approaches. The publicly available US Food and Drug Administration (FDA) Adverse Event Reporting System (FAERS) data requires substantial curation before they can be used appropriately, and applying different strategies for data cleaning and normalization can have material impact on analysis results. We provide a curated and standardized version of FAERS removing duplicate case records, applying standardized vocabularies with drug names mapped to RxNorm concepts and outcomes mapped to SNOMED-CT concepts, and pre-computed summary statistics about drug-outcome relationships for general consumption. This publicly available resource, along with the source code, will accelerate drug safety research by reducing the amount of time spent performing data management on the source FAERS reports, improving the quality of the underlying data, and enabling standardized analyses using common vocabularies.

  11. Curation of Laboratory Experimental Data as Part of the Overall Data Lifecycle

    Directory of Open Access Journals (Sweden)

    Jeremy Frey

    2008-08-01

    Full Text Available The explosion in the production of scientific data in recent years is placing strains upon conventional systems supporting integration, analysis, interpretation and dissemination of data and thus constraining the whole scientific process. Support for handling large quantities of diverse information can be provided by e-Science methodologies and the cyber-infrastructure that enables collaborative handling of such data. Regard needs to be taken of the whole process involved in scientific discovery. This includes the consideration of the requirements of the users and consumers further down the information chain and what they might ideally prefer to impose on the generators of those data. As the degree of digital capture in the laboratory increases, it is possible to improve the automatic acquisition of the ‘context of the data’ as well as the data themselves. This process provides an opportunity for the data creators to ensure that many of the problems they often encounter in later stages are avoided. We wish to elevate curation to an operation to be considered by the laboratory scientist as part of good laboratory practice, not a procedure of concern merely to the few specialising in archival processes. Designing curation into experiments is an effective solution to the provision of high-quality metadata that leads to better, more re-usable data and to better science.

  12. The Developmental Brain Disorders Database (DBDB): a curated neurogenetics knowledge base with clinical and research applications.

    Science.gov (United States)

    Mirzaa, Ghayda M; Millen, Kathleen J; Barkovich, A James; Dobyns, William B; Paciorkowski, Alex R

    2014-06-01

    The number of single genes associated with neurodevelopmental disorders has increased dramatically over the past decade. The identification of causative genes for these disorders is important to clinical outcome as it allows for accurate assessment of prognosis, genetic counseling, delineation of natural history, inclusion in clinical trials, and in some cases determines therapy. Clinicians face the challenge of correctly identifying neurodevelopmental phenotypes, recognizing syndromes, and prioritizing the best candidate genes for testing. However, there is no central repository of definitions for many phenotypes, leading to errors of diagnosis. Additionally, there is no system of levels of evidence linking genes to phenotypes, making it difficult for clinicians to know which genes are most strongly associated with a given condition. We have developed the Developmental Brain Disorders Database (DBDB: https://www.dbdb.urmc.rochester.edu/home), a publicly available, online-curated repository of genes, phenotypes, and syndromes associated with neurodevelopmental disorders. DBDB contains the first referenced ontology of developmental brain phenotypes, and uses a novel system of levels of evidence for gene-phenotype associations. It is intended to assist clinicians in arriving at the correct diagnosis, select the most appropriate genetic test for that phenotype, and improve the care of patients with developmental brain disorders. For researchers interested in the discovery of novel genes for developmental brain disorders, DBDB provides a well-curated source of important genes against which research sequencing results can be compared. Finally, DBDB allows novel observations about the landscape of the neurogenetics knowledge base.

  13. Manually Curated Database of Rice Proteins (MCDRP, a database of digitized experimental data on rice

    Directory of Open Access Journals (Sweden)

    Saurabh Raghuvanshi

    2016-11-01

    Full Text Available MCDRP or ‘Manually Curated Database of Rice Proteins’ is a database of digitized experimental datasets on rice proteins. Every aspect of the experimental data published in peer-reviewed research articles on rice biology has been digitized with the help of novel data curation models. These models use a semantic and structured arrangement of alpha-numeric notation, including several well known ontologies, to represent various aspect of the data. As a result data from more than 15,000 different experiments pertaining to about 2400 rice proteins has been digitized from over 540 published and peer-reviewed research articles. The database portal provides access to the digitized experimental data via search or browse functions. In essence, one can instantly access data from even a single data-point from a collection of thousands of the experimental datasets. On the other hand, one can easily access the digitized experimental data from multiple research articles on a rice protein. Based on the analysis and integration of the digitized experimental data, more than 800 different traits (molecular, biochemical or phenotypic have been precisely mapped onto the rice proteins along with the underlying experimental evidences. Similarly, over 4370 associations, based on experimental evidence, have been established between the rice proteins and various gene ontology terms. The database is being continuously updated and is freely available at www.genomeindia.org.in/biocuration.

  14. A curated census of autophagy-modulating proteins and small molecules: candidate targets for cancer therapy.

    Science.gov (United States)

    Lorenzi, Philip L; Claerhout, Sofie; Mills, Gordon B; Weinstein, John N

    2014-07-01

    Autophagy, a programmed process in which cell contents are delivered to lysosomes for degradation, appears to have both tumor-suppressive and tumor-promoting functions; both stimulation and inhibition of autophagy have been reported to induce cancer cell death, and particular genes and proteins have been associated both positively and negatively with autophagy. To provide a basis for incisive analysis of those complexities and ambiguities and to guide development of new autophagy-targeted treatments for cancer, we have compiled a comprehensive, curated inventory of autophagy modulators by integrating information from published siRNA screens, multiple pathway analysis algorithms, and extensive, manually curated text-mining of the literature. The resulting inventory includes 739 proteins and 385 chemicals (including drugs, small molecules, and metabolites). Because autophagy is still at an early stage of investigation, we provide extensive analysis of our sources of information and their complex relationships with each other. We conclude with a discussion of novel strategies that could potentially be used to target autophagy for cancer therapy.

  15. Digital Data Preservation and Curation: A Collaboration Among Libraries, Publishers, and the Virtual Observatory

    Science.gov (United States)

    Hanisch, R. J.; Steffen, J.; Choudhury, S.; Dilauro, T.; Szalay, A.; Vishniac, E.; Ehling, T.; Milkey, R.; Plante, R.

    2007-10-01

    Astronomers are producing and analyzing data at ever more prodigious rates. NASA's Great Observatories, ground-based national observatories, and major survey projects have archive and data distribution systems in place to manage their standard data products, and these are now interlinked through the protocols and metadata standards agreed upon in the Virtual Observatory. However, the digital data associated with peer-reviewed publications is only rarely archived. Most often, astronomers publish graphical representations of their data but not the data themselves. Other astronomers cannot readily inspect the data to either confirm the interpretation presented in a paper or extend the analysis. Highly processed data sets reside on departmental servers and the personal computers of astronomers, and may or may not be available a few years hence. We are investigating ways to preserve and curate the digital data associated with peer-reviewed journals in astronomy. The technology and standards of the VO provide one component of the necessary technology. A variety of underlying systems can be used to physically host a data repository, and indeed this repository need not be centralized. The repository, however, must be managed and data must be documented through high quality, curated metadata. Multiple access portals must be available: the original journal, the host data center, the Virtual Observatory, or any number of topically-oriented data services utilizing VO-standard access mechanisms.

  16. Small cell carcinoma of vulva. Curative multimodal treatment in face of resistance to initial standard chemotherapy

    Energy Technology Data Exchange (ETDEWEB)

    Eckert, Franziska; Bamberg, Michael; Mueller, Arndt-Christian [Dept. of Radiooncology, Eberhard Karls Univ. of Tuebingen (Germany); Fehm, Tanja [Gynecologic Clinic, Eberhard Karls Univ. of Tuebingen (Germany)

    2010-09-15

    Background and Purpose: Extrapulmonary small cell carcinoma (EPSCC) is a rare disease, which has a slightly better prognosis than small cell lung cancer, but still dismal. Gynecologic small cell malignancies tend to show a better survival than similar histologies of other regions. However, of five reported cases of vulvar manifestation only one patient was disease-free at the time of publication with limited follow-up. Case Report: The authors describe a case of locally advanced small cell vulva carcinoma infiltrating the anal sphincter and urethra with spread to inguinal lymph nodes treated by radiochemotherapy and regional hyperthermia. After three cycles of carboplatin/etoposide, computed tomography and magnetic resonance imaging indicated only little regressive transformations but overall stable disease. Surgical options were excluded. Therefore, curative radiotherapy to a total dose of > 65 Gy to macroscopic tumor, chemotherapy with cisplatin weekly, and regional hyperthermia were performed. Acute severe toxicity was limited to skin reactions. Despite the disadvantageous situation with inguinal lymph node metastases and chemoresistance, the multimodal therapy yielded a 5-year disease-free survival. Conclusion: Thus, the trimodal regimen of radiochemotherapy plus regional hyperthermia offered a curative chance in spite of resistance to the standard chemotherapy for irresectable, locally advanced small cell carcinoma of the vulva. Therefore, this approach merits further evaluation for limited disease of EPSCC. (orig.)

  17. Modern oncologic and operative outcomes for oesophageal cancer treated with curative intent.

    LENUS (Irish Health Repository)

    Reynolds, J V

    2011-09-01

    The curative approach to oesophageal cancer carries significant risks and a cure is achieved in approximately 20 per cent. There has been a recent trend internationally to observe improved operative and oncological outcomes. This report audits modern outcomes from a high volume centre with a prospective database for the period 2004-08. 603 patients were referred and 310 (52%) were treated with curative intent. Adenocarcinoma represented 68% of the cohort, squamous cell cancer 30%. Of the 310 cases, 227 (73%) underwent surgery, 105 (46%) underwent surgery alone, and 122 (54%) had chemotherapy or combination chemotherapy and radiation therapy. The postoperative mortality rate was 1.7%. The median and 5-year survival of the 310 patients based on intention to treat was 36 months and 36%, respectively, and of the 181 patients undergoing R0 resection, 52 months and 42%, respectively. An in-hospital postoperative mortality rate of less than 2 per cent, and 5-year survival of between 35 and 42% is consistent with benchmarks from international series.

  18. Effects of the protective, curative, and eradicative applications of chitosan against Penicillium expansum in apples

    Directory of Open Access Journals (Sweden)

    Josiane Cecília Darolt

    Full Text Available Abstract Apple is one of the most important temperate fruit to Brazil economy, and the use of synthetic chemicals has been the main method for reducing postharvest diseases, such as the blue mold, caused by Penicillium expansum. This work intends to evaluate the practical utilization of chitosan for blue mold control. For this purpose, fruits were treated in a preventive and curative way, immersing the fruits in chitosan solution (5 or 10 mg mL-1, or adding a single drop of this solution (10 mg mL-1 directly into the injuries. The eradicative effect of the polysaccharide was also evaluated in vitro and in vivo. Chitosan did not show a curative effect against the blue mold, and its eradicative effect was only evidenced on the higher concentration (10 mg mL-1. On the other hand, preventively, without the addition of adjuvants, chitosan reduced blue mold incidence in fruits by 24% and 93%, through the immersion or the single drop methods, respectively. Thus, it was found that, for long scale utilization, some improvements in the physico-chemical properties of the chitosan are needed, since it was only capable to prevent the infection by P. expansum when directly added on the fruit injury.

  19. Effects of the protective, curative, and eradicative applications of chitosan against Penicillium expansum in apples.

    Science.gov (United States)

    Darolt, Josiane Cecília; Rocha Neto, Argus Cezar da; Di Piero, Robson Marcelo

    Apple is one of the most important temperate fruit to Brazil economy, and the use of synthetic chemicals has been the main method for reducing postharvest diseases, such as the blue mold, caused by Penicillium expansum. This work intends to evaluate the practical utilization of chitosan for blue mold control. For this purpose, fruits were treated in a preventive and curative way, immersing the fruits in chitosan solution (5 or 10mgmL(-1)), or adding a single drop of this solution (10mgmL(-1)) directly into the injuries. The eradicative effect of the polysaccharide was also evaluated in vitro and in vivo. Chitosan did not show a curative effect against the blue mold, and its eradicative effect was only evidenced on the higher concentration (10mgmL(-1)). On the other hand, preventively, without the addition of adjuvants, chitosan reduced blue mold incidence in fruits by 24% and 93%, through the immersion or the single drop methods, respectively. Thus, it was found that, for long scale utilization, some improvements in the physico-chemical properties of the chitosan are needed, since it was only capable to prevent the infection by P. expansum when directly added on the fruit injury.

  20. Efficient Workflows for Curation of Heterogeneous Data Supporting Modeling of U-Nb Alloy Aging

    Energy Technology Data Exchange (ETDEWEB)

    Ward, Logan Timothy [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Hackenberg, Robert Errol [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)

    2016-08-31

    These are slides from a presentation summarizing a graduate research associate's summer project. The following topics are covered in these slides: data challenges in materials, aging in U-Nb Alloys, Building an Aging Model, Different Phase Trans. in U-Nb, the Challenge, Storing Materials Data, Example Data Source, Organizing Data: What is a Schema?, What does a "XML Schema" look like?, Our Data Schema: Nice and Simple, Storing Data: Materials Data Curation System (MDCS), Problem with MDCS: Slow Data Entry, Getting Literature into MDCS, Staging Data in Excel Document, Final Result: MDCS Records, Analyzing Image Data, Process for Making TTT Diagram, Bottleneck Number 1: Image Analysis, Fitting a TTP Boundary, Fitting a TTP Curve: Comparable Results, How Does it Compare to Our Data?, Image Analysis Workflow, Curating Hardness Records, Hardness Data: Two Key Decisions, Before Peak Age? - Automation, Interactive Viz, Which Transformation?, Microstructure-Informed Model, Tracking the Entire Process, General Problem with Property Models, Pinyon: Toolkit for Managing Model Creation, Tracking Individual Decisions, Jupyter: Docs and Code in One File, Hardness Analysis Workflow, Workflow for Aging Models, and conclusions.

  1. The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community.

    Science.gov (United States)

    Arnaud, Martha B; Chibucos, Marcus C; Costanzo, Maria C; Crabtree, Jonathan; Inglis, Diane O; Lotia, Adil; Orvis, Joshua; Shah, Prachi; Skrzypek, Marek S; Binkley, Gail; Miyasato, Stuart R; Wortman, Jennifer R; Sherlock, Gavin

    2010-01-01

    The Aspergillus Genome Database (AspGD) is an online genomics resource for researchers studying the genetics and molecular biology of the Aspergilli. AspGD combines high-quality manual curation of the experimental scientific literature examining the genetics and molecular biology of Aspergilli, cutting-edge comparative genomics approaches to iteratively refine and improve structural gene annotations across multiple Aspergillus species, and web-based research tools for accessing and exploring the data. All of these data are freely available at http://www.aspgd.org. We welcome feedback from users and the research community at aspergillus-curator@genome.stanford.edu.

  2. Case study: Curation and publication of physical samples using persistent identifiers

    Science.gov (United States)

    Golodoniuc, Pavel; Devaraju, Anusuriya; Klump, Jens

    2017-04-01

    Physical samples are important observational units in Earth and Space sciences. Samples and their derived data play vital role in scientific validation and reproducibility. Systematic practices and technical solutions are required to curate and publish samples and their data on the Web. Persistent identifiers ensure unambiguous identification, and enable linkage and citation of samples and associated data sets. The International Geo Sample Number (IGSN) is a persistent and globally unique identifier for physical samples and sample collections. IGSNs are allocated to clients (e.g., laboratories, projects, individual users) through agents. Agents are institutions that represent the IGSN e.V., the IGSN Implementation Organization. For example, CSIRO, Geoscience Australia and Curtin University are IGSN allocating agents in Australia. Clients register IGSNs for samples through the respective agent's registration services. The Discovery research program of CSIRO is conducting research in the prolific metallogenic provinces of the Capricorn Orogen - a regional study aimed to define distal footprints of covered ore systems. In CSIRO, the Capricorn Distal Footprints (CAPDF) project is one of the early adopters of the IGSN in its sample curation. The project involves collection of various samples, including water, rock, sediment, vegetation and regolith, which are collected by different researchers. The application of IGSN requires not only the supporting infrastructure and tools (e.g., user interface, service, metadata model) but also systematic workflows to cater different users, i.e., practices of laboratories or individual researchers. We present the application of the IGSN in the context of the CAPDF project as a sample inventory management system, samples identification in publications and sample discovery through a web portal. We describe workflows that demonstrate IGSN integration into existing sample curation practices and highlight challenges and benefits of such a

  3. Data Albums: An Event Driven Search, Aggregation and Curation Tool for Earth Science

    Science.gov (United States)

    Ramachandran, Rahul; Kulkarni, Ajinkya; Maskey, Manil; Bakare, Rohan; Basyal, Sabin; Li, Xiang; Flynn, Shannon

    2014-01-01

    One of the largest continuing challenges in any Earth science investigation is the discovery and access of useful science content from the increasingly large volumes of Earth science data and related information available. Approaches used in Earth science research such as case study analysis and climatology studies involve gathering discovering and gathering diverse data sets and information to support the research goals. Research based on case studies involves a detailed description of specific weather events using data from different sources, to characterize physical processes in play for a specific event. Climatology-based research tends to focus on the representativeness of a given event, by studying the characteristics and distribution of a large number of events. This allows researchers to generalize characteristics such as spatio-temporal distribution, intensity, annual cycle, duration, etc. To gather relevant data and information for case studies and climatology analysis is both tedious and time consuming. Current Earth science data systems are designed with the assumption that researchers access data primarily by instrument or geophysical parameter. Those who know exactly the datasets of interest can obtain the specific files they need using these systems. However, in cases where researchers are interested in studying a significant event, they have to manually assemble a variety of datasets relevant to it by searching the different distributed data systems. In these cases, a search process needs to be organized around the event rather than observing instruments. In addition, the existing data systems assume users have sufficient knowledge regarding the domain vocabulary to be able to effectively utilize their catalogs. These systems do not support new or interdisciplinary researchers who may be unfamiliar with the domain terminology. This paper presents a specialized search, aggregation and curation tool for Earth science to address these existing

  4. Ajateenistusest, ausalt! / Kim Järvepõld

    Index Scriptorium Estoniae

    Järvepõld, Kim

    2007-01-01

    Ilmunud ka: Postimees : na russkom jazõke, 9. apr. 2007, lk. 7. Autor leiab, et põhiseaduslik nõue, mille järgi on kõik Eesti kodanikud kohustatud osa võtma riigikaitsest, pole vastavuses tegeliku olukorraga, ning arvab, et kohustuslik ajateenistus tuleb kaotada või viia kooskõlla põhiseadusega

  5. Ajateenistusest, ausalt! / Kim Järvepõld

    Index Scriptorium Estoniae

    Järvepõld, Kim

    2007-01-01

    Ilmunud ka: Postimees : na russkom jazõke, 9. apr. 2007, lk. 7. Autor leiab, et põhiseaduslik nõue, mille järgi on kõik Eesti kodanikud kohustatud osa võtma riigikaitsest, pole vastavuses tegeliku olukorraga, ning arvab, et kohustuslik ajateenistus tuleb kaotada või viia kooskõlla põhiseadusega

  6. Retarderi na teškim vozilima

    Directory of Open Access Journals (Sweden)

    Joško Rapanić

    2012-10-01

    Full Text Available The objective of all the braking systems fitted in vehicles isto reduce the speed, as well as to keep them at a standstill. Inorder to increase the active road traffic safety, the experts inthe leading vehicle manufacturer companies are trying from day to day to find a more efficient solution of the highest possiblequality. Braking problems, i.e. problems of stopping the vehiclesare closely related to time, forces, momentum, mass andother physical quantities. This is best seen in the braking ofheavy duty vehicles, trucks, buses, where the braking efficacyis questionable due to high inertia forces caused by heavyweight and more recently relatively high speeds. Such vehiclesare fitted with system of brakes that operate on compressed airor combination of pneumatics and hydraulics, since the driverhas not got enough power to achieve appropriate braking effect.However, the biggest problems occur by trucks runningdownhill, when the braking system is operated continuously fora longer period of time. This causes heating and overheating ofthe system elements ("fading", thus reducing the braking effect.In extreme cases, particularly if the system is poorly maintained,it can eventually fail completely.Because of the mentioned reasons for difficulties in brakingof trucks, such vehicles have been recently fitted with anauxiliary slow-down system. This system is completely independentfromthe main one on the wheels and is used exclusivelyfor slowing down or for maintaining of speed.

  7. MICROBIOLOGICAL STUDY OF CSOM AT KIMS - AMALAPURAM

    Directory of Open Access Journals (Sweden)

    Nagaraja

    2016-01-01

    Full Text Available BACKGROUND In India, Chronic Suppurative Otitis Media (CSOM is a major public-health problem with a high-prevalence rate. Several organisms have been implicated in the causation of CSOM, posing a challenge to the management. This is further complicated by the problem of emerging antibiotic-resistant bacterial strains. OBJECTIVE We undertook the present study to identify the causative organisms in CSOM and their susceptibility patterns to antibiotics in a rural teaching hospital in South India. METHODS A total number of 100 ear swabs were bacteriologically investigated for the present study. All the swabs collected from patients with clinical diagnosis of CSOM visiting the ENT outpatient department of a rural teaching hospital from December 2014 to May 2015. All these are new patients who did not have recent treatment with antibiotics either locally or systemically. Another group of 30 ear swabs were collected from healthy individuals with no history of ear discharged for control study. RESULTS Of the 100 patients, 45 were males. Out of 100 swabs cultured, 95% were culture positive and 5% were culture negative. Of the culture positive cases, 70% were aerobes, 25% were anaerobes and 5% sterile. Further, of the 99% culture positive cases, gram positive isolates were 22(31.42% and gram negative isolates were 48(68.57%. The isolated organisms were Pseudomonas aeruginosa (n=26; 37.15%, Staphylococcus aureus (n=15; 21.43%, Klebsiella pneumonia (n=12; 17.15%, Proteus spp. (n=6; 8.57%, Escherichia coli (n=4; 5.72%, Coagulase Negative Staphylococcus (n=5; 7.14%, Streptococcus pyogenes (n=1; 1%, Streptococcus pneumoniae (n=1; 1%, Bacteroides (n=13; 52%, peptostreptococcus (n=11; 44% and Fusobacterium (n=1; 4%. When antibiotic susceptibility was assessed, organisms were most susceptible to amikacin, followed by g the Antibiotics tested for sensitivity of the Isolates Amikacin stands first followed by Gentamicin and Ciprofloxacin. CONCLUSION CSOM is a serious condition, which is the most common cause of hearing loss, especially in the developing world. In our study, Pseudomonas aeruginosa was the most common causative organism, and amikacin seemed to be the most effective antibiotic with low resistance rates.

  8. Skeletons in the closet : future avenues for the curation of archaeological human skeletal remains in the Dutch Caribbean and the rest of the region

    NARCIS (Netherlands)

    Mickleburgh, H.L.; Hofman, C.L.; Haviser, J.B.

    2015-01-01

    Human skeletal remains from archaeological contexts in the Dutch Caribbean and the rest of the region are curated in a variety of facilities such as museums and the premises of heritage organizations, history and archaeology interest groups or in some cases private collections. These curating

  9. Private portraits or suffering on stage: curating clinical photographic collections in the museum context

    Directory of Open Access Journals (Sweden)

    Dr Mieneke te Hennepe

    2016-03-01

    Full Text Available Medical photography collections often remind us of the inescapable reality of human suffering and pain, and at the same time they oblige us to deal with questions of ownership and privacy. Medical photography collections are thus considered ‘sensitive’ collections within the museum context. This essay investigates privacy issues involved in the curating of historical photographic collections in museum spaces. When medical photography entered into non-medical domains privacy issues emerged. It is these privacy issues that cast a shadow of sensitivity on the medical material. But the relationship between clinical photograph collections and museums is not as straightforward as it may seem. Personal pictures involve power and privacy, and both aspects play a role in the public display of historical medical photographs, often in unexpected ways.

  10. eBird: Curating Citizen Science Data for Use by Diverse Communities

    Directory of Open Access Journals (Sweden)

    Carl Lagoze

    2014-07-01

    Full Text Available In this paper we describe eBird, a highly successful citizen science project. With over 150,000 participants worldwide and an accumulation of over 140,000,000 bird observations globally in the last decade, eBird has evolved into a major tool for scientific investigations in diverse fields such as ornithology, computer science, statistics, ecology and climate change. eBird’s impact in scientific research is grounded in careful data curation practices that pay attention to all stages of the data lifecycle, and attend to the needs of stakeholders engaged in that data lifecycle. We describe the important aspects of eBird, paying particular attention to the mechanisms to improve data quality; describe the data products that are available to the global community; investigate some aspects of the downloading community; and demonstrate significant results that derive from the use of openly-available eBird data.

  11. Hypnosis and music interventions (HMIs) inactivate HIF-1: A potential curative efficacy for cancers and hypertension.

    Science.gov (United States)

    Wang, Jing-Zhang; Li, Ling; Pan, Li-Lan; Chen, Jian-Hua

    2015-11-01

    Hypnosis and music interventions (HMIs) have shown positive influence on cancers for nearly 200years, but the underlying mechanisms were rarely explored systematically. The hypothesis suggests a potential curative efficacy of HMIs on cancers by inhibiting hypoxia inducible factor-1 (HIF-1), which is a key mediator of cancer development, especially under hypoxic conditions. HMIs are sufficient to attenuate the pain and anxiety degree of individuals, improve multiple psychological and physiological parameters, and consequently, lead to increased oxygen saturation in vivo. Furthermore, abundant oxygen in vivo inhibits the activation of HIF-1 and potentially blockades kinds of HIF-1-induced oncogenic signaling pathways. The hypothesized efficacy of HMIs is very similar to anti-cancer medicines targeting HIF-1. The implication of the hypothesis in preventing hypertension is also discussed. In summary, the hypothesis clearly suggests the potential involvement of the convenient, safe, non-pharmaceutical, and low-cost HMIs in preventing HIF-1-mediated diseases, including cancers and hypertension.

  12. Digital curation of research data experiences of a baseline study in Germany

    CERN Document Server

    Strathmann, Stefan; Oßwald, Achim; Ludwig, Jens

    2013-01-01

    The relevance of research data today and for the future is well documented and discussed, in Germany as well as internationally. Ensuring that research data are accessible, sharable, and re-usable over time is increasingly becoming an essential task for researchers and research infrastructure institutions. Some reasons for this development include the following: - research data are documented and could therefore be validated - research data could be the basis for new research questions - research data could be re-analyzed by using innovative digital methods - research data could be used by other disciplines Therefore, it is essential that research data are curated, which means they are kept accessible and interpretable over time. In Germany, a baseline study was undertaken analyzing the situation in eleven research disciplines in 2012. The results were then published in a German-language edition. To address an international audience, the German-language edition of the study has been translated and abridged. T...

  13. CT findings of locoregional recurrence after curative resection of colorectal cancer

    Energy Technology Data Exchange (ETDEWEB)

    Shin, Sang Soo [Chonnam National University Hospital, Gwangju (Korea, Republic of); Jeong, Yong Yeon; Kang, Heoung Keun [Chonnam National University Hwasun Hospital, Hwasun (Korea, Republic of)

    2006-10-15

    Postoperative recurrence is a major cause of mortality and morbidity for the patients suffering with colorectal cancer. Therefore, patients with colorectal cancer are routinely followed up with CT to detect the presence of locoregional recurrence and distant metastases. A central goal of postoperative surveillance for colorectal cancer is to improve survival through the earlier identification of tumor recurrence. Locoregional recurrence refers to tumor occurring at or adjacent to the surgical site and at the regional lymph nodes. It has been reported that metastatic spread based on the site of the primary tumor shows a relatively predictable pattern. Given the prevalence of colorectal cancer and the role of CT for postoperative surveillance, radiologists should be familiar with the CT findings of locoregional recurrence after curative resection for colorectal cancer.

  14. [Analysis of the medical and psychosocial evaluations required by the new public curator law].

    Science.gov (United States)

    Nélisse, C; Uribé, I

    1992-01-01

    The new Public Curator Act systematically requires medical and psychosocial evaluations. In confronting the letter and the spirit of the law to its regulations and operating procedures (and inversely), this article outlines the various tasks that will fall under the responsibility of health and social service professionals. Following a brief presentation of the law, the authors describe how the role of these professionals is limited to evaluations for the purpose of conducting expert appraisements, a matter which raises a great deal of concern. In addition, the two key notions of "inaptitude" and "need" are discussed in their legal sense, along with their consequences from the medical evaluation and psychosocial standpoints. The latter in particular will be analyzed regarding implementation difficulties. The authors conclude with a general commentary that is likely to give meaning to that simple and sometimes routine gesture consisting of "completing a form".

  15. An Overview of Data Curation Research Abroad%国外Data Curation研究综述

    Institute of Scientific and Technical Information of China (English)

    王晴

    2014-01-01

    e-Science环境下科学数据的有效管理和开发利用至关重要,Data Curation(DC)是一项持续性的动态管理活动,具有重要的短期效益和长期价值,DC引起了国外学界的普遍关注.大学社区和科研机构就此展开了一系列卓有成效的实践探索,图书情报学院相继开设了具有针对性的教育培训课程以塑造未来的DC专业人才,DC实施主体针对发展现状提出了改进方案或战略规划以支持DC的可持续发展.

  16. Review of Data Curation Research in China%国内Data Curation研究综述

    Institute of Scientific and Technical Information of China (English)

    王晴

    2014-01-01

    Data Curation (DC)是图书情报学新兴的前沿领域,国内学者对DC概念的认知也略有差异,需要对其中文译法重新界定.DC活动表现出多样化的基本特征和价值意义,高校图书馆在DC服务中发挥着重要作用,并以多种形态开展DC服务,应以DC研究为契机,抓住发展机遇,在协同互动的理念指导下实现DC服务的本土化.

  17. First year university student engagement using digital curation and career goal setting

    Directory of Open Access Journals (Sweden)

    Amy Antonio

    2015-10-01

    Full Text Available The engagement of students is one of the most pressing issues facing higher education in the 21st century. Around the world, participation rates in tertiary education are on the rise and one of the key challenges facing educators is finding ways to engage these students. We present the results of a project that assesses the impact of an engagement strategy in which a cohort of students entering their first year of university (1 establish and maintain a clear goal of their ideal future career and (2 make use of a web-based digital curation tool to research and present their findings. The results demonstrate the effectiveness of the strategy, which could arguably be applied to a broad range of disciplines given that the majority of students today are technologically literate.

  18. Curating Scientific Research Data for the Long Term: A Preservation Analysis Method in Context

    Directory of Open Access Journals (Sweden)

    Esther Conway

    2011-10-01

    Full Text Available The challenge of digital preservation of scientific data lies in the need to preserve not only the dataset itself but also the ability it has to deliver knowledge to a future user community. A true scientific research asset allows future users to reanalyze the data within new contexts. Thus, in order to carry out meaningful preservation we need to ensure that future users are equipped with the necessary information to re-use the data. This paper presents an overview of a preservation analysis methodology which was developed in response to that need on the CASPAR and Digital Curation Centre SCARP projects. We intend to place it in relation to other digital preservation practices, discussing how they can interact to provide archives caring for scientific data sets with the full arsenal of tools and techniques necessary to rise to this challenge.

  19. UTILIZATION OF PANCHAKARMA IN HEALTH CARE: PREVENTIVE, NUTRITIVE AND CURATIVE TREATMENT OF DISEASE

    Directory of Open Access Journals (Sweden)

    Kajaria Divya

    2013-10-01

    Full Text Available The importance of Ayurveda in global scenario is because of its holistic approach towards positive life style. Ayurveda is a science of life, which is continuously developing as a result of various discussions and researches from ancient time onwards. It gives equal importance to preventive and curative aspects of diseases. Panchakarma therapy is an integral part of Ayurveda (Indian Medical System. Panchakarma is a term used to symbolize five medical procedures for internal purification of body. It helps in detoxifying and rejuvenating body by simple techniques that can be done easily applied in outdoor practice. Failure of contemporary medicines in the prevention of major health burdens force us to revert back for the original detoxifying naturopathy. Panchakarma is an effective therapy in managing autoimmune, neurological, psychiatric and musculo-skeletal diseases of chronic and metabolic origin. In the current scenario, these unique procedures are widely practiced by physicians in India and many other countries globally for prophylactic and therapeutic purposes.

  20. Curative Effect of Electro-acupuncture and Tuina on Prostatic Hypertrophy

    Institute of Scientific and Technical Information of China (English)

    LIU Gui-zhen; HUANG Yong; WANG Ai-min; SHE Zhi-qing; YAO Ren-min; SHEN wei-na

    2003-01-01

    Objective To observe the curative effect of electro-acupuncture plus Tuina on prostatic hypertrophy.Method Fifty-six cases of prostatic hypertrophy were treated according to the principle of taking the kidney as the main aspect. Points Guanyuan (CV 4), Qugu ( CV2), Shenshu(BL 23), Ciliao(BL32) and Sanyinjiao( SP6) were selected and electro-acupuncture were used together with Tuina. Those who took the tablet Finasteride orally were treated as the control group. Result The total effective rate was 94.6% in treating group, while that was 86.7% in the control group, P>0.05. Conclusion It is suggested that electro-acupuncture plus Tuina has a certain effect on prostatic hypertrophy. Compared with western medicine, it is lower in price and has no side effect.

  1. The Global Registry of Biodiversity Repositories: A Call for Community Curation

    Science.gov (United States)

    Miller, Scott E.; Trizna, Michael G.; Graham, Eileen; Crane, Adele E.

    2016-01-01

    Abstract The Global Registry of Biodiversity Repositories is an online metadata resource for biodiversity collections, the institutions that contain them, and associated staff members. The registry provides contact and address information, characteristics of the institutions and collections using controlled vocabularies and free-text descripitons, links to related websites, unique identifiers for each institution and collection record, text fields for loan and use policies, and a variety of other descriptors. Each institution record includes an institutionCode that must be unique, and each collection record must have a collectionCode that is unique within that institution. The registry is populated with records imported from the largest similar registries and more can be harmonized and added. Doing so will require community input and curation and would produce a truly comprehensive and unifying information resource. PMID:27660523

  2. Curative effect of photodynamic therapy of pulse laser on cancer detected by computer

    Science.gov (United States)

    Sun, Xiuzhen

    1993-03-01

    The computer diagnosis apparatus for human diseases is used to detect the curative effect of photodynamic therapy (PDT). It directly takes the electric signals from auricular acupuncture points of patients turns the signals into data and displays the data on the screen. Comparing the data with the critical point, it gives out the diagnosis of the condition of the disease. If the signals are detected many times in the period of the photodynamic therapy, the change of the condition and the effect will be perceived. This provides scientific data for doctors' clinical diagnoses. The apparatus, combining computer and laser technology with Chinese traditional auricular diagnosis, has many advantages: quickness, preciseness, no injury, no pain, and no side effect. It can also store and print out cases. It's an ideal detector in the field of auricular acupuncture point diagnosis.

  3. Culto: AN Ontology-Based Annotation Tool for Data Curation in Cultural Heritage

    Science.gov (United States)

    Garozzo, R.; Murabito, F.; Santagati, C.; Pino, C.; Spampinato, C.

    2017-08-01

    This paper proposes CulTO, a software tool relying on a computational ontology for Cultural Heritage domain modelling, with a specific focus on religious historical buildings, for supporting cultural heritage experts in their investigations. It is specifically thought to support annotation, automatic indexing, classification and curation of photographic data and text documents of historical buildings. CULTO also serves as a useful tool for Historical Building Information Modeling (H-BIM) by enabling semantic 3D data modeling and further enrichment with non-geometrical information of historical buildings through the inclusion of new concepts about historical documents, images, decay or deformation evidence as well as decorative elements into BIM platforms. CulTO is the result of a joint research effort between the Laboratory of Surveying and Architectural Photogrammetry "Luigi Andreozzi" and the PeRCeiVe Lab (Pattern Recognition and Computer Vision Lab) of the University of Catania,

  4. OBSERVATION OF CLINICAL CURATIVE EFFECT OF CEREBRAL FUNCTIONAL HEALTH INSTRUMENT FOR TREATING INSOMNIA JINZHOU KANGNING HOSPITAL

    Institute of Scientific and Technical Information of China (English)

    Shi Jinzhong

    2000-01-01

    Purpose 1t is researening to curative effect for treating the msomnia by non-medicine therapy Methods: The cases of 99 patments in acecrdance with the diagnosis standard CCMD-Ⅱ- R are applied with model BW-308 cerebral functional health instrment to be taken once every day , 15 minutes every time . A course of treatment has 15 tunes. Results The effective rate is 75 7 percent After treating the average grade of oneself meter of the sleep-disorder is distinet fall The average grade it=16 6. P<0.01) of SAS and SDS meter is distinet fall (The value t respectively is 6.4 and 7.8, p<0.01) is also distict difierent Conclusion The cerebral functional health instrument is really a efectivc supplementary instrument for treating the insomma It is specific worth to research to be used for treaung the neuropathy

  5. Outcomes after curative or palliative surgery for locoregional recurrent breast cancer

    DEFF Research Database (Denmark)

    Juhl, Alexander Andersen; Mele, Marco; Damsgaard, Tine Engberg

    2014-01-01

    Background Locoregional recurrence (LRR) after breast cancer is an independent predictor for later systemic disease and poor long-term outcome. As the surgical treatment is complex and often leaves the patient with extensive defects, reconstructive procedures involving flaps, and thus plastic...... surgical assistance, are often required. The aim of the present study was to evaluate our institution’s approach to surgical treatment for locoregional recurrence of a breast cancer. Methods In the present retrospective, single-centre study, we evaluate our experience with 12 patients who underwent surgery...... occurred in four (33 %) of the patients. Median overall survival was 22 months, regardless of the surgery being curative or palliative. A median disease-free survival of 18 months was achieved for patients having achieved radicality. Conclusions Both wide local excision and full thickness chest wall...

  6. Proposed follow up programme after curative resection for lower third oesophageal cancer

    Directory of Open Access Journals (Sweden)

    Moyes LH

    2010-09-01

    Full Text Available Abstract The incidence of oesophageal adenocarcinoma has risen throughout the Western world over the last three decades. The prognosis remains poor as many patients are elderly and present with advanced disease. Those patients who are suitable for resection remain at high risk of disease recurrence. It is important that cancer patients take part in a follow up protocol to detect disease recurrence, offer psychological support, manage nutritional disorders and facilitate audit of surgical outcomes. Despite the recognition that regular postoperative follow up plays a key role in ongoing care of cancer patients, there is little consensus on the nature of the process. This paper reviews the published literature to determine the optimal timing and type of patient follow up for those after curative oesophageal resection.

  7. Aggregation Tool to Create Curated Data albums to Support Disaster Recovery and Response

    Science.gov (United States)

    Ramachandran, R.; Kulkarni, A.; Maskey, M.; Li, X.; Flynn, S.

    2014-12-01

    Economic losses due to natural hazards are estimated to be around 6-10 billion dollars annually for the U.S. and this number keeps increasing every year. This increase has been attributed to population growth and migration to more hazard prone locations. As this trend continues, in concert with shifts in weather patterns caused by climate change, it is anticipated that losses associated with natural disasters will keep growing substantially. One of challenges disaster response and recovery analysts face is to quickly find, access and utilize a vast variety of relevant geospatial data collected by different federal agencies. More often analysts may be familiar with limited, but specific datasets and are often unaware of or unfamiliar with a large quantity of other useful resources. Finding airborne or satellite data useful to a natural disaster event often requires a time consuming search through web pages and data archives. The search process for the analyst could be made much more efficient and productive if a tool could go beyond a typical search engine and provide not just links to web sites but actual links to specific data relevant to the natural disaster, parse unstructured reports for useful information nuggets, as well as gather other related reports, summaries, news stories, and images. This presentation will describe a semantic aggregation tool developed to address similar problem for Earth Science researchers. This tool provides automated curation, and creates "Data Albums" to support case studies. The generated "Data Albums" are compiled collections of information related to a specific science topic or event, containing links to relevant data files (granules) from different instruments; tools and services for visualization and analysis; information about the event contained in news reports, and images or videos to supplement research analysis. An ontology-based relevancy-ranking algorithm drives the curation of relevant data sets for a given event. This

  8. Noninvasive and Curative Radiation Therapy for Sebaceous Carcinoma of the Eyelid

    Energy Technology Data Exchange (ETDEWEB)

    Hata, Masaharu, E-mail: mhata@syd.odn.ne.jp [Department of Radiology, Yokohama City University Graduate School of Medicine, Yokohama, Kanagawa (Japan); Koike, Izumi; Omura, Motoko [Department of Radiology, Yokohama City University Graduate School of Medicine, Yokohama, Kanagawa (Japan); Maegawa, Jiro [Department of Plastic and Reconstructive Surgery, Yokohama City University Graduate School of Medicine, Yokohama, Kanagawa (Japan); Ogino, Ichiro [Department of Radiation Oncology, Yokohama City University Medical Center, Yokohama, Kanagawa (Japan); Inoue, Tomio [Department of Radiology, Yokohama City University Graduate School of Medicine, Yokohama, Kanagawa (Japan)

    2012-02-01

    Purpose: Sebaceous carcinoma of the eyelid is a rare malignancy. Surgical excision remains the standard and most reliable curative treatment. However, surgery is sometimes not possible because many patients are elderly, and it frequently causes functional and cosmetic impairment of the eyelid. We therefore carried out a study to determine the role of radiation therapy in relation to sebaceous carcinoma of the eyelid. Methods and Materials: Thirteen patients with sebaceous carcinoma of the eyelid underwent radiation therapy with curative intent. There were 6 men and 7 women, and their ages at irradiation ranged from 60 to 85 years (median, 78 years). Only 1 patient had cervical lymph node metastasis, and none of the patients had distant metastasis. A total dose of 50 to 66.6 Gy (median, 60 Gy) was delivered to tumor sites in 22 to 37 fractions. Results: All irradiated tumors were controlled at a median follow-up period of 55 months. Only 1 patient had recurrence of cervical lymph node metastasis outside the radiation field, at 22 months after irradiation. The 5-year local progression-free and disease-free rates were 100% and 89%, respectively. The overall and disease-free survival rates at 5 years were 100% and 89%, respectively. Although acute and transient therapy-related reactions of Grade 2 or less were observed, there were no severe toxicities of Grade 3 or greater. Conclusions: Radiation therapy is a safe and effective treatment for patients with sebaceous carcinoma of the eyelid. It appears to contribute to prolonged survival as a result of good tumor control, and it also facilitates functional and cosmetic preservation of the eyelid.

  9. Curative effect and mechanism of radiofrequency ablation nucleoplasty in the treatment of cervical vertigo.

    Science.gov (United States)

    Yin, Hai-Dong; Zhang, Xin-Mei; Huang, Ming-Guang; Chen, Wei; Song, Yang; Du, Qing-Jun; Wu, Yu-Ning; Yang, Ruo-Bin

    2017-04-01

    This study aims to investigate the curative effects and mechanism of radiofrequency ablation nucleoplasty in the treatment of cervical vertigo. A total of 27 patients diagnosed with cervical vertigo from January 2012 to October 2014 received treatment of radiofrequency ablation nucleoplasty. The narrow-side vertebral artery diameters were examined by using Philips 1.5-T body dual-gradient MRI system. The haemodynamic parameters were detected by using transcranial Doppler sonography. Both of the vertebral artery diameters and haemodynamic parameters were recorded and compared before and after treatment. The curative effects in early post-operative application were evaluated according to the Nagashima standards. Radiofrequency ablation nucleoplasty was performed in a total of 59 cervical discs in 27 patients. The average operation time was 42.7 min, and the symptoms of 92.6% patients were alleviated after radiofrequency ablation nucleoplasty post-operation application. There was no significant difference in the narrow-side vertebral artery diameters before and after treatment in both Group A (p = 0.12) and Group B (p = 0.48); however, the blood flow velocity was significantly higher than that before treatment in both Group A (p = 0.01) and Group B (p = 0.03), respectively. Radiofrequency ablation nucleoplasty improves the blood flow in the narrow-side vertebral artery and illustrates the therapeutic effect on cervical vertigo in patients who have no direct compression of the vertebral artery. Advances in knowledge: Radiofrequency intradiscal nucleoplasty can be used as a minimally invasive procedure for treating cervical vertigo.

  10. Preventative and Curative Effects of Several Plant Derived Agents Against Powdery Mildew Disease of Okra

    Directory of Open Access Journals (Sweden)

    Moustafa Hemdan Ahmed MOHARAM

    2012-08-01

    Full Text Available The preventative and curative effects of some plant derived agents based on plant extracts or essential oils were studied at different concentrations against Erysiphe cichoracearum DC. ex Merat, the causal pathogen of okra powdery mildew by the detached leaf-disk and potted plants bioassays. Through detached leaf-disk assay, the highest mean preventative effect (97.74% was recorded by neem seed oil followed by jojoba oil (89.82% and extract of Rynoutria sachalinensis (82.77%. Neem seed oil at 1% was the most effective agent followed by jojoba oil and extract of R. sachalinensis at 1.5% and 2%, respectively, where they suppressed E. cichoracearum completely. Potted plants assay revealed that neem seed oil, jojoba oil and extract of R. sachalinensis as well as the fungicide (active ingredient dinocap showed higher preventative efficacy at all leaf olds treated after 7 and 14 days of inoculation as compared with extracts of henna and garlic. Moreover, the preventative efficacy partly remained apparent after 14 days of inoculation at all leaf olds tested. In field trials through 2010 and 2011 growing seasons, when the first symptoms of powdery mildew appeared naturally, 1.5% jojoba oil, 2% extract of R. sachalinensis and 1% neem seed oil were sprayed individually twice on grown plants to evaluate their efficacy on controlling powdery mildew, growth and yield of okra. Resulted showed that neem seed oil was the most effective agent and highly decreased the disease severity to 29.92%, recorded the highly curative effect (68.15% and also improved plant growth and pods yield.

  11. Advanced Age is Not a Contraindication for Treatment With Curative Intent in Esophageal Cancer.

    Science.gov (United States)

    Voncken, Francine E M; van der Kaaij, Rosa T; Sikorska, Karolina; van Werkhoven, Erik; van Dieren, Jolanda M; Grootscholten, Cecile; Snaebjornsson, Petur; van Sandick, Johanna W; Aleman, Berthe M P

    2017-07-31

    The objective of this study is to compare long-term outcomes between younger and older (70 y and above) esophageal cancer patients treated with curative intent. Overall survival (OS), disease-free survival (DFS), and locoregional recurrence-free interval were compared between older (70 y and above) and younger (below 70 y) esophageal cancer patients treated between 1998 and 2013. Treatment consisted of neoadjuvant chemoradiotherapy with surgery or definitive chemoradiotherapy: 36 to 50.4 Gy in 18 to 28 fractions combined with 5-fluorouracil/cisplatin or carboplatin/paclitaxel. The study comprised 253 patients, of whom 76 were 70 years and older. Median age was 64 years (range, 41 to 83). Most patients had stage II-IIIA disease (83%). Planned treatment was neoadjuvant chemoradiotherapy with surgery for 169 patients (41 patients aged 70 y and older) and definitive chemoradiotherapy for 84 patients (31 patients aged 70 y and older). The compliance to radiotherapy was 92%, with no difference between older and younger patients. In 33 patients (13 patients aged 70 y and older) planned surgery was not performed. Median follow-up was 4.9 years. Three-year OS was 42%. The multivariable analysis showed no statistical difference in OS or in DFS comparing older and younger patients: OS (hazard ratio [HR], 0.88; 95% confidence interval [CI], 0.61-1.28), DFS (HR, 0.87; 95% CI, 0.60-1.25). Elderly showed a longer locoregional recurrence-free interval; HR, 0.53 (95% CI, 0.30-0.92; P=0.02) and a higher pathologic complete response rate (50% vs. 25%; P=0.02). Long-term outcomes of older esophageal cancer patients (70 y and above) selected for treatment with neoadjuvant chemoradiotherapy followed by surgery or definitive chemoradiotherapy were comparable with the outcomes of their younger counterparts. Advanced age alone should not be a contraindication for potentially curative chemoradiotherapy-based treatment in esophageal cancer patients.

  12. PHYMYCO-DB: a curated database for analyses of fungal diversity and evolution.

    Directory of Open Access Journals (Sweden)

    Stéphane Mahé

    Full Text Available BACKGROUND: In environmental sequencing studies, fungi can be identified based on nucleic acid sequences, using either highly variable sequences as species barcodes or conserved sequences containing a high-quality phylogenetic signal. For the latter, identification relies on phylogenetic analyses and the adoption of the phylogenetic species concept. Such analysis requires that the reference sequences are well identified and deposited in public-access databases. However, many entries in the public sequence databases are problematic in terms of quality and reliability and these data require screening to ensure correct phylogenetic interpretation. METHODS AND PRINCIPAL FINDINGS: To facilitate phylogenetic inferences and phylogenetic assignment, we introduce a fungal sequence database. The database PHYMYCO-DB comprises fungal sequences from GenBank that have been filtered to satisfy stringent sequence quality criteria. For the first release, two widely used molecular taxonomic markers were chosen: the nuclear SSU rRNA and EF1-α gene sequences. Following the automatic extraction and filtration, a manual curation is performed to remove problematic sequences while preserving relevant sequences useful for phylogenetic studies. As a result of curation, ~20% of the automatically filtered sequences have been removed from the database. To demonstrate how PHYMYCO-DB can be employed, we test a set of environmental Chytridiomycota sequences obtained from deep sea samples. CONCLUSION: PHYMYCO-DB offers the tools necessary to: (i extract high quality fungal sequences for each of the 5 fungal phyla, at all taxonomic levels, (ii extract already performed alignments, to act as 'reference alignments', (iii launch alignments of personal sequences along with stored data. A total of 9120 SSU rRNA and 672 EF1-α high-quality fungal sequences are now available. The PHYMYCO-DB is accessible through the URL http://phymycodb.genouest.org/.

  13. PHYMYCO-DB: A Curated Database for Analyses of Fungal Diversity and Evolution

    Science.gov (United States)

    Mahé, Stéphane; Duhamel, Marie; Le Calvez, Thomas; Guillot, Laetitia; Sarbu, Ludmila; Bretaudeau, Anthony; Collin, Olivier; Dufresne, Alexis; Kiers, E. Toby; Vandenkoornhuyse, Philippe

    2012-01-01

    Background In environmental sequencing studies, fungi can be identified based on nucleic acid sequences, using either highly variable sequences as species barcodes or conserved sequences containing a high-quality phylogenetic signal. For the latter, identification relies on phylogenetic analyses and the adoption of the phylogenetic species concept. Such analysis requires that the reference sequences are well identified and deposited in public-access databases. However, many entries in the public sequence databases are problematic in terms of quality and reliability and these data require screening to ensure correct phylogenetic interpretation. Methods and Principal Findings To facilitate phylogenetic inferences and phylogenetic assignment, we introduce a fungal sequence database. The database PHYMYCO-DB comprises fungal sequences from GenBank that have been filtered to satisfy stringent sequence quality criteria. For the first release, two widely used molecular taxonomic markers were chosen: the nuclear SSU rRNA and EF1-α gene sequences. Following the automatic extraction and filtration, a manual curation is performed to remove problematic sequences while preserving relevant sequences useful for phylogenetic studies. As a result of curation, ∼20% of the automatically filtered sequences have been removed from the database. To demonstrate how PHYMYCO-DB can be employed, we test a set of environmental Chytridiomycota sequences obtained from deep sea samples. Conclusion PHYMYCO-DB offers the tools necessary to: (i) extract high quality fungal sequences for each of the 5 fungal phyla, at all taxonomic levels, (ii) extract already performed alignments, to act as ‘reference alignments’, (iii) launch alignments of personal sequences along with stored data. A total of 9120 SSU rRNA and 672 EF1-α high-quality fungal sequences are now available. The PHYMYCO-DB is accessible through the URL http://phymycodb.genouest.org/. PMID:23028445

  14. Risk factors for immediate post-operative fatal recurrence after curative resection of hepatocellular carcinoma

    Institute of Scientific and Technical Information of China (English)

    Bong-Wan Kim; Young-Bae Kim; Hee-Jung Wang; Myung-Wook Kim

    2006-01-01

    AIM: To investigate the clinicopathological risk factors for immediate post-operative fatal recurrence of hepatocellular carcinoma (HCC), which may have practical implication and contribute to establishing high risk patients for pre- or post-operative preventive measures against HCC recurrence.METHODS: From June 1994 to May 2004, 269 patients who received curative resection for HCC were reviewed.Of these patients, those who demonstrated diffuse intrahepatic or multiple systemic recurrent lesions within 6mo after surgery were investigated (fatal recurrence group). The remaining patients were designated as the control group, and the two groups were compared for clinicopathologic risk factors.RESULTS: Among the 269 patients reviewed, 30patients were enrolled in the fatal recurrence group.Among the latter, 20 patients showed diffuse intrahepatic recurrence type and 10 showed multiple systemic recurrence type. Multivariate analysis between the fatal recurrence group and control group showed that preoperative serum alpha-fetoprotein (AFP) level was greater than 1 000 μg/L (P=0.02; odds ratio= 2.98),tumor size greater than 6.5 cm (P=0.03; OR=2.98),and presence of microvascular invasion (P= 0.01;OR=4.89) were the risk factors in the fatal recurrence group. The 48.1% of the patients who had all the three risk factors and the 22% of those who had two risk factors experienced fatal recurrence within 6 mo after surgery.CONCLUSION: Three distinct risk factors for immediate post-operative fatal recurrence of HCC after curative resection are pre-operative serum AFP level>1 000 μg/L,tumor size>6.5 cm, and microvascular invasion. The high risk patients with two or more risk factors should be the candidates for various adjuvant clinical trials.

  15. Managing biological networks by using text mining and computer-aided curation

    Science.gov (United States)

    Yu, Seok Jong; Cho, Yongseong; Lee, Min-Ho; Lim, Jongtae; Yoo, Jaesoo

    2015-11-01

    In order to understand a biological mechanism in a cell, a researcher should collect a huge number of protein interactions with experimental data from experiments and the literature. Text mining systems that extract biological interactions from papers have been used to construct biological networks for a few decades. Even though the text mining of literature is necessary to construct a biological network, few systems with a text mining tool are available for biologists who want to construct their own biological networks. We have developed a biological network construction system called BioKnowledge Viewer that can generate a biological interaction network by using a text mining tool and biological taggers. It also Boolean simulation software to provide a biological modeling system to simulate the model that is made with the text mining tool. A user can download PubMed articles and construct a biological network by using the Multi-level Knowledge Emergence Model (KMEM), MetaMap, and A Biomedical Named Entity Recognizer (ABNER) as a text mining tool. To evaluate the system, we constructed an aging-related biological network that consist 9,415 nodes (genes) by using manual curation. With network analysis, we found that several genes, including JNK, AP-1, and BCL-2, were highly related in aging biological network. We provide a semi-automatic curation environment so that users can obtain a graph database for managing text mining results that are generated in the server system and can navigate the network with BioKnowledge Viewer, which is freely available at http://bioknowledgeviewer.kisti.re.kr.

  16. Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae

    Directory of Open Access Journals (Sweden)

    Botstein David

    2006-06-01

    Full Text Available Abstract Background The study of complex biological networks and prediction of gene function has been enabled by high-throughput (HTP methods for detection of genetic and protein interactions. Sparse coverage in HTP datasets may, however, distort network properties and confound predictions. Although a vast number of well substantiated interactions are recorded in the scientific literature, these data have not yet been distilled into networks that enable system-level inference. Results We describe here a comprehensive database of genetic and protein interactions, and associated experimental evidence, for the budding yeast Saccharomyces cerevisiae, as manually curated from over 31,793 abstracts and online publications. This literature-curated (LC dataset contains 33,311 interactions, on the order of all extant HTP datasets combined. Surprisingly, HTP protein-interaction datasets currently achieve only around 14% coverage of the interactions in the literature. The LC network nevertheless shares attributes with HTP networks, including scale-free connectivity and correlations between interactions, abundance, localization, and expression. We find that essential genes or proteins are enriched for interactions with other essential genes or proteins, suggesting that the global network may be functionally unified. This interconnectivity is supported by a substantial overlap of protein and genetic interactions in the LC dataset. We show that the LC dataset considerably improves the predictive power of network-analysis approaches. The full LC dataset is available at the BioGRID (http://www.thebiogrid.org and SGD (http://www.yeastgenome.org/ databases. Conclusion Comprehensive datasets of biological interactions derived from the primary literature provide critical benchmarks for HTP methods, augment functional prediction, and reveal system-level attributes of biological networks.

  17. Improving the Discoverability and Availability of Sample Data and Imagery in NASA's Astromaterials Curation Digital Repository Using a New Common Architecture for Sample Databases

    Science.gov (United States)

    Todd, N. S.; Evans, C.

    2015-01-01

    The Astromaterials Acquisition and Curation Office at NASA's Johnson Space Center (JSC) is the designated facility for curating all of NASA's extraterrestrial samples. The suite of collections includes the lunar samples from the Apollo missions, cosmic dust particles falling into the Earth's atmosphere, meteorites collected in Antarctica, comet and interstellar dust particles from the Stardust mission, asteroid particles from the Japanese Hayabusa mission, and solar wind atoms collected during the Genesis mission. To support planetary science research on these samples, NASA's Astromaterials Curation Office hosts the Astromaterials Curation Digital Repository, which provides descriptions of the missions and collections, and critical information about each individual sample. Our office is implementing several informatics initiatives with the goal of better serving the planetary research community. One of these initiatives aims to increase the availability and discoverability of sample data and images through the use of a newly designed common architecture for Astromaterials Curation databases.

  18. Getting Early Childhood Educators Up and Running: Creating Strong Technology Curators, Facilitators, Guides, and Users. Policy Brief

    Science.gov (United States)

    Daugherty, Lindsay; Dossani, Rafiq; Johnson, Erin-Elizabeth; Wright, Cameron

    2014-01-01

    Providers of early childhood education (ECE) are well positioned to help ensure that technology is used effectively in ECE settings. Indeed, the successful integration of technology into ECE depends on providers who have the ability to curate the most appropriate devices and content, "facilitate" effective patterns of use, guide families…

  19. Pubcast and Genecast: Browsing and explor-ing publications and associated curated con-tent in biology through mobile devices.

    Science.gov (United States)

    Goldweber, Scott; Theodore, Jamal; John Torcivia-Rodriguez, John; Simonyan, Vahan; Mazumder, Raja

    2016-03-23

    Services such as Facebook, Amazon, and eBay were once solely accessed from stationary computers. These web services are now being used increasingly on mobile devices. We acknowledge this new reality by providing users a way to access publications and a curated cancer mutation database on their mobile device with daily automated updates.

  20. Preliminary evaluation of the CellFinder literature curation pipeline for gene expression in kidney cells and anatomical parts.

    Science.gov (United States)

    Neves, Mariana; Damaschun, Alexander; Mah, Nancy; Lekschas, Fritz; Seltmann, Stefanie; Stachelscheid, Harald; Fontaine, Jean-Fred; Kurtz, Andreas; Leser, Ulf

    2013-01-01

    Biomedical literature curation is the process of automatically and/or manually deriving knowledge from scientific publications and recording it into specialized databases for structured delivery to users. It is a slow, error-prone, complex, costly and, yet, highly important task. Previous experiences have proven that text mining can assist in its many phases, especially, in triage of relevant documents and extraction of named entities and biological events. Here, we present the curation pipeline of the CellFinder database, a repository of cell research, which includes data derived from literature curation and microarrays to identify cell types, cell lines, organs and so forth, and especially patterns in gene expression. The curation pipeline is based on freely available tools in all text mining steps, as well as the manual validation of extracted data. Preliminary results are presented for a data set of 2376 full texts from which >4500 gene expression events in cell or anatomical part have been extracted. Validation of half of this data resulted in a precision of ~50% of the extracted data, which indicates that we are on the right track with our pipeline for the proposed task. However, evaluation of the methods shows that there is still room for improvement in the named-entity recognition and that a larger and more robust corpus is needed to achieve a better performance for event extraction. Database URL: http://www.cellfinder.org/

  1. WikiGenomes: an open web application for community consumption and curation of gene annotation data in Wikidata.

    Science.gov (United States)

    Putman, Tim E; Lelong, Sebastien; Burgstaller-Muehlbacher, Sebastian; Waagmeester, Andra; Diesh, Colin; Dunn, Nathan; Munoz-Torres, Monica; Stupp, Gregory S; Wu, Chunlei; Su, Andrew I; Good, Benjamin M

    2017-01-01

    With the advancement of genome-sequencing technologies, new genomes are being sequenced daily. Although these sequences are deposited in publicly available data warehouses, their functional and genomic annotations (beyond genes which are predicted automatically) mostly reside in the text of primary publications. Professional curators are hard at work extracting those annotations from the literature for the most studied organisms and depositing them in structured databases. However, the resources don't exist to fund the comprehensive curation of the thousands of newly sequenced organisms in this manner. Here, we describe WikiGenomes (wikigenomes.org), a web application that facilitates the consumption and curation of genomic data by the entire scientific community. WikiGenomes is based on Wikidata, an openly editable knowledge graph with the goal of aggregating published knowledge into a free and open database. WikiGenomes empowers the individual genomic researcher to contribute their expertise to the curation effort and integrates the knowledge into Wikidata, enabling it to be accessed by anyone without restriction. www.wikigenomes.org.

  2. Correcting Inconsistencies and Errors in Bacterial Genome Metadata Using an Automated Curation Tool in Excel (AutoCurE).

    Science.gov (United States)

    Schmedes, Sarah E; King, Jonathan L; Budowle, Bruce

    2015-01-01

    Whole-genome data are invaluable for large-scale comparative genomic studies. Current sequencing technologies have made it feasible to sequence entire bacterial genomes with relative ease and time with a substantially reduced cost per nucleotide, hence cost per genome. More than 3,000 bacterial genomes have been sequenced and are available at the finished status. Publically available genomes can be readily downloaded; however, there are challenges to verify the specific supporting data contained within the download and to identify errors and inconsistencies that may be present within the organizational data content and metadata. AutoCurE, an automated tool for bacterial genome database curation in Excel, was developed to facilitate local database curation of supporting data that accompany downloaded genomes from the National Center for Biotechnology Information. AutoCurE provides an automated approach to curate local genomic databases by flagging inconsistencies or errors by comparing the downloaded supporting data to the genome reports to verify genome name, RefSeq accession numbers, the presence of archaea, BioProject/UIDs, and sequence file descriptions. Flags are generated for nine metadata fields if there are inconsistencies between the downloaded genomes and genomes reports and if erroneous or missing data are evident. AutoCurE is an easy-to-use tool for local database curation for large-scale genome data prior to downstream analyses.

  3. Getting Early Childhood Educators Up and Running: Creating Strong Technology Curators, Facilitators, Guides, and Users. Policy Brief

    Science.gov (United States)

    Daugherty, Lindsay; Dossani, Rafiq; Johnson, Erin-Elizabeth; Wright, Cameron

    2014-01-01

    Providers of early childhood education (ECE) are well positioned to help ensure that technology is used effectively in ECE settings. Indeed, the successful integration of technology into ECE depends on providers who have the ability to curate the most appropriate devices and content, "facilitate" effective patterns of use, guide families…

  4. Semi-automated curation of metabolic models via flux balance analysis: a case study with Mycoplasma gallisepticum.

    Directory of Open Access Journals (Sweden)

    Eddy J Bautista

    Full Text Available Primarily used for metabolic engineering and synthetic biology, genome-scale metabolic modeling shows tremendous potential as a tool for fundamental research and curation of metabolism. Through a novel integration of flux balance analysis and genetic algorithms, a strategy to curate metabolic networks and facilitate identification of metabolic pathways that may not be directly inferable solely from genome annotation was developed. Specifically, metabolites involved in unknown reactions can be determined, and potentially erroneous pathways can be identified. The procedure developed allows for new fundamental insight into metabolism, as well as acting as a semi-automated curation methodology for genome-scale metabolic modeling. To validate the methodology, a genome-scale metabolic model for the bacterium Mycoplasma gallisepticum was created. Several reactions not predicted by the genome annotation were postulated and validated via the literature. The model predicted an average growth rate of 0.358±0.12[Formula: see text], closely matching the experimentally determined growth rate of M. gallisepticum of 0.244±0.03[Formula: see text]. This work presents a powerful algorithm for facilitating the identification and curation of previously known and new metabolic pathways, as well as presenting the first genome-scale reconstruction of M. gallisepticum.

  5. Burden of spousal caregivers of stage II and III esophageal cancer survivors 3 years after treatment with curative intent

    NARCIS (Netherlands)

    Haj Mohammad, N; Walter, A W; van Oijen, M G H; Hulshof, M C C M; Bergman, J J G H M; Anderegg, M C J; van Berge Henegouwen, M I; Henselmans, I; Sprangers, M A G; van Laarhoven, H W M

    2015-01-01

    OBJECTIVES: The aim of this study is to examine caregiver burden of spousal caregivers of patients with esophageal cancer after curative treatment with neoadjuvant chemoradiation followed by resection and to assess factors associated with caregiver burden. METHODS: In this exploratory, cross-section

  6. The KnownLeaf literature curation system captures knowledge about Arabidopsis leaf growth and development and facilitates integrated data mining

    NARCIS (Netherlands)

    Szakonyi, D.; Landeghem, van S.; Baerenfaller, K.; Baeyens, L.; Blomme, J.; Casanova-Saéz, R.; Bodt, De S.; Esteve-Bruna, D.; Fiorani, F.; Gonzalez, N.; Grønlund, J.; Immink, R.G.H.; Jover-Gil, S.; Kuwabara, A.; Muñoz-Nortes, T.; Dijk, van A.D.J.; Wilson-Sánchez, D.; Buchanan-Wollaston, V.; Angenent, G.C.; Peer, Van de Y.; Inzé, D.; Micol, J.L.; Gruissem, W.; Walsh, S.; Hilson, P.

    2015-01-01

    The information that connects genotypes and phenotypes is essentially embedded in research articles written in natural language. To facilitate access to this knowledge, we constructed a framework for the curation of the scientific literature studying the molecular mechanisms that control leaf growth

  7. High dose rate endobronchial brachytherapy: a curative treatment; La curietherapie endobronchique de haut debit de dose: un traitement curatif

    Energy Technology Data Exchange (ETDEWEB)

    Peiffert, D.; Spaeth, D.; Winnefeld, J. [Centre Alexis-Vautrin, 54 - Vandoeuvre-les-Nancy (France); Menard, O. [Centre Hospitalier Universitaire Nancy-Brabois, 54 - Vandoeuvre-les-Nancy (France)

    2000-06-01

    New endobronchial techniques of treatment allow a good unblocking. Nevertheless, only high dose rate brachytherapy delivers a curative treatment for invasive carcinomas. This study analyses the results of the first 33 consecutive patients treated with curative intent by this technique from 1994 to 1997, and followed-up more than one year. Thirty-seven lesions were treated, with usual schedule delivering 30 Gy at 1 cm depth in six fractions and three to five weeks. All the patients were meticulously selected on the local involvement of the tumour and absolute contraindications to a surgical treatment. All of them have a pulmonary disease history or a general contraindication. With a 14-month follow-up, the local control at two months after the treatment was 95 % (endoscopic and histologic), and 90 % of the patients presented a prolonged local control. Four patients died of the treated cancer, another of a controlateral cancer. Ten patients died of another disease, five of them from a respiratory insufficiency. The overall survival rate at two years was 53 % and the specific survival rate 80 %. The acute tolerance was good, without incident. Asymptomatic bronchial stenoses, described by endoscopic follow-up, were described for seven patients. We conclude that, on the basis of a good selection of the patients, and a respect of the indications, high dose rate endobronchial brachytherapy is an effective curative treatment. It offers a new curative option and must be proposed for the small invasive carcinomas in non-operable patients. (author)

  8. Surveying the maize community for their diversity and pedigree visualization needs to prioritize tool development and curation

    Science.gov (United States)

    The Maize Genetics and Genomics Database (MaizeGDB) team prepared a survey to identify breeders’ needs for visualizing pedigrees, diversity data, and haplotypes in order to prioritize tool development and curation efforts at MaizeGDB. The survey was distributed to the maize research community on beh...

  9. Effects of BmKIM on sodium current of isolated cardiomyocytes, transmembrane action potential and aconitine induced arrhythmia in vivo in rabbits%东亚钳蝎毒素多肽对家兔心室肌细胞钠电流和在体动作电位的影响以及抗心律失常作用研究

    Institute of Scientific and Technical Information of China (English)

    王腾; 黄从新; 江洪; 唐其柱; 杨波; 李庚山

    2009-01-01

    目的 探讨基因表达得到重组的东亚钳蝎毒素多肽(BmKXM)对家兔单个心室肌细胞钠电流(INa)和在体动作电位的影响,以及对抗乌头碱诱发的心律失常电活动的作用.方法 用酶解法分离家兔心室肌细胞,全细胞膜片钳技术记录所需INa.采用浮置式玻璃微电极记录在体心肌细胞跨膜动作电位,并监测体表心电图.结果 (1)BmKIM 能明显抑制心肌细胞INa,使INa的电流-电压(I-V)曲线显著上移,但I-V曲线的形态没有发生改变.BmKIM使失活曲线显著左移,50%的INa失活电压分别由用药前的(-70.8±2.6)mV变为(-84.84±3.5)mV(P<0.05).在BmKIM作用下,心肌细胞INa失活后恢复时间明显延长,用药前快、慢恢复时间常数(Tf和Ts)分别是(28.9±6.1)ms和(107±21.6)me,给予BmKIM后,τf和τs分别是(54.2±7.9)ms(P<0.05)和(211.1±34.6)ms(P<0.01).(2)BmKIM 能明显改变记录在体心肌细胞跨膜动作电位时程(APD)和幅度(APA)以及最大上升速率(Vmax),使APD50和APD90都明显缩短,APA和Vmax显著减小.心电图上表现为QT间期缩短,心率明显加快.(3)乌头碱能明显触发后除极,诱发室件心动过速(室速),动作电位上表现为早期后除极和(或)延迟后除极.相对心电图上表现为插入性室性早搏或尖端扭转型室速(发生率为77.8%).BmKIM能明显降低乌头碱诱发的心律失常发生率(22.2%,P<0.01),更不能触发室速.结论 BmKIM对兔的心室肌细胞,INa有明显的抑制作用,这种抑制作用是通过与失活态的钠通道结合而发挥生理学效应,BmKIM 可抑制形成动作电位的钠离子内流,对抗乌头碱所致的心律失常发生,为开发具有选择性直接针对钠通道的阻滞剂BmKIM的应用前景打下基础.%Objective To investigate the effects of recombinant BmKIM (poly-peptide derived from Asian Scorpion Buthus martensi Karsch) on the sodium current (INa) of isolated ventricular myocytes,transmembrane action potential and aconitine induced

  10. 丁宁对阵韩国削球选手金景娥的技战术效果研究%Study on Technical and Tactical Effect of DING Ning While Fighting with KIM Kyungah

    Institute of Scientific and Technical Information of China (English)

    郭德兵

    2012-01-01

    运用文献资料法、数理统计法、专家访谈法、录像观察法、乒乓球技战术三段指标评估等方法,对我国优秀乒乓球运动员丁宁对阵韩国削球选手金景娥的比赛录像视频进行了技战术效果的统计分析。结果显示:丁宁在发球抢和接发球抢攻段中技战术运用效果欠佳,主要表现在三、五板和二、四板球的衔接不够流畅;在相持段中整体的技战术运用的较为灵活、多样,并取得了良好的效果,但在处理对搓的过渡球及多回合的相持球上耐心和信心都有待提高。%By using the method of literature review, mathematical statistics, expert interview, video observation and the table tennis three sections of index evaluation, this paper studies the Chinese excellent table tennis player DING Ning's technical and tactical effect of chopping technique when against Kim Kyungah. The result shows that DING Ning' s spiral, placement and the treatment of neutral ball in serves snatches and receive -attack seg- ment are unconscionable. The changes of DING Ning' s loops ( spin speed ) in rally part gain control over the game and the effect is good. However, the psychological compressive capacity needs to be improved.

  11. Urinary tubular protein-based biomarkers in the rodent model of cisplatin nephrotoxicity: a comparative analysis of serum creatinine, renal histology, and urinary KIM-1, NGAL, and NAG in the initiation, maintenance, and recovery phases of acute kidney injury.

    Science.gov (United States)

    Sinha, Vikash; Vence, Luis M; Salahudeen, Abdulla K

    2013-03-01

    Several biomarkers are becoming available for the early detection of acute kidney injury (AKI), but few have been directly compared. To compare urinary kidney injury molecule-1 (KIM-1), neutrophil gelatinase-associated lipocalin (NGAL), and N-acetyl glucosaminidase (NAG) against serum creatinine and renal histological score in the initiation, maintenance, and recovery phases of cisplatin (CP)-induced AKI. Sprague-Dawley rats (300-350 g) were injected once through their tail veins with CP (CP group) at 5.5 mg/kg or with same volume of normal saline vehicle (Control group). Rats were euthanized at 2, 4, 6, 12, and 24 hours, and on days 2, 3, 6, and 10 (n = 12 in the CP group and n = 6 in the Control group at each time point), and urine, blood, and kidney samples were analyzed. A significant increase in serum creatinine was noted by day 3 in the CP group versus Control group [1.46 (0.12) vs 0.28 (0.03) mg/dL; mean (SE); P CP group. Urinary kidney injury molecule-1 levels were significantly higher at 24 hours in the CP group than in the Control group [48.26 (13.13) vs 8.21 (3.31) pg/mg creatinine; P CP than in the Control group [NAG, 8.19 (0.82) vs 3.48 (0.40) pg/mg creatinine, P G 0.05; NGAL, 2911.80 (368.10) vs 1412.60 (250.20) pg/mg creatinine, P CP to discern the time course and pattern of expression.

  12. Hypopharyngeal squamous cell carcinoma: retrospective study of 149 treatments in curative aimed; Carcinome epidermoide de l'hypopharynx: etude retrospective de 149 traitements a visee curative

    Energy Technology Data Exchange (ETDEWEB)

    Oueslati, Z.; Zeglaoui, I.; Touati, S.; Gritli, S.; Ladgham, A. [Institut Salah-Azaiz, Service de Chirurgie Carcinologique et ORL, Tunis (Tunisia); Nasr, C.; Benna, F. [Institut Salah-Azaiz, Service de Radiotherapie, Tunis (Tunisia); Boussen, H. [Institut Salah-Azaiz, Service de Chimiotherapie, Tunis (Tunisia); Mokni, N.; Gamoudi, A.; El-May, A. [Institut Salah-Azaiz, Service de d' Immunohistochimie, Tunis (Tunisia)

    2004-12-01

    Purpose. - Hypopharyngeal squamous cell carcinoma is associated to one of the most unfavorable prognosis among the cancers of the head and neck. The purpose of this study is to analyze its therapeutic modalities in the Salah-Azaiz Institute (Tunis) and to compare their results. Patients and method. - This retrospective study concerns 271 hypopharyngeal squamous cell carcinomas, compiled in the Carcinologic Surgery Department of Head and Neck of the Salah-Azaiz Institute over a period of 25 years (from 1977 to 2002). The average age of the patients was of 56 years; sex-ratio was on average of 1.2 (man/woman). The indication of a curative treatment was initially retained for 149 (55%) patients, who were the only ones retained for the analysis of results. Results. - We retained the indication of a protocol including surgery and post-operating radiotherapy for 26.2% of the patients. Post-operation mortality rate was 5.1%; the operating rate of morbidity was 46.2%. For 13.5% of the patients, post-operating radiotherapy was permanently interrupted because of a gradual deterioration of the patients' health in the course of treatment. We retained the indication of exclusive radiotherapy for 59.7% of the patients. The average age was of 56 years and the sex-ratio of 1.2. The external radiotherapy was conventional. Radiotherapy had to be permanently interrupted in progress in 32.6% of cases on account of an deterioration of the patients' health; the rate of morbidity of the radiotherapy was 33.3%. We indicated a protocol of conservation of organ with induction chemotherapy for 21 patients (14.1%). The average age was of 53 years (28-65 years) and sex-ratio (man/woman) of 0.5. The global survival was 25.5% at one year, 18.1% at two years, 11.4% at three years and 7.4% at five years. All the patients selected for chemotherapy died in the course of treatment. The rates of survival in two and five years according to protocols surgery-radiotherapy and exclusive

  13. A systematic review of randomized controlled trials on curative and health enhancement effects of forest therapy

    Directory of Open Access Journals (Sweden)

    Kamioka H

    2012-07-01

    Full Text Available Hiroharu Kamioka,1 Kiichiro Tsutani,2 Yoshiteru Mutoh,3 Takuya Honda,4 Nobuyoshi Shiozawa,5 Shinpei Okada,6 Sang-Jun Park,6 Jun Kitayuguchi,7 Masamitsu Kamada,8 Hiroyasu Okuizumi,9 Shuichi Handa91Faculty of Regional Environment Science, Tokyo University of Agriculture, Tokyo, 2Department of Drug Policy and Management, Graduate School of Pharmaceutical Sciences, The University of Tokyo, Tokyo, 3Todai Policy Alternatives Research Institute, The University of Tokyo, Tokyo, 4Japanese Society for the Promotion of Science, Tokyo, 5Food Labeling Division, Consumer Affairs Agency, Cabinet Office, Government of Japan, Tokyo, 6Physical Education and Medicine Research Foundation, Nagano, 7Physical Education and Medicine Research Center Unnan, Shimane, 8Department of Environmental and Preventive Medicine, Shimane University School of Medicine, Shimane, 9Mimaki Onsen (Spa Clinic, Tomi City, Nagano, JapanObjective: To summarize the evidence for curative and health enhancement effects through forest therapy and to assess the quality of studies based on a review of randomized controlled trials (RCTs.Study design: A systematic review based on RCTs.Methods: Studies were eligible if they were RCTs. Studies included one treatment group in which forest therapy was applied. The following databases – from 1990 to November 9, 2010 – were searched: MEDLINE via PubMed, CINAHL, Web of Science, and Ichushi-Web. All Cochrane databases and Campbell Systematic Reviews were also searched up to November 9, 2010.Results: Two trials met all inclusion criteria. No specific diseases were evaluated, and both studies reported significant effectiveness in one or more outcomes for health enhancement. However, the results of evaluations with the CONSORT (Consolidated Standards of Reporting Trials 2010 and CLEAR NPT (A Checklist to Evaluate a Report of a Nonpharmacological Trial checklists generally showed a remarkable lack of description in the studies. Furthermore, there was a

  14. Collection, Curation, Citation at Source: Publication@Source 10 Years On

    Directory of Open Access Journals (Sweden)

    Jeremy Frey

    2015-06-01

    Full Text Available The Southampton chemical information group had its genesis in 2001, when we began an e-Science pilot project to investigate structure-property mapping, combinatorial chemistry, and the Grid. CombeChem instigated a range of activities that have since been underway for more than ten years, in many ways matching the expansion of interest in using the Web as a vehicle for collection, curation, dissemination, reuse, and exploitation of scientific data and information. Chemistry has frequently provided the exemplar case studies, notably for the series of projects – funded by Jisc and EPSRC – that investigated the issues associated with the long-term preservation of data to support the scholarly knowledge cycle, such as the eBank UK project. Rapid developments in Internet access and mobile technology have significantly influenced the way researchers view connectivity, data standards, and the increasing importance and power of semantics and the Semantic Web. These technical advances interact strongly with the social dimension and have led to a reconsideration of the responsibilities of researchers for the quality of their research and for satisfying the requirements of modern stakeholders. Such obligations have given rise to discussions about Open Access and Open Data, creating a range of alternatives that are now technically feasible but need to be socially acceptable. Business plans are changing too, but in a strange contradiction, desire can run ahead of what is possible, sensible, and affordable, while lagging behind in imagination of what would be technically possible and potentially game-changing! Taking the chemical sciences as our example and focusing on the curation of research data, we explore from our perspective, ten years back and ten years forward, how far we have been able to re-imagine the data/information value pathway from bench to publication. We assess not only the major advances and changes that have been achieved, but also

  15. Neoadjuvant transcatheter arterial chemoembolization does not provide survival benefit compared to curative therapy alone in single hepatocellular carcinoma

    Directory of Open Access Journals (Sweden)

    Ming-Lun Yeh

    2015-02-01

    Full Text Available The role of transcatheter arterial chemoembolization (TACE prior to curative therapy is still unclear. The aim of our study was to elucidate the survival of single hepatocellular carcinoma (HCC and also to clarify whether TACE plus sequential curative therapy provides benefits in single HCC. A total of 470 patients with a diagnosis of single HCC between 2005 and 2010 were studied. The factors associated with clinical outcomes were analyzed. The outcomes between patients who underwent neoadjuvant TACE and those who did not were also compared. The 1-, 3-, and 5-year overall survival (OS rates of all patients were 92.6%, 73.3%, and 59.6%, respectively. Child-Pugh class A [HR: 2.04, 95% confidence interval (CI: 1.277–3.254, p = 0.003], very early stage Barcelona Clinic Liver Cancer (BCLC (HR: 2.03, 95% CI: 1.021–4.025, p = 0.043, tumor size < 5 cm (HR: 1.75, 95% CI: 1.115–2.751, p = 0.015, alpha fetoprotein (AFP level < 200 ng/mL (HR: 2.07, 95% CI: 1.346–3.182, p = 0.001, and curative-based therapy (HR: 2.16, 95% CI: 1.442–3.224, p < 0.001 were factors associated with better OS. The 1-, 3-, and 5-year disease-free survival (DFS rates of all the patients were 75.4%, 53.7%, and 36.3%, respectively. Only Child-Pugh class A (HR: 1.57, 95% CI: 1.068–2.294, p = 0.022 and curative-based therapy (HR: 1.51, 95% CI: 1.128–2.028, p = 0.006 were significantly associated with better DFS. Neoadjuvant TACE did not provide benefit compared with curative therapy alone in subgroup analysis. In conclusion, neoadjuvant TACE is not recommended in single HCC patients who may indicate for curative therapy.

  16. Comment on ''Fabrication methods for low-Pt-loading electrocatalysts in proton exchange membrane fuel cell systems'' [J.-H. Wee, K.-Y. Lee, S.H. Kim, J. Power Sources 165 (2007) 667-677

    Energy Technology Data Exchange (ETDEWEB)

    Gruber, D. [Department of Micro Systems Technology, Hamburg University of Technology, D-21071 Hamburg (Germany)

    2007-11-08

    Glow discharge sputter deposition of metals like Pt or other materials is around for decades. One of the many advantages of this process is - certain prerequisites given - the good adhesion of the sputtered layers due to the physical assisted deposition. Sputter deposition is attributed poor adherence by Wee et al. [Jung-Ho Wee, Kwan-Young Lee, Sung Hyun Kim, J. Power Sources 165 (2007) 667-677], which asks for some comments. (author)

  17. The State of Building a Consistent Framework for Curation and Presentation of Earth Science Data Quality

    Science.gov (United States)

    Ramapriyan, H.; Peng, G.; Moroni, D. F.

    2016-12-01

    Improving collection, description, discovery, and usability of information about data quality in Earth science data products is critical in ensuring data use but requires coordinated efforts of people from multiple disciplines. Under the auspices of the Federation of Earth Science Information Partners (ESIP), the Information Quality Cluster (IQC) brings together national and international data quality management researchers and practitioners from various disciplines to evaluate and establish best practices and standards for data quality for the Earth science community. The IQC evaluates community data quality best practices and standards; makes recommendations for improvement in various aspects of managing data quality in Earth science data products; ensures that producers of data products are aware of standards and best practices for conveying data quality, and data providers/distributors/ intermediaries establish, improve and evolve mechanisms to assist users in discovering and understanding data quality information; and provides guidance to data managers and stewards on how best to implement data quality standards and best practices to ensure and improve maturity of their data products. This presentation will provide an overview on the current state of building a consistent framework for curating and presenting Earth science data quality in terms of science, product, stewardship, and service maturity of individual data products.

  18. A Comprehensive Curation Shows the Dynamic Evolutionary Patterns of Prokaryotic CRISPRs

    Directory of Open Access Journals (Sweden)

    Guoqin Mai

    2016-01-01

    Full Text Available Motivation. Clustered regularly interspaced short palindromic repeat (CRISPR is a genetic element with active regulation roles for foreign invasive genes in the prokaryotic genomes and has been engineered to work with the CRISPR-associated sequence (Cas gene Cas9 as one of the modern genome editing technologies. Due to inconsistent definitions, the existing CRISPR detection programs seem to have missed some weak CRISPR signals. Results. This study manually curates all the currently annotated CRISPR elements in the prokaryotic genomes and proposes 95 updates to the annotations. A new definition is proposed to cover all the CRISPRs. The comprehensive comparison of CRISPR numbers on the taxonomic levels of both domains and genus shows high variations for closely related species even in the same genus. The detailed investigation of how CRISPRs are evolutionarily manipulated in the 8 completely sequenced species in the genus Thermoanaerobacter demonstrates that transposons act as a frequent tool for splitting long CRISPRs into shorter ones along a long evolutionary history.

  19. Leiomyosarcoma of the inferior vena cava level II involvement: curative resection and reconstruction of renal veins

    Directory of Open Access Journals (Sweden)

    Wang Quan

    2012-06-01

    Full Text Available Abstract Leiomyosarcoma of the inferior vena cava (IVCL is a rare retroperitoneal tumor. We report two cases of level II (middle level, renal veins to hepatic veins IVCL, who underwent en bloc resection with reconstruction of bilateral or left renal venous return using prosthetic grafts. In our cases, IVCL is documented to be occluded preoperatively, therefore, radical resection of tumor and/or right kidney was performed and the distal end of inferior vena cava was resected and without caval reconstruction. None of the patients developed edema or acute renal failure postoperatively. After surgical resection, adjuvant radiation therapy was administrated. The patients have been free of recurrence 2 years and 3 months, 9 months after surgery, respectively, indicating the complete surgical resection and radiotherapy contribute to the better survival. The reconstruction of inferior vena cava was not considered mandatory in level II IVCL, if the retroperitoneal venous collateral pathways have been established. In addition to the curative resection of IVCL, the renal vascular reconstruction minimized the risks of procedure-related acute renal failure, and was more physiologically preferable. This concept was reflected in the treatment of the two patients reported on.

  20. A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients

    Science.gov (United States)

    Zhong, Qing; Guo, Tiannan; Rechsteiner, Markus; Rüschoff, Jan H.; Rupp, Niels; Fankhauser, Christian; Saba, Karim; Mortezavi, Ashkan; Poyet, Cédric; Hermanns, Thomas; Zhu, Yi; Moch, Holger; Aebersold, Ruedi; Wild, Peter J.

    2017-01-01

    Microscopy image data of human cancers provide detailed phenotypes of spatially and morphologically intact tissues at single-cell resolution, thus complementing large-scale molecular analyses, e.g., next generation sequencing or proteomic profiling. Here we describe a high-resolution tissue microarray (TMA) image dataset from a cohort of 71 prostate tissue samples, which was hybridized with bright-field dual colour chromogenic and silver in situ hybridization probes for the tumour suppressor gene PTEN. These tissue samples were digitized and supplemented with expert annotations, clinical information, statistical models of PTEN genetic status, and computer source codes. For validation, we constructed an additional TMA dataset for 424 prostate tissues, hybridized with FISH probes for PTEN, and performed survival analysis on a subset of 339 radical prostatectomy specimens with overall, disease-specific and recurrence-free survival (maximum 167 months). For application, we further produced 6,036 image patches derived from two whole slides. Our curated collection of prostate cancer data sets provides reuse potential for both biomedical and computational studies. PMID:28291248

  1. A curated collection of tissue microarray images and clinical outcome data of prostate cancer patients.

    Science.gov (United States)

    Zhong, Qing; Guo, Tiannan; Rechsteiner, Markus; Rüschoff, Jan H; Rupp, Niels; Fankhauser, Christian; Saba, Karim; Mortezavi, Ashkan; Poyet, Cédric; Hermanns, Thomas; Zhu, Yi; Moch, Holger; Aebersold, Ruedi; Wild, Peter J

    2017-03-14

    Microscopy image data of human cancers provide detailed phenotypes of spatially and morphologically intact tissues at single-cell resolution, thus complementing large-scale molecular analyses, e.g., next generation sequencing or proteomic profiling. Here we describe a high-resolution tissue microarray (TMA) image dataset from a cohort of 71 prostate tissue samples, which was hybridized with bright-field dual colour chromogenic and silver in situ hybridization probes for the tumour suppressor gene PTEN. These tissue samples were digitized and supplemented with expert annotations, clinical information, statistical models of PTEN genetic status, and computer source codes. For validation, we constructed an additional TMA dataset for 424 prostate tissues, hybridized with FISH probes for PTEN, and performed survival analysis on a subset of 339 radical prostatectomy specimens with overall, disease-specific and recurrence-free survival (maximum 167 months). For application, we further produced 6,036 image patches derived from two whole slides. Our curated collection of prostate cancer data sets provides reuse potential for both biomedical and computational studies.

  2. Detection and characterization of early gastric cancer for curative endoscopic submucosal dissection.

    Science.gov (United States)

    Yao, Kenshi; Nagahama, Takashi; Matsui, Toshiyuki; Iwashita, Akinori

    2013-03-01

    Because endoscopic submucosal dissection (ESD) of gastric cancer can only be curative if the cancer is detected at an early stage and a precise preoperative diagnosis is made, we reviewed the detection and characterization of early gastric cancer (EGC) using both conventional endoscopy with white-light imaging (C-WLI) and image-enhanced endoscopy (chromoendoscopy [CE] and magnifying narrow-band imaging [M-NBI]). Systematic screening of the stomach by C-WLI after ideal preparation of the patient is important for detecting a mucosal lesion, which can then be characterized using CE. However, a limitation of C-WLI with CE is the diagnosis of flat or small gastric cancers. To overcome this, M-NBI together with a comprehensive diagnostic system, termed the 'vessel plus surface classification' system, was developed and has proven very useful. Preoperative assessment for ESD involves determining: (i) histological type; (ii) size; (iii) depth of invasion; (iv) presence or absence of associated ulceration; and (v) horizontal extent of the cancer. A limitation of endoscopic diagnosis using M-NBI is the histologically undifferentiated type of carcinoma, in which case the biopsy specimen is used to make a histopathological diagnosis.

  3. Genesis Solar Wind Science Canister Components Curated as Potential Solar Wind Collectors and Reference Contamination Sources

    Science.gov (United States)

    Allton, J. H.; Gonzalez, C. P.; Allums, K. K.

    2016-01-01

    The Genesis mission collected solar wind for 27 months at Earth-Sun L1 on both passive and active collectors carried inside of a Science Canister, which was cleaned and assembled in an ISO Class 4 cleanroom prior to launch. The primary passive collectors, 271 individual hexagons and 30 half-hexagons of semiconductor materials, are described in. Since the hard landing reduced the 301 passive collectors to many thousand smaller fragments, characterization and posting in the online catalog remains a work in progress, with about 19% of the total area characterized to date. Other passive collectors, surfaces of opportunity, have been added to the online catalog. For species needing to be concentrated for precise measurement (e.g. oxygen and nitrogen isotopes) an energy-independent parabolic ion mirror focused ions onto a 6.2 cm diameter target. The target materials, as recovered after landing, are described in. The online catalog of these solar wind collectors, a work in progress, can be found at: http://curator.jsc.nasa.gov/gencatalog/index.cfm This paper describes the next step, the cataloging of pieces of the Science Canister, which were surfaces exposed to the solar wind or component materials adjacent to solar wind collectors which may have contributed contamination.

  4. Curative effects of enalapril combined with folic acid tablets on hypertension and its mechanism

    Institute of Scientific and Technical Information of China (English)

    Li-Hong Zhang

    2016-01-01

    Objective:To observe the serum homocysteine in patients with hypertension, inflammatory factors and endothelial injury effects of enalapril combined with folic acid tablets. Methods:A total of 92 cases of H type hypertension patients were average randomly divided into the observation group and control group, the control group was treated with enalapril maleate tablets for treatment, the observation group in the control group based on the combined use of folic acid tablets for treatment, compared two groups of serum homocysteine cysteine (Hcy), inflammatory factor and vascular endothelial injury related indicators of change.Results:The effective rate of the observation group was 60.9%, the control group was 60.9%, the difference was not statistically significant; the two groups Hcy, CPR, B12, TNF-α, MMP-9, NO and ET-1 were significantly better than before treatment, the difference was statistically significant, but there were significant differences between the observation group and the control group. Conclusion:For the H type hypertension patients and enalapril maleate tablets in the treatment can be in a certain extent, it can improve the patients' blood pressure, reduce Hcy levels, improve endothelial function, alleviate the inflammatory reaction, if combined with a dose of folic acid, the clinical curative effect is better, the H type hypertension patients with the treatment of the ideal method.

  5. Archon: A Unified Information Storage and Retrieval System for Lone Archivists, Special Collections Librarians and Curators

    Directory of Open Access Journals (Sweden)

    Scott W. Schwartz

    2007-11-01

    Full Text Available The University of Illinois developed an open-source collections management software program and in August 2006 began making it freely available to archivists, curators, and special collections librarians with limited technological resources and knowledge. This program gave these individuals the ability to easily mount a variety of on-line access tools to their historical collections using ISAD(G and DACS -compliant standards for description. Archon was created with robust interoperability using a single web-based platform for the management of collections of documents and artifacts held by archives, museums and libraries. It was developed as a “plug and play” application for easy installation on any web server or on any web hosting service. Its uses common web-browser input mechanisms and SQL data storage in order to produce dynamic data output in the form of searchable collections websites, MARC bibliographic records, collection-level EAD finding aids, and long-term preservation TXT data files.

  6. Prophylactic and curative effects of Bacopa monniera in gastric ulcer models.

    Science.gov (United States)

    Sairam, K; Rao, C V; Babu, M D; Goel, R K

    2001-11-01

    Bacopa monniera Wettst. (BM, syn. Herpestis monniera L; Scrophulariaceae), is an Ayurvedic drug used as a rasayana. Its fresh juice was earlier reported to have significant antiulcerogenic activity. In continuation, methanolic extract of BM (BME) standardized to bacoside-A content (percentage-38.0 +/- 0.9), when given in the dose of 10-50 mg/kg, twice daily for 5 days, showed dose-dependent anti-ulcerogenic on various gastric ulcer models induced by ethanol, aspirin, 2 h cold restraint stress and 4 h pylorus ligation. BME in the dose of 20 mg/kg, given for 10 days, twice daily showed healing effects against 50% acetic acid-induced gastric ulcers. Further work was done to investigate the possible mechanisms of its action by studying its effect on various mucosal offensive acid-pepsin secretion and defensive factors like mucin secretion, mucosal cell shedding, cell proliferation and antioxidant activity in rats. BME 20 mg/kg showed no effect on acid-pepsin secretion, increased mucin secretion, while it decreased cell shedding with no effect on cell proliferation. BME showed significant antioxidant effect per se and in stressed animals. Thus, the gastric prophylactic and curative effects of BME may be due to its predominant effect on mucosal defensive factors.

  7. Archon: A Unified Information Storage and Retrieval System for Lone Archivists, Special Collections Librarians and Curators

    Directory of Open Access Journals (Sweden)

    Scott W. Schwartz

    2007-09-01

    Full Text Available The University of Illinois developed an open-source collections management software program and in August 2006 began making it freely available to archivists, curators, and special collections librarians. This program gives those with limited technological resources and knowledge the ability to easily mount a variety of on-line access tools to their historical collections using ISAD(G1 and DACS2-compliant standards for description. Archon was created with robust interoperability using a single web-based platform for the management of collections of documents and artifacts held by archives, museums and libraries. It was developed as a “plug and play” application for easy installation on any web server or on any web hosting service. It uses common web-browser input mechanisms and SQL data storage to produce dynamic data output in the form of searchable collections websites, MARC bibliographic records (Smiraglia 1990, EAD finding aids (Pitti 268-293, and long-term preservation TXT data files. The article discusses the design concepts that lead to the University of Illinois’ creation of Archon, the challenges faced by the archives community when providing descriptive access to large bodies of historical papers and records, and describes Archon’s public and administrative interfaces as well as future plans for additional developments to this software program.

  8. Additional treatment with Esberitox in patients submitted to curative adjuvant irradiation after mammary carcinoma

    Energy Technology Data Exchange (ETDEWEB)

    Bendel, R.; Bendel, V.; Renner, K.; Stolze, K.

    1988-05-01

    The present prospective, randomized study was conducted with 50 patients submitted to curative adjuvant irradiation following to surgery for mammary carcinoma. The radiotherapy was performed in the same way in all patients with irradiations of the thoracic wall and the regional lymph nodes. Two groups were built by randomization. The study group received an additional treatment with Esberitox, the control group did not receive an additional treatment. As a result, no protective influence of Esberitox could be demonstrated. The parameters investigated were the peripheral blood count (leucocytes, granulocytes, lymphocyts, monocytes, thrombocytes, hemoglobin, hematocrit) and the incidence of infections. This result diverging from literatures is discussed. It is probably affected by volume and extension of the injury induced by a hematotoxic noxa and furthermore by the ability of regeneration. If this ability is exhausted, the protective effect of Esberitox can act no longer. Therefore the essential factor seems to be the duration of exposure to the noxa. Esberitox was effective in case of a short toxicity, it was ineffective in case of prolonged toxicity, if the treatment continuity (noxa) was not broken up by some regeneration intervals. The radiotherapy studied in this trial had a duration of 50 days, and its effect was that of a longterm injury.

  9. Curative and health enhancement effects of aquatic exercise: evidence based on interventional studies

    Directory of Open Access Journals (Sweden)

    Honda T

    2012-03-01

    Full Text Available Takuya Honda1, Hiroharu Kamioka21Research Fellow of the Japanese Society for the Promotion of Science, 2Laboratory of Physical and Health Education, Faculty of Regional Environment Science, Tokyo University of Agriculture, Tokyo, JapanBackground: The purpose of this study was to report on the health benefits and curative effects of aquatic exercise.Methods: We adopted the results of high-grade study designs (ie, randomized controlled trials and nonrandomized controlled trials, for which there were many studies on aquatic exercise. Aquatic exercise, in this study, means walking in all directions, stretching, and various exercises and conditioning performed with the feet grounded on the floor of a swimming pool. We excluded swimming. We decided to treat aquatic exercise, underwater exercise, hydrotherapy, and pool exercise as all having the same meaning.Results: Aquatic exercise had significant effects on pain relief and related outcome measurements for locomotor diseases.Conclusion: Patients may become more active, and improve their quality of life, as a result of aquatic exercise.Keywords: aquatic exercise, health enhancement, evidence

  10. Using binary classification to prioritize and curate articles for the Comparative Toxicogenomics Database.

    Science.gov (United States)

    Vishnyakova, Dina; Pasche, Emilie; Ruch, Patrick

    2012-01-01

    We report on the original integration of an automatic text categorization pipeline, so-called ToxiCat (Toxicogenomic Categorizer), that we developed to perform biomedical documents classification and prioritization in order to speed up the curation of the Comparative Toxicogenomics Database (CTD). The task can be basically described as a binary classification task, where a scoring function is used to rank a selected set of articles. Then components of a question-answering system are used to extract CTD-specific annotations from the ranked list of articles. The ranking function is generated using a Support Vector Machine, which combines three main modules: an information retrieval engine for MEDLINE (EAGLi), a gene normalization service (NormaGene) developed for a previous BioCreative campaign and finally, a set of answering components and entity recognizer for diseases and chemicals. The main components of the pipeline are publicly available both as web application and web services. The specific integration performed for the BioCreative competition is available via a web user interface at http://pingu.unige.ch:8080/Toxicat.

  11. An Intelligent Web Digital Image Metadata Service Platform for Social Curation Commerce Environment

    Directory of Open Access Journals (Sweden)

    Seong-Yong Hong

    2015-01-01

    Full Text Available Information management includes multimedia data management, knowledge management, collaboration, and agents, all of which are supporting technologies for XML. XML technologies have an impact on multimedia databases as well as collaborative technologies and knowledge management. That is, e-commerce documents are encoded in XML and are gaining much popularity for business-to-business or business-to-consumer transactions. Recently, the internet sites, such as e-commerce sites and shopping mall sites, deal with a lot of image and multimedia information. This paper proposes an intelligent web digital image information retrieval platform, which adopts XML technology for social curation commerce environment. To support object-based content retrieval on product catalog images containing multiple objects, we describe multilevel metadata structures representing the local features, global features, and semantics of image data. To enable semantic-based and content-based retrieval on such image data, we design an XML-Schema for the proposed metadata. We also describe how to automatically transform the retrieval results into the forms suitable for the various user environments, such as web browser or mobile device, using XSLT. The proposed scheme can be utilized to enable efficient e-catalog metadata sharing between systems, and it will contribute to the improvement of the retrieval correctness and the user’s satisfaction on semantic-based web digital image information retrieval.

  12. The curative effects of LPN combined LCA in treating with middle and advanced renal cancer.

    Science.gov (United States)

    Qiu, M-J; Tian, H; Pang, C; Yang, Z-J; Li, C-Q; Xu, L

    2016-01-01

    To discuss the curative effects of laparoscopy partial nephrectomy (LPN) combined with laparoscopy cryoablation (LCA) in treating renal cancer. A total of 58 patients that were diagnosed with phase III-IV renal cancer in the Hospital from February 2013 to October 2014 were enrolled in this study. After obtaining the approval of Ethics Committee of the Hospital as well as the informed consent of the patients and their relatives, the patients were randomly divide into two groups: control group consisted of 24 patients, who were treated with LPN + chemo radiotherapy and the observation group consisted of 34 patients, who were treated with LPN in combination of LCA + chemo radiotherapy. The rate of successful operation was significantly higher in the observation group than in control group and the prevalence of per procedural complications in observation group was significantly lower than that of control group, and these differences had statistical significance (p LCA therapy was quite effective in treating with middle and advanced renal cancer. Compared with pure LPN therapy, LPN combined LCA therapy could significantly improve the surgical effects, retain the functions of the renal unit and improve the patients' prognosis.

  13. IMG ER: A System for Microbial Genome Annotation Expert Review and Curation

    Energy Technology Data Exchange (ETDEWEB)

    Markowitz, Victor M.; Mavromatis, Konstantinos; Ivanova, Natalia N.; Chen, I-Min A.; Chu, Ken; Kyrpides, Nikos C.

    2009-05-25

    A rapidly increasing number of microbial genomes are sequenced by organizations worldwide and are eventually included into various public genome data resources. The quality of the annotations depends largely on the original dataset providers, with erroneous or incomplete annotations often carried over into the public resources and difficult to correct. We have developed an Expert Review (ER) version of the Integrated Microbial Genomes (IMG) system, with the goal of supporting systematic and efficient revision of microbial genome annotations. IMG ER provides tools for the review and curation of annotations of both new and publicly available microbial genomes within IMG's rich integrated genome framework. New genome datasets are included into IMG ER prior to their public release either with their native annotations or with annotations generated by IMG ER's annotation pipeline. IMG ER tools allow addressing annotation problems detected with IMG's comparative analysis tools, such as genes missed by gene prediction pipelines or genes without an associated function. Over the past year, IMG ER was used for improving the annotations of about 150 microbial genomes.

  14. Solar image parameter data from the SDO: Long-term curation and data mining

    Science.gov (United States)

    Schuh, M. A.; Angryk, R. A.; Martens, P. C.

    2015-11-01

    The Solar Dynamics Observatory (SDO) mission captures thousands of images of the Sun per day, motivating the need for efficient and effective storage, representation, and search over a massive repository of data. This work investigates the general-purpose image parameter data produced by the SDO Feature Finding Team's trainable module, which operates at a fixed six minute cadence over all AIA channels. The data contains ten numerical measures computed for each image cell over a 64 × 64 grid for each image. We analyze all available data and metadata produced over the first three years and present comprehensive statistics and outliers while validating the cleanliness and usability of the data source for future research. We then utilize a database of automated solar event reports to create large-scale region-labeled datasets available to the public. We highlight the new-found potential for data-driven discovery by presenting several best-case labeling scenarios that establish a baseline for comparing machine learning classification and attribute (image parameter) evaluation results. Future work focuses on continued dataset curation and spatiotemporal data mining.

  15. Curative effect of radiotherapy at various doses on subcutaneous alveolar echinococcosis in rats

    Institute of Scientific and Technical Information of China (English)

    ZHANG Yue-fen; XIE Zeng-ru; NI Ya-qiong; MAO Rui; QI Hong-zhi; YANG Yu-gang; JIANG Tao; BAO Yong-xing

    2011-01-01

    Background Alveolar echinococcosis (AE) is a disease in human and animals, and the cure rate is unsatisfactory. This study aimed to investigate the curative efficacy of different doses of locally applied radiotherapy on alveolar echinococcosis in rats.Methods Rats infected with Echinococcus multilocularis were randomly divided into 4 groups of 15 rats each: low-,middle-, and high-irradiation groups and a control group. Rats in the control group underwent no treatment, while rats in the irradiation groups received 6-MeV radiotherapy at 20 Gy/8 f, 40 Gy/8 f, and 60 Gy/8 f respectively, once every 3 days for a total of 8 times. One month after radiotherapy, wet weight and AE vesicle inhibitory rate were detected in rats of each group. Histopathologic and ultrastructural observations of tissues with AE lesions were performed.Results In the treatment groups, an obvious inhibitory effect was found in AE rats; the inhibitory rates were 50%, 72%,and 82%, respectively. There were also statistical differences in pathological changes and average wet weight of the lesions compared with the control group (P <0.05). In the treatment groups, injuries of various degrees were found in the ultrastructure of the laminated and germinal layers in the capsular wall of AE, and injury was most severe in the high-dose group.Conclusion Radiotherapy has a dose-dependent inhibitory effect on the growth of AE.

  16. A Manual Curation Strategy to Improve Genome Annotation: Application to a Set of Haloarchael Genomes

    Directory of Open Access Journals (Sweden)

    Friedhelm Pfeiffer

    2015-06-01

    Full Text Available Genome annotation errors are a persistent problem that impede research in the biosciences. A manual curation effort is described that attempts to produce high-quality genome annotations for a set of haloarchaeal genomes (Halobacterium salinarum and Hbt. hubeiense, Haloferax volcanii and Hfx. mediterranei, Natronomonas pharaonis and Nmn. moolapensis, Haloquadratum walsbyi strains HBSQ001 and C23, Natrialba magadii, Haloarcula marismortui and Har. hispanica, and Halohasta litchfieldiae. Genomes are checked for missing genes, start codon misassignments, and disrupted genes. Assignments of a specific function are preferably based on experimentally characterized homologs (Gold Standard Proteins. To avoid overannotation, which is a major source of database errors, we restrict annotation to only general function assignments when support for a specific substrate assignment is insufficient. This strategy results in annotations that are resistant to the plethora of errors that compromise public databases. Annotation consistency is rigorously validated for ortholog pairs from the genomes surveyed. The annotation is regularly crosschecked against the UniProt database to further improve annotations and increase the level of standardization. Enhanced genome annotations are submitted to public databases (EMBL/GenBank, UniProt, to the benefit of the scientific community. The enhanced annotations are also publically available via HaloLex.

  17. Clinical curative effect of endoscopic mucosal resection treatment of senile gastrointestinal polyps

    Institute of Scientific and Technical Information of China (English)

    Mu-Wei Chen; Zhong-Jing Zhi

    2016-01-01

    Objective: To study the clinical curative effect of endoscopic mucosal resection and endoscopic electrocoagulation on flat gastrointestinal polyps. Methods:A total of 62 cases of patients with flat gastrointestinal polyps who received endoscopic diagnosis and treatment in our hospital from May 2012 to October 2015 were selected as the research subjects and divided into experimental group who received endoscopic mucosal resection and control group who received endoscopic electrocoagulation with random number table method, and then red blood cell immune function and the levels of inflammation-related molecules in mucosa and serum of two groups were compared. Results:C3bRR and ICRRR as well as CD58, CD59 and LFA-3 expression levels in peripheral blood of experimental group were significantly higher than those of control group;HSP60, HSP70, TLR4 and NF-kB expression levels in mucosa as well as IL-1β, IL-6, IL-8 and IL-12 levels in serum of experimental group were significantly lower than those of control group. Conclusion:Endoscopic mucosal resection treatment of senile gastrointestinal polyp causes less injury, postoperative red blood cell immune function was better, and inflammation was weaker.

  18. A curated compendium of monocyte transcriptome datasets of relevance to human monocyte immunobiology research.

    Science.gov (United States)

    Rinchai, Darawan; Boughorbel, Sabri; Presnell, Scott; Quinn, Charlie; Chaussabel, Damien

    2016-01-01

    Systems-scale profiling approaches have become widely used in translational research settings. The resulting accumulation of large-scale datasets in public repositories represents a critical opportunity to promote insight and foster knowledge discovery. However, resources that can serve as an interface between biomedical researchers and such vast and heterogeneous dataset collections are needed in order to fulfill this potential. Recently, we have developed an interactive data browsing and visualization web application, the Gene Expression Browser (GXB). This tool can be used to overlay deep molecular phenotyping data with rich contextual information about analytes, samples and studies along with ancillary clinical or immunological profiling data. In this note, we describe a curated compendium of 93 public datasets generated in the context of human monocyte immunological studies, representing a total of 4,516 transcriptome profiles. Datasets were uploaded to an instance of GXB along with study description and sample annotations. Study samples were arranged in different groups. Ranked gene lists were generated based on relevant group comparisons. This resource is publicly available online at http://monocyte.gxbsidra.org/dm3/landing.gsp.

  19. Biopharmaceutics data management system for anonymised data sharing and curation: First application with orbito IMI project.

    Science.gov (United States)

    Lacy-Jones, Kristin; Hayward, Philip; Andrews, Steve; Gledhill, Ian; McAllister, Mark; Abrahamsson, Bertil; Rostami-Hodjegan, Amin; Pepin, Xavier

    2017-03-01

    The OrBiTo IMI project was designed to improve the understanding and modelling of how drugs are absorbed. To achieve this 13 pharmaceutical companies agreed to share biopharmaceutics drug properties and performance data, as long as they were able to hide certain aspects of their dataset if required. This data was then used in simulations to test how three in silico Physiological Based Pharmacokinetic (PBPK) tools performed. A unique database system was designed and implemented to store the drug data. The database system was unique, in that it had the ability to make different sections of a dataset visible or hidden depending on the stage of the project. Users were also given the option to hide identifying API attributes, to help prevent identification of project members from previously published data. This was achieved by applying blinding strategies to data parameters and the adoption of a unique numbering system. An anonymous communication tool was proposed to exchange comments about data, which enabled its curation and evolution. This paper describes the strategy adopted for numbering and blinding of the data, the tools developed to gather and search data as well as the tools used for communicating around the data with the aim of publicising the approach for other pre-competitive research between organisations.

  20. NRLiSt BDB, the manually curated nuclear receptors ligands and structures benchmarking database.

    Science.gov (United States)

    Lagarde, Nathalie; Ben Nasr, Nesrine; Jérémie, Aurore; Guillemain, Hélène; Laville, Vincent; Labib, Taoufik; Zagury, Jean-François; Montes, Matthieu

    2014-04-10

    Nuclear receptors (NRs) constitute an important class of drug targets. We created the most exhaustive NR-focused benchmarking database to date, the NRLiSt BDB (NRs ligands and structures benchmarking database). The 9905 compounds and 339 structures of the NRLiSt BDB are ready for structure-based and ligand-based virtual screening. In the present study, we detail the protocol used to generate the NRLiSt BDB and its features. We also give some examples of the errors that we found in ChEMBL that convinced us to manually review all original papers. Since extensive and manually curated experimental data about NR ligands and structures are provided in the NRLiSt BDB, it should become a powerful tool to assess the performance of virtual screening methods on NRs, to assist the understanding of NR's function and modulation, and to support the discovery of new drugs targeting NRs. NRLiSt BDB is freely available online at http://nrlist.drugdesign.fr .