Radiometric microbiologic assay for the biologically active forms of niacin

International Nuclear Information System (INIS)

Kertcher, J.A.; Guilarte, T.R.; Chen, M.F.; Rider, A.A.; McIntyre, P.A.

1979-01-01

A radiometric microbiologic assay has been developed for the determination of niacin in biologic fluids. Lactobacillus plantarum produced 14 CO 2 from L-[U- 14 C] malic acid in quantities proportional to the amount of niacin present. The assay is specific for the biologically active forms of niacin in humans. Thirty normal hemolysates were analyzed and the values ranged from 13.0 to 17.8 μg niacin/ml RBC (mean = 15.27 +- 1.33 s.d.). Good recovery and reproducibility studies were obtained with this assay. On thirty blood samples, correlation was excellent between the radiometric and the conventional turbidimetric assays

Redox Biology Course Evaluation Form | Center for Cancer Research

Science.gov (United States)

To improve the Redox Biology (RB) course in future years, we would appreciate your feedback by completing this course evaluation. Please score the course elements as poor, fair, average, good or excellent. Please type any comments that you have in response to the questions at the bottom of the form. Remember to include your name as you wish it to appear on the certificate.

Method of inactivating reproducible forms of mycoplasma in biological preparations

International Nuclear Information System (INIS)

Veber, P.; Jurmanova, K.; Lesko, J.; Hana, L.; Veber, V.

1978-01-01

Inactivation of mycoplasms in biological materials was achieved using gamma radiation with a dose rate of 1x10 4 to 5x10 6 rads/h for 1 to 250 hours. The technique is advantageous for allowing the inactivation of the final form of products (tablets, vaccines, etc.). (J.P.)

Redox Biology Course Evaluation Form | Center for Cancer Research

Science.gov (United States)

To improve the Redox Biology (RB) course in future years, we would appreciate your feedback by completing this course evaluation. Please score the course elements as poor, fair, average, good or excellent. Please type any comments that you have in response to the questions at the bottom of the form. Remember to include your name as you wish it to appear on the certificate. Thank you for your feedback.

Conscious knowledge of learning: accessing learning strategies in a final year high school biology class

Science.gov (United States)

Conner, Lindsey; Gunstone, Richard

2004-12-01

This paper reports on a qualitative case study investigation of the knowledge and use of learning strategies by 16 students in a final year high school biology class to expand their conscious knowledge of learning. Students were provided with opportunities to engage in purposeful inquiry into the biological, social and ethical aspects of cancer. A constructivist approach was implemented to access prior content and procedural knowledge in various ways. Students were encouraged to develop evaluation of their learning skills independently through activities that promoted metacognition. Those students who planned and monitored their work produced essays of higher quality. The value and difficulties of promoting metacognitive approaches in this context are discussed, as well as the idea that metacognitive processes are difficult to research, because they have to be conscious in order to be identified by the learner, thereby making them accessible to the researcher.

Radiometric microbiologic assay for the biologically active forms of niacin

Energy Technology Data Exchange (ETDEWEB)

Kertcher, J.A.; Guilarte, T.R.; Chen, M.F.; Rider, A.A.; McIntyre, P.A.

1979-05-01

A radiometric microbiologic assay has been developed for the determination of niacin in biologic fluids. Lactobacillus plantarum produced /sup 14/CO/sub 2/ from L-(U-/sup 14/C) malic acid in quantities proportional to the amount of niacin present. The assay is specific for the biologically active forms of niacin in humans. Thirty normal hemolysates were analyzed and the values ranged from 13.0 to 17.8 ..mu..g niacin/ml RBC (mean = 15.27 +- 1.33 s.d.). Good recovery and reproducibility studies were obtained with this assay. On thirty blood samples, correlation was excellent between the radiometric and the conventional turbidimetric assays.

Evolutionary cell biology: functional insight from "endless forms most beautiful".

Science.gov (United States)

Richardson, Elisabeth; Zerr, Kelly; Tsaousis, Anastasios; Dorrell, Richard G; Dacks, Joel B

2015-12-15

In animal and fungal model organisms, the complexities of cell biology have been analyzed in exquisite detail and much is known about how these organisms function at the cellular level. However, the model organisms cell biologists generally use include only a tiny fraction of the true diversity of eukaryotic cellular forms. The divergent cellular processes observed in these more distant lineages are still largely unknown in the general scientific community. Despite the relative obscurity of these organisms, comparative studies of them across eukaryotic diversity have had profound implications for our understanding of fundamental cell biology in all species and have revealed the evolution and origins of previously observed cellular processes. In this Perspective, we will discuss the complexity of cell biology found across the eukaryotic tree, and three specific examples of where studies of divergent cell biology have altered our understanding of key functional aspects of mitochondria, plastids, and membrane trafficking. © 2015 Richardson et al. This article is distributed by The American Society for Cell Biology under license from the author(s). Two months after publication it is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

MODEL OF METHODS OF FORMING BIOLOGICAL PICTURE OF THE WORLD OF SECONDARY SCHOOL PUPILS

Directory of Open Access Journals (Sweden)

Mikhail A. Yakunchev

2016-12-01

Full Text Available Introduction: the problem of development of a model of methods of forming the biological picture of the world of pupils as a multicomponent and integrative expression of the complete educational process is considered in the article. It is stated that the results of the study have theoretical and practical importance for effective subject preparation of senior pupils based on acquiring of systematic and generalized knowledge about wildlife. The correspondence of the main idea of the article to the scientific profile of the journal “Integration of Education” determines the choice of the periodical for publication. Materials and Methods: the results of the analysis of materials on modeling of the educational process, on specific models of the formation of a complete comprehension of the scientific picture of the world and its biological component make it possible to suggest a lack of elaboration of the aspect of pedagogical research under study. Therefore, the search for methods to overcome these gaps and to substantiate a particular model, relevant for its practical application by a teacher, is important. The study was based on the use of methods of theoretical level, including the analysis of pedagogical and methodological literature, modeling and generalized expression of the model of forming the biological picture of the world of secondary school senior pupils, which were of higher priority. Results: the use of models of organization of subject preparation of secondary school pupils takes a priority position, as they help to achieve the desired results of training, education and development. The model of methods of forming a biological picture of the world is represented as a theoretical construct in the unity of objective, substantive, procedural, diagnostic and effective blocks. Discussion and Conclusions: in a generalized form the article expresses the model of methods of forming the biological picture of the world of secondary school

Do new Access and Benefit Sharing procedures under the Convention on Biological Diversity threaten the future of biological control? Supplemental material (case studies, natural enemy releases, country views concerning ABS)

NARCIS (Netherlands)

Cock, M.J.W.; Lenteren, van J.C.; Brodeur, J.; Barratt, I.P.; Bigler, F.; Bolckmans, K.; Cônsoli, F.L.; Haas, F.; Mason, P.G.; Parra, J.R.P.

2010-01-01

Under the Convention on Biological Diversity (CBD) countries have sovereign rights over their genetic resources. Agreements governing the access to these resources and the sharing of the benefits arising from their use need to be established between involved parties [i.e. Access and Benefit Sharing

Accessing biological actions of Ganoderma secondary metabolites by in silico profiling

Science.gov (United States)

Grienke, Ulrike; Kaserer, Teresa; Pfluger, Florian; Mair, Christina E.; Langer, Thierry; Schuster, Daniela; Rollinger, Judith M.

2016-01-01

syndrome which serve as a basis for future applications to access yet undiscovered biological actions of Ganoderma secondary metabolites on a molecular level. PMID:25457486

An accessible four-dimensional treatment of Maxwell's equations in terms of differential forms

Science.gov (United States)

Sá, Lucas

2017-03-01

Maxwell’s equations are derived in terms of differential forms in the four-dimensional Minkowski representation, starting from the three-dimensional vector calculus differential version of these equations. Introducing all the mathematical and physical concepts needed (including the tool of differential forms), using only knowledge of elementary vector calculus and the local vector version of Maxwell’s equations, the equations are reduced to a simple and elegant set of two equations for a unified quantity, the electromagnetic field. The treatment should be accessible for students taking a first course on electromagnetism.

Currently Situation, Some Cases and Implications of the Legislation on Access and Benefit-sharing to Biologi cal Genetic Resource in Australia

Directory of Open Access Journals (Sweden)

LI Yi-ding

2017-01-01

Full Text Available Australia is one of the most abundant in biodiversity country of the global which located in Oceanian and became a signatory coun try of the Convention on Biodiversity, International Treaty on Plant Genetic Resource for Food and Agriculture, Convention on International Trade in Endangered Species. This country stipulated the Environmental Protection and Biodiversity Conservation Act(EPBC, 1999 and Environmental Protection and Biodiversity Conservation Regulations, 2002. Queensland and the North Territory passed the Bio-discovery Act in 2004 and Biological Resource Act in 2006 separately. This paper firstly focus on current situation, characteristic of the legislation on ac cess and benefit-sharing to biological resource in the commonwealth and local place in Australia and then collected and analyzed the typical case of access and benefit-sharing in this country that could bring some experience to China in this field. The conclusion of this paper is that China should stipulated the specific legislation on access and benefit-sharing to biological genetic resource as like the Environmental Protection and Biodiversity Conservation Act(EPBC, 1999 and establish the rule of procedure related to the access and benefit-sharing as like the Environmental Protection and Biodiversity Conservation Regulations, 2002, Bio-discovery Act in 2004, Queensland and the Biological Resource Act in 2006, the North Territory.

A Brief Introduction to Chinese Biological Biological

Institute of Scientific and Technical Information of China (English)

无

2005-01-01

Chinese Biological Abstracts sponsored by the Library, the Shanghai Institutes for Biological Sciences, the Biological Documentation and Information Network, all of the Chinese Academy of Sciences, commenced publication in 1987 and was initiated to provide access to the Chinese information in the field of biology.

Chemical insight into origin of forming-free resistive random-access memory devices

KAUST Repository

Wu, X.

2011-09-29

We demonstrate the realization of a forming-step free resistive random access memory (RRAM) device using a HfOx/TiOx/HfOx/TiOxmultilayer structure, as a replacement for the conventional HfOx-based single layer structure. High-resolution transmission electron microscopy (HRTEM), along with electron energy loss spectroscopy(EELS)analysis has been carried out to identify the distribution and the role played by Ti in the RRAM stack. Our results show that Ti out-diffusion into the HfOx layer is the chemical cause of forming-free behavior. Moreover, the capability of Ti to change its ionic state in HfOx eases the reduction-oxidation (redox) reaction, thus lead to the RRAM devices performance improvements.

Biological approaches for addressing the grand challenge of providing access to clean drinking water

Science.gov (United States)

2011-01-01

The U.S. National Academy of Engineering (NAE) recently published a document presenting "Grand Challenges for Engineering". This list was proposed by leading engineers and scientists from around the world at the request of the U.S. National Science Foundation (NSF). Fourteen topics were selected for these grand challenges, and at least seven can be addressed using the tools and methods of biological engineering. Here we describe how biological engineers can address the challenge of providing access to clean drinking water. This issue must be addressed in part by removing or inactivating microbial and chemical contaminants in order to properly deliver water safe for human consumption. Despite many advances in technologies this challenge is expanding due to increased pressure on fresh water supplies and to new opportunities for growth of potentially pathogenic organisms. PMID:21453515

Ventral aspect of the visual form pathway is not critical for the perception of biological motion

Science.gov (United States)

Gilaie-Dotan, Sharon; Saygin, Ayse Pinar; Lorenzi, Lauren J.; Rees, Geraint; Behrmann, Marlene

2015-01-01

Identifying the movements of those around us is fundamental for many daily activities, such as recognizing actions, detecting predators, and interacting with others socially. A key question concerns the neurobiological substrates underlying biological motion perception. Although the ventral “form” visual cortex is standardly activated by biologically moving stimuli, whether these activations are functionally critical for biological motion perception or are epiphenomenal remains unknown. To address this question, we examined whether focal damage to regions of the ventral visual cortex, resulting in significant deficits in form perception, adversely affects biological motion perception. Six patients with damage to the ventral cortex were tested with sensitive point-light display paradigms. All patients were able to recognize unmasked point-light displays and their perceptual thresholds were not significantly different from those of three different control groups, one of which comprised brain-damaged patients with spared ventral cortex (n > 50). Importantly, these six patients performed significantly better than patients with damage to regions critical for biological motion perception. To assess the necessary contribution of different regions in the ventral pathway to biological motion perception, we complement the behavioral findings with a fine-grained comparison between the lesion location and extent, and the cortical regions standardly implicated in biological motion processing. This analysis revealed that the ventral aspects of the form pathway (e.g., fusiform regions, ventral extrastriate body area) are not critical for biological motion perception. We hypothesize that the role of these ventral regions is to provide enhanced multiview/posture representations of the moving person rather than to represent biological motion perception per se. PMID:25583504

Worldwide Protein Data Bank biocuration supporting open access to high-quality 3D structural biology data

Science.gov (United States)

Westbrook, John D; Feng, Zukang; Persikova, Irina; Sala, Raul; Sen, Sanchayita; Berrisford, John M; Swaminathan, G Jawahar; Oldfield, Thomas J; Gutmanas, Aleksandras; Igarashi, Reiko; Armstrong, David R; Baskaran, Kumaran; Chen, Li; Chen, Minyu; Clark, Alice R; Di Costanzo, Luigi; Dimitropoulos, Dimitris; Gao, Guanghua; Ghosh, Sutapa; Gore, Swanand; Guranovic, Vladimir; Hendrickx, Pieter M S; Hudson, Brian P; Ikegawa, Yasuyo; Kengaku, Yumiko; Lawson, Catherine L; Liang, Yuhe; Mak, Lora; Mukhopadhyay, Abhik; Narayanan, Buvaneswari; Nishiyama, Kayoko; Patwardhan, Ardan; Sahni, Gaurav; Sanz-García, Eduardo; Sato, Junko; Sekharan, Monica R; Shao, Chenghua; Smart, Oliver S; Tan, Lihua; van Ginkel, Glen; Yang, Huanwang; Zhuravleva, Marina A; Markley, John L; Nakamura, Haruki; Kurisu, Genji; Kleywegt, Gerard J; Velankar, Sameer; Berman, Helen M; Burley, Stephen K

2018-01-01

Abstract The Protein Data Bank (PDB) is the single global repository for experimentally determined 3D structures of biological macromolecules and their complexes with ligands. The worldwide PDB (wwPDB) is the international collaboration that manages the PDB archive according to the FAIR principles: Findability, Accessibility, Interoperability and Reusability. The wwPDB recently developed OneDep, a unified tool for deposition, validation and biocuration of structures of biological macromolecules. All data deposited to the PDB undergo critical review by wwPDB Biocurators. This article outlines the importance of biocuration for structural biology data deposited to the PDB and describes wwPDB biocuration processes and the role of expert Biocurators in sustaining a high-quality archive. Structural data submitted to the PDB are examined for self-consistency, standardized using controlled vocabularies, cross-referenced with other biological data resources and validated for scientific/technical accuracy. We illustrate how biocuration is integral to PDB data archiving, as it facilitates accurate, consistent and comprehensive representation of biological structure data, allowing efficient and effective usage by research scientists, educators, students and the curious public worldwide. Database URL: https://www.wwpdb.org/ PMID:29688351

Form and function: Perspectives on structural biology and resources for the future

International Nuclear Information System (INIS)

Vaughan, D.

1990-12-01

The purpose of this study is largely to explore and expand on the thesis that biological structures and their functions are suited to. Form indeed follows function and if we are to understand the workings of a living system, with all that such an understanding promises, we must first seek to describe the structure of its parts. Descriptions of a few achievements of structural biology lay the groundwork, but the substance of this booklet is a discussion of important questions yet unanswered and opportunities just beyond our grasp. The concluding pages then outline a course of action in which the Department of Energy would exercise its responsibility to develop the major resources needed to extend our reach and to answer some of those unanswered questions. 22 figs

Form and function: Perspectives on structural biology and resources for the future

Energy Technology Data Exchange (ETDEWEB)

Vaughan, D. (ed.)

1990-12-01

The purpose of this study is largely to explore and expand on the thesis that biological structures and their functions are suited to. Form indeed follows function and if we are to understand the workings of a living system, with all that such an understanding promises, we must first seek to describe the structure of its parts. Descriptions of a few achievements of structural biology lay the groundwork, but the substance of this booklet is a discussion of important questions yet unanswered and opportunities just beyond our grasp. The concluding pages then outline a course of action in which the Department of Energy would exercise its responsibility to develop the major resources needed to extend our reach and to answer some of those unanswered questions. 22 figs.

An accessible four-dimensional treatment of Maxwell's equations in terms of differential forms

International Nuclear Information System (INIS)

Sá, Lucas

2017-01-01

Maxwell’s equations are derived in terms of differential forms in the four-dimensional Minkowski representation, starting from the three-dimensional vector calculus differential version of these equations. Introducing all the mathematical and physical concepts needed (including the tool of differential forms), using only knowledge of elementary vector calculus and the local vector version of Maxwell’s equations, the equations are reduced to a simple and elegant set of two equations for a unified quantity, the electromagnetic field. The treatment should be accessible for students taking a first course on electromagnetism. (paper)

Connecting Biology to Electronics: Molecular Communication via Redox Modality.

Science.gov (United States)

Liu, Yi; Li, Jinyang; Tschirhart, Tanya; Terrell, Jessica L; Kim, Eunkyoung; Tsao, Chen-Yu; Kelly, Deanna L; Bentley, William E; Payne, Gregory F

2017-12-01

Biology and electronics are both expert at for accessing, analyzing, and responding to information. Biology uses ions, small molecules, and macromolecules to receive, analyze, store, and transmit information, whereas electronic devices receive input in the form of electromagnetic radiation, process the information using electrons, and then transmit output as electromagnetic waves. Generating the capabilities to connect biology-electronic modalities offers exciting opportunities to shape the future of biosensors, point-of-care medicine, and wearable/implantable devices. Redox reactions offer unique opportunities for bio-device communication that spans the molecular modalities of biology and electrical modality of devices. Here, an approach to search for redox information through an interactive electrochemical probing that is analogous to sonar is adopted. The capabilities of this approach to access global chemical information as well as information of specific redox-active chemical entities are illustrated using recent examples. An example of the use of synthetic biology to recognize external molecular information, process this information through intracellular signal transduction pathways, and generate output responses that can be detected by electrical modalities is also provided. Finally, exciting results in the use of redox reactions to actuate biology are provided to illustrate that synthetic biology offers the potential to guide biological response through electrical cues. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Visual form Cues, Biological Motions, Auditory Cues, and Even Olfactory Cues Interact to Affect Visual Sex Discriminations

OpenAIRE

Rick Van Der Zwan; Anna Brooks; Duncan Blair; Coralia Machatch; Graeme Hacker

2011-01-01

Johnson and Tassinary (2005) proposed that visually perceived sex is signalled by structural or form cues. They suggested also that biological motion cues signal sex, but do so indirectly. We previously have shown that auditory cues can mediate visual sex perceptions (van der Zwan et al., 2009). Here we demonstrate that structural cues to body shape are alone sufficient for visual sex discriminations but that biological motion cues alone are not. Interestingly, biological motions can resolve ...

Biological properties of dissociative L- and other forms of Mycobacterium bovis

Directory of Open Access Journals (Sweden)

A. A. Tkachenko

2016-08-01

Full Text Available A race of modified forms of mycobacteria with special properties that can be promising for the construction of TB vaccines was selected It was found that the persistence of the researched microorganisms (27th subculture of acid-fast bacillus and the L-form persisted for nine months (the period of research and longer in the bodies of guinea pigs. However, from the suspension prepared from macroscopically unchanged organs of the experimental animals we found acid-proof elementary bodies (grains and bacilli of typical morphological forms, which formed an orange culture on the nutrient medium on the third day after suspension seeding. The inoculation of guinea pigs with isolated acid-proof mycobacteria (culture-revertant (1 mg/cm3 was not accompanied by the development of allergic condition (allergic reaction to the tuberculin and AAM was negative at 30, 60 and 90 days; however, acid-proof bacilli, which formed an orange culture,were isolated on the the third day from experimental animals which had been subjected to euthanasia. Multiple passages through the artificial culture medium (dense, prolonged exposure (20 months at low plus temperature changed the genetic balance, ensuring their survival as a result of the loss of some (specific to the pathogen and the acquisition of new properties (especially atypical which are partly inherent in other mycobacteria. At the same time, the persistence in the body of guinea pigs of typical morphological acid-proof forms (bacilli that reverse from L-forms was not accompanied by the development of the disease. They are chromogenic and retain the ability to form colonies (culture-revertant on dense nutrient medium from the first generation (from biological material of the guinea pigs on the second day of cultivation. The loss of sensitization ability of Mycobacterium bovis which werepassaged many times and persistent in the body of guinea pigs can probably testify to the loss of immunogenic capacity, since the

Big Data access and infrastructure for modern biology: case studies in data repository utility.

Science.gov (United States)

Boles, Nathan C; Stone, Tyler; Bergeron, Charles; Kiehl, Thomas R

2017-01-01

Big Data is no longer solely the purview of big organizations with big resources. Today's routine tools and experimental methods can generate large slices of data. For example, high-throughput sequencing can quickly interrogate biological systems for the expression levels of thousands of different RNAs, examine epigenetic marks throughout the genome, and detect differences in the genomes of individuals. Multichannel electrophysiology platforms produce gigabytes of data in just a few minutes of recording. Imaging systems generate videos capturing biological behaviors over the course of days. Thus, any researcher now has access to a veritable wealth of data. However, the ability of any given researcher to utilize that data is limited by her/his own resources and skills for downloading, storing, and analyzing the data. In this paper, we examine the necessary resources required to engage Big Data, survey the state of modern data analysis pipelines, present a few data repository case studies, and touch on current institutions and programs supporting the work that relies on Big Data. © 2016 New York Academy of Sciences.

The Use of Textbooks for Advanced-Level GCE Courses in Physics, Chemistry and Biology by Sixth-Form Students.

Science.gov (United States)

Newton, D. P.

1984-01-01

A survey of sixth-form students to determine the level of A-level textbook use in physics, chemistry, and biology in English schools found that texts are used primarily after the lesson, at the student's discretion, and with great variations between students. Biology texts were used most, and physics texts used least. (MBR)

Do athletes have a right to access data in their Athlete Biological Passport?

Science.gov (United States)

Devriendt, Thijs; Chokoshvili, Davit; Favaretto, Maddalena; Borry, Pascal

2018-05-01

The Athlete Biological Passport (ABP) refers to the collection of data related to an individual athlete. The ABP contains the Haematological Module and the Steroidal Module, which are used for the longitudinal monitoring of variables in blood and urine, respectively. Based on changes in these variables, a statistical model detects outliers which indicate doping use and guide further targeted testing of the athlete. Presently, athletes can access their data of the Haematological Module in the Anti-Doping Administration and Management System (ADAMS). However, granting athletes access to this data has been a matter of debate within the anti-doping community. This article investigates whether an athlete has a right to access the contents of their ABP profile. We approached this discussion by comparing the nature of ABP data with that of forensic and medical data and touched on important concerns with ABP data disclosure to athletes such as potentially allowing for the development of alternative doping techniques to circumvent detection; and making athletes vulnerable to pressure by the media to publicly release their data. Furthermore, given that ABP data may contain medically relevant information that can be used to diagnose disease, athletes may over-interpret its medical significance and wrongly see it as a free health check. We argue that safeguarding the integrity of the ABP system must be seen as the most essential element and thus a departure from immediate data disclosure is necessary. Two different strategies for delayed data disclosure are proposed which diminish the chances of ABP data being misused to refine doping techniques. Copyright © 2018 John Wiley & Sons, Ltd.

pClone: Synthetic Biology Tool Makes Promoter Research Accessible to Beginning Biology Students

Science.gov (United States)

Campbell, A. Malcolm; Eckdahl, Todd; Cronk, Brian; Andresen, Corinne; Frederick, Paul; Huckuntod, Samantha; Shinneman, Claire; Wacker, Annie; Yuan, Jason

2014-01-01

The "Vision and Change" report recommended genuine research experiences for undergraduate biology students. Authentic research improves science education, increases the number of scientifically literate citizens, and encourages students to pursue research. Synthetic biology is well suited for undergraduate research and is a growing area…

On the possibility of biologically active fenole substances forming during irradiation of vegetable origin products

International Nuclear Information System (INIS)

Koval'skaya, L.P.; Petrash, I.P.; Medvedeva, T.N.; Lezhneva, M.L.; Shchegoleva, G.I.

1974-01-01

The purpose of this study was to find out whether biologically active substances of phenol nature can form upon irradiation of fresh fruits and vegetables with doses of 200-300 Krad, to ascertain the stability of these substances during storage and processing, and to see whether they display cytostatic effects. The results of the study led to modifications and improvements in the methods used to study biologically active substances of phenol nature in fresh fruits irradiated with 200-300 krad. The total amount of phenolic compounds was found to be somewhat increased upon their extraction with cold ethanol. Of the substances detected in extracts from red tomatoes, the contens of chlorogenic acid, caffeic acid, and naranguenine were appreciably increased. Neither chemical methods nor bioassays revealed in irradiated juices and fruits any biologically active substances affecting the living organism. (E.T.)

Will the Convention on Biological Diversity put an end to biological control?

NARCIS (Netherlands)

Lenteren, van J.C.; Cock, M.J.W.; Brodeur, J.; Barratt, B.I.P.; Bigler, F.; Bolckmans, K.; Haas, F.; Mason, P.G.; Parra, J.R.P.

2011-01-01

Will the Convention on Biological Diversity put an end to biological control? Under the Convention on Biological Diversity countries have sovereign rights over their genetic resources. Agreements governing the access to these resources and the sharing of the benefits arising from their use need to

Synthetic Biology: Knowledge Accessed by Everyone (Open Sources)

Science.gov (United States)

Sánchez Reyes, Patricia Margarita

2016-01-01

Using the principles of biology, along with engineering and with the help of computer, scientists manage to copy. DNA sequences from nature and use them to create new organisms. DNA is created through engineering and computer science managing to create life inside a laboratory. We cannot dismiss the role that synthetic biology could lead in…

Standard biological parts knowledgebase.

Directory of Open Access Journals (Sweden)

Michal Galdzicki

2011-02-01

Full Text Available We have created the Knowledgebase of Standard Biological Parts (SBPkb as a publically accessible Semantic Web resource for synthetic biology (sbolstandard.org. The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology. Its initial version includes all of the information about parts stored in the Registry of Standard Biological Parts (partsregistry.org. SBPkb transforms this information so that it is computable, using our semantic framework for synthetic biology parts. This framework, known as SBOL-semantic, was built as part of the Synthetic Biology Open Language (SBOL, a project of the Synthetic Biology Data Exchange Group. SBOL-semantic represents commonly used synthetic biology entities, and its purpose is to improve the distribution and exchange of descriptions of biological parts. In this paper, we describe the data, our methods for transformation to SBPkb, and finally, we demonstrate the value of our knowledgebase with a set of sample queries. We use RDF technology and SPARQL queries to retrieve candidate "promoter" parts that are known to be both negatively and positively regulated. This method provides new web based data access to perform searches for parts that are not currently possible.

Standard Biological Parts Knowledgebase

Science.gov (United States)

Galdzicki, Michal; Rodriguez, Cesar; Chandran, Deepak; Sauro, Herbert M.; Gennari, John H.

2011-01-01

We have created the Knowledgebase of Standard Biological Parts (SBPkb) as a publically accessible Semantic Web resource for synthetic biology (sbolstandard.org). The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology. Its initial version includes all of the information about parts stored in the Registry of Standard Biological Parts (partsregistry.org). SBPkb transforms this information so that it is computable, using our semantic framework for synthetic biology parts. This framework, known as SBOL-semantic, was built as part of the Synthetic Biology Open Language (SBOL), a project of the Synthetic Biology Data Exchange Group. SBOL-semantic represents commonly used synthetic biology entities, and its purpose is to improve the distribution and exchange of descriptions of biological parts. In this paper, we describe the data, our methods for transformation to SBPkb, and finally, we demonstrate the value of our knowledgebase with a set of sample queries. We use RDF technology and SPARQL queries to retrieve candidate “promoter” parts that are known to be both negatively and positively regulated. This method provides new web based data access to perform searches for parts that are not currently possible. PMID:21390321

Standard biological parts knowledgebase.

Science.gov (United States)

Galdzicki, Michal; Rodriguez, Cesar; Chandran, Deepak; Sauro, Herbert M; Gennari, John H

2011-02-24

We have created the Knowledgebase of Standard Biological Parts (SBPkb) as a publically accessible Semantic Web resource for synthetic biology (sbolstandard.org). The SBPkb allows researchers to query and retrieve standard biological parts for research and use in synthetic biology. Its initial version includes all of the information about parts stored in the Registry of Standard Biological Parts (partsregistry.org). SBPkb transforms this information so that it is computable, using our semantic framework for synthetic biology parts. This framework, known as SBOL-semantic, was built as part of the Synthetic Biology Open Language (SBOL), a project of the Synthetic Biology Data Exchange Group. SBOL-semantic represents commonly used synthetic biology entities, and its purpose is to improve the distribution and exchange of descriptions of biological parts. In this paper, we describe the data, our methods for transformation to SBPkb, and finally, we demonstrate the value of our knowledgebase with a set of sample queries. We use RDF technology and SPARQL queries to retrieve candidate "promoter" parts that are known to be both negatively and positively regulated. This method provides new web based data access to perform searches for parts that are not currently possible.

Achieving open access to conservation science.

Science.gov (United States)

Fuller, Richard A; Lee, Jasmine R; Watson, James E M

2014-12-01

Conservation science is a crisis discipline in which the results of scientific enquiry must be made available quickly to those implementing management. We assessed the extent to which scientific research published since the year 2000 in 20 conservation science journals is publicly available. Of the 19,207 papers published, 1,667 (8.68%) are freely downloadable from an official repository. Moreover, only 938 papers (4.88%) meet the standard definition of open access in which material can be freely reused providing attribution to the authors is given. This compares poorly with a comparable set of 20 evolutionary biology journals, where 31.93% of papers are freely downloadable and 7.49% are open access. Seventeen of the 20 conservation journals offer an open access option, but fewer than 5% of the papers are available through open access. The cost of accessing the full body of conservation science runs into tens of thousands of dollars per year for institutional subscribers, and many conservation practitioners cannot access pay-per-view science through their workplace. However, important initiatives such as Research4Life are making science available to organizations in developing countries. We urge authors of conservation science to pay for open access on a per-article basis or to choose publication in open access journals, taking care to ensure the license allows reuse for any purpose providing attribution is given. Currently, it would cost $51 million to make all conservation science published since 2000 freely available by paying the open access fees currently levied to authors. Publishers of conservation journals might consider more cost effective models for open access and conservation-oriented organizations running journals could consider a broader range of options for open access to nonmembers such as sponsorship of open access via membership fees. © 2014 The Authors. Conservation Biology published by Wiley Periodicals, Inc., on behalf of the Society for

Recombinant protein expression for structural biology in HEK 293F suspension cells: a novel and accessible approach.

Science.gov (United States)

Portolano, Nicola; Watson, Peter J; Fairall, Louise; Millard, Christopher J; Milano, Charles P; Song, Yun; Cowley, Shaun M; Schwabe, John W R

2014-10-16

The expression and purification of large amounts of recombinant protein complexes is an essential requirement for structural biology studies. For over two decades, prokaryotic expression systems such as E. coli have dominated the scientific literature over costly and less efficient eukaryotic cell lines. Despite the clear advantage in terms of yields and costs of expressing recombinant proteins in bacteria, the absence of specific co-factors, chaperones and post-translational modifications may cause loss of function, mis-folding and can disrupt protein-protein interactions of certain eukaryotic multi-subunit complexes, surface receptors and secreted proteins. The use of mammalian cell expression systems can address these drawbacks since they provide a eukaryotic expression environment. However, low protein yields and high costs of such methods have until recently limited their use for structural biology. Here we describe a simple and accessible method for expressing and purifying milligram quantities of protein by performing transient transfections of suspension grown HEK (Human Embryonic Kidney) 293 F cells.

Genome-derived insights into the biology of the hepatotoxic bloom-forming cyanobacterium Anabaena sp. strain 90

Directory of Open Access Journals (Sweden)

Wang Hao

2012-11-01

Full Text Available Abstract Background Cyanobacteria can form massive toxic blooms in fresh and brackish bodies of water and are frequently responsible for the poisoning of animals and pose a health risk for humans. Anabaena is a genus of filamentous diazotrophic cyanobacteria commonly implicated as a toxin producer in blooms in aquatic ecosystems throughout the world. The biology of bloom-forming cyanobacteria is poorly understood at the genome level. Results Here, we report the complete sequence and comprehensive annotation of the bloom-forming Anabaena sp. strain 90 genome. It comprises two circular chromosomes and three plasmids with a total size of 5.3 Mb, encoding a total of 4,738 genes. The genome is replete with mobile genetic elements. Detailed manual annotation demonstrated that almost 5% of the gene repertoire consists of pseudogenes. A further 5% of the genome is dedicated to the synthesis of small peptides that are the products of both ribosomal and nonribosomal biosynthetic pathways. Inactivation of the hassallidin (an antifungal cyclic peptide biosynthetic gene cluster through a deletion event and a natural mutation of the buoyancy-permitting gvpG gas vesicle gene were documented. The genome contains a large number of genes encoding restriction-modification systems. Two novel excision elements were found in the nifH gene that is required for nitrogen fixation. Conclusions Genome analysis demonstrated that this strain invests heavily in the production of bioactive compounds and restriction-modification systems. This well-annotated genome provides a platform for future studies on the ecology and biology of these important bloom-forming cyanobacteria.

Synthetic biology and biosecurity: challenging the "myths".

Science.gov (United States)

Jefferson, Catherine; Lentzos, Filippa; Marris, Claire

2014-01-01

Synthetic biology, a field that aims to "make biology easier to engineer," is routinely described as leading to an increase in the "dual-use" threat, i.e., the potential for the same scientific research to be "used" for peaceful purposes or "misused" for warfare or terrorism. Fears have been expressed that the "de-skilling" of biology, combined with online access to the genomic DNA sequences of pathogenic organisms and the reduction in price for DNA synthesis, will make biology increasingly accessible to people operating outside well-equipped professional research laboratories, including people with malevolent intentions. The emergence of do-it-yourself (DIY) biology communities and of the student iGEM competition has come to epitomize this supposed trend toward greater ease of access and the associated potential threat from rogue actors. In this article, we identify five "myths" that permeate discussions about synthetic biology and biosecurity, and argue that they embody misleading assumptions about both synthetic biology and bioterrorism. We demonstrate how these myths are challenged by more realistic understandings of the scientific research currently being conducted in both professional and DIY laboratories, and by an analysis of historical cases of bioterrorism. We show that the importance of tacit knowledge is commonly overlooked in the dominant narrative: the focus is on access to biological materials and digital information, rather than on human practices and institutional dimensions. As a result, public discourse on synthetic biology and biosecurity tends to portray speculative scenarios about the future as realities in the present or the near future, when this is not warranted. We suggest that these "myths" play an important role in defining synthetic biology as a "promissory" field of research and as an "emerging technology" in need of governance.

PathwayAccess: CellDesigner plugins for pathway databases.

Science.gov (United States)

Van Hemert, John L; Dickerson, Julie A

2010-09-15

CellDesigner provides a user-friendly interface for graphical biochemical pathway description. Many pathway databases are not directly exportable to CellDesigner models. PathwayAccess is an extensible suite of CellDesigner plugins, which connect CellDesigner directly to pathway databases using respective Java application programming interfaces. The process is streamlined for creating new PathwayAccess plugins for specific pathway databases. Three PathwayAccess plugins, MetNetAccess, BioCycAccess and ReactomeAccess, directly connect CellDesigner to the pathway databases MetNetDB, BioCyc and Reactome. PathwayAccess plugins enable CellDesigner users to expose pathway data to analytical CellDesigner functions, curate their pathway databases and visually integrate pathway data from different databases using standard Systems Biology Markup Language and Systems Biology Graphical Notation. Implemented in Java, PathwayAccess plugins run with CellDesigner version 4.0.1 and were tested on Ubuntu Linux, Windows XP and 7, and MacOSX. Source code, binaries, documentation and video walkthroughs are freely available at http://vrac.iastate.edu/~jlv.

Development of SRS.php, a Simple Object Access Protocol-based library for data acquisition from integrated biological databases.

Science.gov (United States)

Barbosa-Silva, A; Pafilis, E; Ortega, J M; Schneider, R

2007-12-11

Data integration has become an important task for biological database providers. The current model for data exchange among different sources simplifies the manner that distinct information is accessed by users. The evolution of data representation from HTML to XML enabled programs, instead of humans, to interact with biological databases. We present here SRS.php, a PHP library that can interact with the data integration Sequence Retrieval System (SRS). The library has been written using SOAP definitions, and permits the programmatic communication through webservices with the SRS. The interactions are possible by invoking the methods described in WSDL by exchanging XML messages. The current functions available in the library have been built to access specific data stored in any of the 90 different databases (such as UNIPROT, KEGG and GO) using the same query syntax format. The inclusion of the described functions in the source of scripts written in PHP enables them as webservice clients to the SRS server. The functions permit one to query the whole content of any SRS database, to list specific records in these databases, to get specific fields from the records, and to link any record among any pair of linked databases. The case study presented exemplifies the library usage to retrieve information regarding registries of a Plant Defense Mechanisms database. The Plant Defense Mechanisms database is currently being developed, and the proposal of SRS.php library usage is to enable the data acquisition for the further warehousing tasks related to its setup and maintenance.

A Brief Introduction to Chinese Biological Abstracts

Institute of Scientific and Technical Information of China (English)

无

2005-01-01

Chinese Biological Abstracts sponsored by the Library, the Shanghai Institutes for Biological Sciences, the Biological Documentation and Information Network, all of the Chinese Academy of Sciences, commenced publication in 1987 and was initiated to provide access to the Chinese information in the field of biology.

Wireless-accessible sensor populations for monitoring biological variables

NARCIS (Netherlands)

Mazzu, Marco; Scalvini, Simonetta; Giordano, A.; Frumento, E.; Wells, Hannah; Lokhorst, C.; Glisenti, Fulvio

2008-01-01

The current health-care infrastructure is generally considered to be inadequate to meet the needs of an increasingly older population. We have investigated the feasibility of a passive in-home monitoring system based on wireless accessible sensor populations (WASP). In an EU-funded project we have

Web accessibility standards and disability: developing critical perspectives on accessibility.

Science.gov (United States)

Lewthwaite, Sarah

2014-01-01

Currently, dominant web accessibility standards do not respect disability as a complex and culturally contingent interaction; recognizing that disability is a variable, contrary and political power relation, rather than a biological limit. Against this background there is clear scope to broaden the ways in which accessibility standards are understood, developed and applied. Commentary. The values that shape and are shaped by legislation promote universal, statistical and automated approaches to web accessibility. This results in web accessibility standards conveying powerful norms fixing the relationship between technology and disability, irrespective of geographical, social, technological or cultural diversity. Web accessibility standards are designed to enact universal principles; however, they express partial and biopolitical understandings of the relation between disability and technology. These values can be limiting, and potentially counter-productive, for example, for the majority of disabled people in the "Global South" where different contexts constitute different disabilities and different experiences of web access. To create more robust, accessible outcomes for disabled people, research and standards practice should diversify to embrace more interactional accounts of disability in different settings. Implications for Rehabilitation Creating accessible experiences is an essential aspect of rehabilitation. Web standards promote universal accessibility as a property of an online resource or service. This undervalues the importance of the user's intentions, expertize, their context, and the complex social and cultural nature of disability. Standardized, universal approaches to web accessibility may lead to counterproductive outcomes for disabled people whose impairments and circumstances do not meet Western disability and accessibility norms. Accessible experiences for rehabilitation can be enhanced through an additional focus on holistic approaches to

Synthetic biology and biosecurity: challenging the ‘myths’

Directory of Open Access Journals (Sweden)

Catherine eJefferson

2014-08-01

Full Text Available Synthetic biology, a field that aims to ‘make biology easier to engineer’, is routinely described as leading to an increase in the ‘dual use’ threat, i.e. the potential for the same piece of scientific research to be ‘used’ for peaceful purposes or ‘misused’ for warfare or terrorism. Fears have been expressed that the ‘de-skilling’ of biology, combined with online access to the genomic DNA sequences of pathogenic organisms and the reduction in price for DNA synthesis, will make biology increasingly accessible to people operating outside well-equipped professional research laboratories, including people with malevolent intentions. The emergence of DIY biology communities and of the student iGEM competition has come to epitomize this supposed trend towards greater ease of access and the associated potential threat from rogue actors. In this article, we identify 5 ‘myths’ that permeate discussions about synthetic biology and biosecurity, and argue that they embody misleading assumptions about both synthetic biology and bioterrorism. We demonstrate how these myths are challenged by more realistic understandings of the scientific research currently being conducted in both professional and DIY laboratories, and by an analysis of historical cases of bioterrorism. We show that the importance of tacit knowledge is commonly overlooked in the dominant narrative: the focus is on access to biological materials and digital information, rather than on human practices and institutional dimensions. As a result, public discourse on synthetic biology and biosecurity tends to portray speculative scenarios about the future as realities in the present or the near future, when this is not warranted. We suggest that these ‘myths’ play an important role in defining synthetic biology as a ‘promissory’ field of research and as an ‘emerging technology’ in need of governance.

Synthetic Biology and Biosecurity: Challenging the “Myths”

Science.gov (United States)

Jefferson, Catherine; Lentzos, Filippa; Marris, Claire

2014-01-01

Synthetic biology, a field that aims to “make biology easier to engineer,” is routinely described as leading to an increase in the “dual-use” threat, i.e., the potential for the same scientific research to be “used” for peaceful purposes or “misused” for warfare or terrorism. Fears have been expressed that the “de-skilling” of biology, combined with online access to the genomic DNA sequences of pathogenic organisms and the reduction in price for DNA synthesis, will make biology increasingly accessible to people operating outside well-equipped professional research laboratories, including people with malevolent intentions. The emergence of do-it-yourself (DIY) biology communities and of the student iGEM competition has come to epitomize this supposed trend toward greater ease of access and the associated potential threat from rogue actors. In this article, we identify five “myths” that permeate discussions about synthetic biology and biosecurity, and argue that they embody misleading assumptions about both synthetic biology and bioterrorism. We demonstrate how these myths are challenged by more realistic understandings of the scientific research currently being conducted in both professional and DIY laboratories, and by an analysis of historical cases of bioterrorism. We show that the importance of tacit knowledge is commonly overlooked in the dominant narrative: the focus is on access to biological materials and digital information, rather than on human practices and institutional dimensions. As a result, public discourse on synthetic biology and biosecurity tends to portray speculative scenarios about the future as realities in the present or the near future, when this is not warranted. We suggest that these “myths” play an important role in defining synthetic biology as a “promissory” field of research and as an “emerging technology” in need of governance. PMID:25191649

Comparative Study on Interaction of Form and Motion Processing Streams by Applying Two Different Classifiers in Mechanism for Recognition of Biological Movement

Science.gov (United States)

2014-01-01

Research on psychophysics, neurophysiology, and functional imaging shows particular representation of biological movements which contains two pathways. The visual perception of biological movements formed through the visual system called dorsal and ventral processing streams. Ventral processing stream is associated with the form information extraction; on the other hand, dorsal processing stream provides motion information. Active basic model (ABM) as hierarchical representation of the human object had revealed novelty in form pathway due to applying Gabor based supervised object recognition method. It creates more biological plausibility along with similarity with original model. Fuzzy inference system is used for motion pattern information in motion pathway creating more robustness in recognition process. Besides, interaction of these paths is intriguing and many studies in various fields considered it. Here, the interaction of the pathways to get more appropriated results has been investigated. Extreme learning machine (ELM) has been implied for classification unit of this model, due to having the main properties of artificial neural networks, but crosses from the difficulty of training time substantially diminished in it. Here, there will be a comparison between two different configurations, interactions using synergetic neural network and ELM, in terms of accuracy and compatibility. PMID:25276860

Comparative Study on Interaction of Form and Motion Processing Streams by Applying Two Different Classifiers in Mechanism for Recognition of Biological Movement

Directory of Open Access Journals (Sweden)

Bardia Yousefi

2014-01-01

Full Text Available Research on psychophysics, neurophysiology, and functional imaging shows particular representation of biological movements which contains two pathways. The visual perception of biological movements formed through the visual system called dorsal and ventral processing streams. Ventral processing stream is associated with the form information extraction; on the other hand, dorsal processing stream provides motion information. Active basic model (ABM as hierarchical representation of the human object had revealed novelty in form pathway due to applying Gabor based supervised object recognition method. It creates more biological plausibility along with similarity with original model. Fuzzy inference system is used for motion pattern information in motion pathway creating more robustness in recognition process. Besides, interaction of these paths is intriguing and many studies in various fields considered it. Here, the interaction of the pathways to get more appropriated results has been investigated. Extreme learning machine (ELM has been implied for classification unit of this model, due to having the main properties of artificial neural networks, but crosses from the difficulty of training time substantially diminished in it. Here, there will be a comparison between two different configurations, interactions using synergetic neural network and ELM, in terms of accuracy and compatibility.

Facilities for external radiation accessible for investigation on biological studies - progress report may 2004; Les installations d'irradiation externe accessibles aux etudes de biologie - etat d'avancement mai 2004

Energy Technology Data Exchange (ETDEWEB)

Gaillard-Lecanu, E. [CEA Fontenay aux Roses (DSV/Carmin), 92 (France); Authier, N.; Verrey, B. [CEA Valduc, Dept. Recherche sur les Materiaux Nucleaires, 21 - Is-sur-Tille (France); Bailly, I. [CEA Bruyeres le Chatel, 91 (France). Dept. de Physique Theorique et Appliquee; Baldacchino, G.; Pin, S.; Pommeret, S.; Renault, J.Ph. [CEA Saclay, Dept. de Recherche sur Etat Condense, les Atomes et les Molecules, 91 - Gif sur Yvette (France); Bordy, J.M. [CEA Saclay, Dir. de la Recherche Technologique (DRT/DETECS/LNHB/LMD), 91 - Gif sur Yvette (France); Coffigny, H. [CEA Fontenay aux Roses, Dept. de Radiobiologie et de Radiopathologie, 92 (France); Cortela, L. [CEA Grenoble, ARC-Nucleart, 38 (France); Duval, D. [CEA Saclay, Schering - CIS bio International, 91 - Gif sur Yvette (France); Leplat, J.J. [CEA Saclay (DSV/DRR/LREG), 91 - Gif sur Yvette (France); Poncy, J.L. [CEA Fontenay aux Roses (DSV/DRR/SRCA), 92 (France); Testard, I. [CEA Caen (DSV/DRR/LRO-LARIA), 14 - Caen (France); Thuret, J.Y. [CEA Saclay (DSV/DBJC/SBGM), 91 - Gif sur Yvette (France)

2004-07-01

The Life Science Division of the Atomic Energy Commission is making an inventory of the various radiation sources accessible for investigation on the biological effects of ionizing radiation. In this field, a wide range of studies is being carried out at the Life Science Division, attempting to characterize the kind of lesions with their early biological consequences (on the various cell compartments) and their late biological consequences (deterministic or stochastic effects), in relation to the radiation type and dose, especially at low doses. Several experimental models are available: plants, bacteria, eukaryotic cells from yeast up to mammalian cells and in vivo studies, mostly on rodents, in order to characterize the somatic late effects and the hereditary effects. Due to the significant cost of these facilities, also to their specific properties (nature of the radiation, dose and dose rate, possible accuracy of the irradiation at the molecular level), the closeness is no longer the only criteria for biologists to make a choice. The current evolution is to set up irradiation infrastructures combining ionizing radiation sources themselves and specific tools dedicated to biological studies: cell or molecular biology laboratories, animal facilities. The purpose, in this new frame, is to provide biologists with the most suitable facilities, and, if possible, to change these facilities according to requirements in radiobiology. In this report, the basics of interactions of ionizing radiation with biological tissues are briefly introduced, followed by a presentation of some of the facilities available at the CEA for radiobiological studies. This panorama is not a comprehensive one, new data will be included as they advance, whether reporting existing facilities or if a new one is developed. (authors)

Selenium and arsenic in biology: their chemical forms and biological functions.

Science.gov (United States)

Shibata, Y; Morita, M; Fuwa, K

1992-01-01

Based on the recent development of analytical methods, sensitive systems for the analysis and speciation of selenium and arsenic have been established. A palladium addition technique was developed for the accurate determination of selenium in biological samples using graphite furnace atomic absorption analysis. For the speciation of the elements, combined methods of HPLC either with ICP-AES or with ICP-MS were found to work well. These systems were applied to the elucidation of the chemical form of the elements in natural samples. Some chemical properties of the selenium-mercury complex in dolphin liver were elucidated: i.e., it was a cationic, water-soluble, low molecular weight compound containing selenium and mercury in a 1:1 molar ratio, and was shown to be different from a known selenium-mercury complex, bis(methylmercuric)selenide. The major selenium compound excreted in human urine was revealed to be other than any of those previously identified (TMSe, selenate, and selenite). TMSe, a suspected major metabolite in urine, was found, if at all, in low levels. The major water-soluble, and lipid-soluble arsenic compounds in a brown seaweed, U. pinnatifida (WAKAME), were rigorously identified, and the results were compared with other data on marine algae and animals. The major organic arsenic compounds (termed "arseno-sugars") in marine algae commonly contain 5-deoxy-5-dimethylarsinyl-ribofuranoside moiety. There are various kinds of arseno-sugar derivatives containing different side-chains attached to the anomeric position of the sugar, and the distribution of each arsenic species seems to be related to algal species. The arseno-sugar (A-XI) is present in every alga so far examined, is metabolized to lipids, and possibly may play some specific role in the algal cells. On the other hand, the major arsenic compound in fish, crustacea and molluscs has been identified as arsenobetaine, which is an arseno-analog of glycinebetaine, a very common osmo-regulator in

The AAS Working Group on Accessibility and Disability (WGAD) Year 1 Highlights and Database Access

Science.gov (United States)

Knierman, Karen A.; Diaz Merced, Wanda; Aarnio, Alicia; Garcia, Beatriz; Monkiewicz, Jacqueline A.; Murphy, Nicholas Arnold

2017-06-01

The AAS Working Group on Accessibility and Disability (WGAD) was formed in January of 2016 with the express purpose of seeking equity of opportunity and building inclusive practices for disabled astronomers at all educational and career stages. In this presentation, we will provide a summary of current activities, focusing on developing best practices for accessibility with respect to astronomical databases, publications, and meetings. Due to the reliance of space sciences on databases, it is important to have user centered design systems for data retrieval. The cognitive overload that may be experienced by users of current databases may be mitigated by use of multi-modal interfaces such as xSonify. Such interfaces would be in parallel or outside the original database and would not require additional software efforts from the original database. WGAD is partnering with the IAU Commission C1 WG Astronomy for Equity and Inclusion to develop such accessibility tools for databases and methods for user testing. To collect data on astronomical conference and meeting accessibility considerations, WGAD solicited feedback from January AAS attendees via a web form. These data, together with upcoming input from the community and analysis of accessibility documents of similar conferences, will be used to create a meeting accessibility document. Additionally, we will update the progress of journal access guidelines and our social media presence via Twitter. We recommend that astronomical journals form committees to evaluate the accessibility of their publications by performing user-centered usability studies.

Genelab: Scientific Partnerships and an Open-Access Database to Maximize Usage of Omics Data from Space Biology Experiments

Science.gov (United States)

Reinsch, S. S.; Galazka, J..; Berrios, D. C; Chakravarty, K.; Fogle, H.; Lai, S.; Bokyo, V.; Timucin, L. R.; Tran, P.; Skidmore, M.

2016-01-01

NASA's mission includes expanding our understanding of biological systems to improve life on Earth and to enable long-duration human exploration of space. The GeneLab Data System (GLDS) is NASA's premier open-access omics data platform for biological experiments. GLDS houses standards-compliant, high-throughput sequencing and other omics data from spaceflight-relevant experiments. The GeneLab project at NASA-Ames Research Center is developing the database, and also partnering with spaceflight projects through sharing or augmentation of experiment samples to expand omics analyses on precious spaceflight samples. The partnerships ensure that the maximum amount of data is garnered from spaceflight experiments and made publically available as rapidly as possible via the GLDS. GLDS Version 1.0, went online in April 2015. Software updates and new data releases occur at least quarterly. As of October 2016, the GLDS contains 80 datasets and has search and download capabilities. Version 2.0 is slated for release in September of 2017 and will have expanded, integrated search capabilities leveraging other public omics databases (NCBI GEO, PRIDE, MG-RAST). Future versions in this multi-phase project will provide a collaborative platform for omics data analysis. Data from experiments that explore the biological effects of the spaceflight environment on a wide variety of model organisms are housed in the GLDS including data from rodents, invertebrates, plants and microbes. Human datasets are currently limited to those with anonymized data (e.g., from cultured cell lines). GeneLab ensures prompt release and open access to high-throughput genomics, transcriptomics, proteomics, and metabolomics data from spaceflight and ground-based simulations of microgravity, radiation or other space environment factors. The data are meticulously curated to assure that accurate experimental and sample processing metadata are included with each data set. GLDS download volumes indicate strong

International Journal of Biological and Chemical Sciences ...

African Journals Online (AJOL)

International Journal of Biological and Chemical Sciences: Advanced Search. Journal Home > International Journal of Biological and Chemical Sciences: Advanced Search. Log in or Register to get access to full text downloads.

Biology of bone and how it orchestrates the form and function of the skeleton

Science.gov (United States)

Sommerfeldt, D. W.; Rubin, C. T.

2001-01-01

The principal role of the skeleton is to provide structural support for the body. While the skeleton also serves as the body's mineral reservoir, the mineralized structure is the very basis of posture, opposes muscular contraction resulting in motion, withstands functional load bearing, and protects internal organs. Although the mass and morphology of the skeleton is defined, to some extent, by genetic determinants, it is the tissue's ability to remodel--the local resorption and formation of bone--which is responsible for achieving this intricate balance between competing responsibilities. The aim of this review is to address bone's form-function relationship, beginning with extensive research in the musculoskeletal disciplines, and focusing on several recent cellular and molecular discoveries which help understand the complex interdependence of bone cells, growth factors, physical stimuli, metabolic demands, and structural responsibilities. With a clinical and spine-oriented audience in mind, the principles of bone cell and molecular biology and physiology are presented, and an attempt has been made to incorporate epidemiologic data and therapeutic implications. Bone research remains interdisciplinary by nature, and a deeper understanding of bone biology will ultimately lead to advances in the treatment of diseases and injuries to bone itself.

FORMS OF DEMOCRACY IN EDUCATION: Open Access and Distance Education–Athens, Greece

Directory of Open Access Journals (Sweden)

Reviewed by Antonis LIONARAKIS

2008-01-01

Full Text Available The 4th International Conference in Open and Distance Learning - Forms of Democracy in Education: Open Access and Distance Education (ICODL 2007 had a special role to play this time: it was focused on the relationship between distance education and democratic principles which are connected and interrelated to eachother. These principles identify a new social role of distance education. Educational applications can be more flexible and effective when they follow some basic From the early beginning open universities and alternative forms of education have defined e democratic framework for educational systems. Their connection with the conventional educational system has influenced to a great extend new innovations in the system. With this approach we can realize that distance learning may become a bridge between these innovations and the initial ideals of democracy and human ICODL 2007 took place in Athens, Greece, from 23 to 25 of November 2007. There were 160 papers presented from 36 countries: Greece, Cyprus, Belgium, Spain, Iran,Canada, Turkey, South Africa, Italy, Palestine, France, Ireland, Japan, Nigeria,Bulgaria, USA, Austria, Finland, Pakistan, Great Britain, Ukraine, Egypt, Lithuania, Israel, India, Czech Republic, Brazil, Portugal, Botswana, Barbados–West Indies,The key–note speakers of ICODL 2007 were Professor Alan Tait, Pro-Vice-Chancellor, The Open University/UK, with the title ―What are Open Universities for?‖, Professor Michael Grahame Moore, the Pennsylvania State University and Editor of the American Journal of Distance Education with the title ―The scholarship of distance education: a review of the 40 years of growth and achievement‖ and Professor Paul Clark, Senior Research Fellow in the IET at the UK Open University with the title

Biological Behavior of Osteoblast Cell and Apatite Forming Ability of the Surface Modified Ti Alloys.

Science.gov (United States)

Zhao, Jingming; Hwang, K H; Choi, W S; Shin, S J; Lee, J K

2016-02-01

Titanium as one kind of biomaterials comes in direct contact with the body, making evaluation of biocompatibility an important aspect to biomaterials development. Surface chemistry of titanium plays an important role in osseointegration. Different surface modification alters the surface chemistry and result in different biological response. In this study, three kinds of mixed acid solutions were used to treat Ti specimens to induce Ca-P formation. Following a strong mixed acid activation process, Ca-P coating successfully formed on the Ti surfaces in simulated body fluid. Strong mixed acid increased the roughness of the metal surface, because the porous and rough surface allows better adhesion between Ca-P coatings and substrates. After modification of titanium surface by mixed acidic solution and subsequently H2O2/HCL treatment evaluation of biocompatibility was conducted from hydroxyapatite formation by biomimetic process and cell viability on modified titanium surface. Nano-scale modification of titanium surfaces can alter cellular and tissue responses, which may benefit osseointegration and dental implant therapy. Results from this study indicated that surface treatment methods affect the surface morphology, type of TiO2 layer formed and subsequent apatite deposition and biological responses. The thermo scientific alamarblue cell viability assay reagent is used to quantitatively measure the viability of mammalian cell lines, bacteria and fungi by incorporating a rapid, sensitive and reliable fluorometric/colorimetric growth indicator, without any toxic and side effect to cell line. In addition, mixed acid treatment uses a lower temperature and shorter time period than widely used alkali treatment.

Design of the RFID for Storage of Biological Information

Directory of Open Access Journals (Sweden)

Sang-Hee Son

2009-02-01

Full Text Available Recent advances in RFID (radio frequency identification technology promises to create a wireless circuitry capable of interfacing with biological systems for acquisition, identification and processing of biological data based on radio frequency interaction. Thus, the RFID tag can be attached not only to consumer products and form part of the supply chain, but also to animals, plants and in particular human body. This paper describes the strategy for the design of a novel RFID tag, which stores vital biological information such as body temperature and blood pressure and heartbeat in accordance with the EPC global Class-1 standard. Biological data is obtained from a sensor technology that is based on resistance deviation-to-pulse width converter. The integrated chip consists of an analog front end, command interpreter, collision avoidance block, data storage, sensors, and interface circuitry. The system is capable of supporting heartbeats in the range of 40~200 beats per a minute and blood pressure 0~300mmHg. The proposed system employs collision free algorithm that supports access to single tag within a multiple tag environment. The approach facilitates intelligent management of patients in hospitals as part of an integrated healthcare management system.

Archives: Egyptian Journal of Biology

African Journals Online (AJOL)

Items 1 - 17 of 17 ... Archives: Egyptian Journal of Biology. Journal Home > Archives: Egyptian Journal of Biology. Log in or Register to get access to full text downloads. Username, Password, Remember me, or Register · Journal Home · ABOUT THIS JOURNAL · Advanced Search · Current Issue · Archives. 1 - 17 of 17 Items ...

Paradigms for biologically inspired design

DEFF Research Database (Denmark)

Lenau, T. A.; Metzea, A.-L.; Hesselberg, T.

2018-01-01

engineering, medical engineering, nanotechnology, photonics,environmental protection and agriculture. However, a major obstacle for the wider use of biologically inspired design isthe knowledge barrier that exist between the application engineers that have insight into how to design suitable productsand......Biologically inspired design is attracting increasing interest since it offers access to a huge biological repository of wellproven design principles that can be used for developing new and innovative products. Biological phenomena can inspireproduct innovation in as diverse areas as mechanical...... the biologists with detailed knowledge and experience in understanding how biological organisms function in theirenvironment. The biologically inspired design process can therefore be approached using different design paradigmsdepending on the dominant opportunities, challenges and knowledge characteristics...

Biology Education Delivery for Attaining Health-specific Millennium ...

African Journals Online (AJOL)

Biology Education Delivery for Attaining Health-specific Millennium ... PROMOTING ACCESS TO AFRICAN RESEARCH ... This study investigated the strategies for ensuring effective delivery of Biology Education at the secondary school level ...

Optimization and validation of spectrophotometric methods for determination of finasteride in dosage and biological forms

Science.gov (United States)

Amin, Alaa S.; Kassem, Mohammed A.

2012-01-01

Aim and Background: Three simple, accurate and sensitive spectrophotometric methods for the determination of finasteride in pure, dosage and biological forms, and in the presence of its oxidative degradates were developed. Materials and Methods: These methods are indirect, involve the addition of excess oxidant potassium permanganate for method A; cerric sulfate [Ce(SO4)2] for methods B; and N-bromosuccinimide (NBS) for method C of known concentration in acid medium to finasteride, and the determination of the unreacted oxidant by measurement of the decrease in absorbance of methylene blue for method A, chromotrope 2R for method B, and amaranth for method C at a suitable maximum wavelength, λmax: 663, 528, and 520 nm, for the three methods, respectively. The reaction conditions for each method were optimized. Results: Regression analysis of the Beer plots showed good correlation in the concentration ranges of 0.12–3.84 μg mL–1 for method A, and 0.12–3.28 μg mL–1 for method B and 0.14 – 3.56 μg mL–1 for method C. The apparent molar absorptivity, Sandell sensitivity, detection and quantification limits were evaluated. The stoichiometric ratio between the finasteride and the oxidant was estimated. The validity of the proposed methods was tested by analyzing dosage forms and biological samples containing finasteride with relative standard deviation ≤ 0.95. Conclusion: The proposed methods could successfully determine the studied drug with varying excess of its oxidative degradation products, with recovery between 99.0 and 101.4, 99.2 and 101.6, and 99.6 and 101.0% for methods A, B, and C, respectively. PMID:23781478

International Journal of Biological and Chemical Sciences: Contact

African Journals Online (AJOL)

International Journal of Biological and Chemical Sciences: Contact. Journal Home > About the Journal > International Journal of Biological and Chemical Sciences: Contact. Log in or Register to get access to full text downloads.

Patterns of citations of open access and non-open access conservation biology journal papers and book chapters.

Science.gov (United States)

Calver, Michael C; Bradley, J Stuart

2010-06-01

Open access (OA) publishing, whereby authors, their institutions, or their granting bodies pay or provide a repository through which peer-reviewed work is available online for free, is championed as a model to increase the number of citations per paper and disseminate results widely, especially to researchers in developing countries. We compared the number of citations of OA and non-OA papers in six journals and four books published since 2000 to test whether OA increases number of citations overall and increases citations made by authors in developing countries. After controlling for type of paper (e.g., review or research paper), length of paper, authors' citation profiles, number of authors per paper, and whether the author or the publisher released the paper in OA, OA had no statistically significant influence on the overall number of citations per journal paper. Journal papers were cited more frequently if the authors had published highly cited papers previously, were members of large teams of authors, or published relatively long papers, but papers were not cited more frequently if they were published in an OA source. Nevertheless, author-archived OA book chapters accrued up to eight times more citations than chapters in the same book that were not available through OA, perhaps because there is no online abstracting service for book chapters. There was also little evidence that journal papers or book chapters published in OA received more citations from authors in developing countries relative to those journal papers or book chapters not published in OA. For scholarly publications in conservation biology, only book chapters had an OA citation advantage, and OA did not increase the number of citations papers or chapters received from authors in developing countries.

Attracted to open access journals: A bibliometric author analysis in the field of biology

DEFF Research Database (Denmark)

Faber Frandsen, Tove

2009-01-01

Purpose - Scholars from developing countries have limited access to research publications due to expensive subscription costs. However, the open access movement is challenging the constraint to access. Consequently, researchers in developing countries are often mentioned as major recipients...... of the benefits when advocating open access (OA). One of the implications of that argument is that authors from developing countries are more likely to perceive open access positively than authors from developed countries. The present study aims to investigate the use of open access by researchers from developing...... countries and is thus a supplement to the existing author surveys and interviews. Design/methodology/approach - Bibliometric analyses of both publishing behaviour and citing behaviour in relation to OA publishing provides evidence of the impact of open access on developing countries. Findings - The results...

International Journal of Biological and Chemical Sciences: About ...

African Journals Online (AJOL)

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The Promises of Biology and the Biology of Promises

DEFF Research Database (Denmark)

Lee, Jieun

2015-01-01

commitments with differently imagined futures. I argue that promises are constitutive of the stem cell biology, rather than being derivative of it. Since the biological concept of stem cells is predicated on the future that they promise, the biological life of stem cells is inextricably intertwined...... patients’ bodies in anticipation of materializing the promises of stem cell biology, they are produced as a new form of biovaluable. The promises of biology move beyond the closed circuit of scientific knowledge production, and proliferate in the speculative marketplaces of promises. Part II looks at how...... of technologized biology and biological time can appear promising with the backdrop of the imagined intransigence of social, political, and economic order in the Korean society....

Archives: International Journal of Biological and Chemical Sciences

African Journals Online (AJOL)

Items 1 - 50 of 61 ... Archives: International Journal of Biological and Chemical Sciences. Journal Home > Archives: International Journal of Biological and Chemical Sciences. Log in or Register to get access to full text downloads.

INFLUENCE OF BIOLOGICAL AND THERMAL TRANSFORMED SEWAGE SLUDGE APPLICATION ON MANGANESE CONTENT IN PLANTS AND SOIL

Directory of Open Access Journals (Sweden)

Małgorzata Koncewicz-Baran

2014-10-01

Full Text Available A great variety of sewage sludge treatment methods, due to the agent (chemical, biological, thermal leads to the formation of varying ‘products’ properties, including the content of heavy metals forms. The aim of the study was to determine the effects of biologically and thermally transformed sewage sludge on the manganese content in plants and form of this element in the soil. The study was based on a two-year pot experiment. In this study was used stabilized sewage sludge collected from Wastewater Treatment Plant Krakow – ”Płaszów” and its mixtures with wheat straw in the gravimetric ratio 1:1 in conversion to material dry matter, transformed biologically (composting by 117 days in a bioreactor and thermally (in the furnace chamber with no air access by the following procedure exposed to temperatures of 130 °C for 40 min → 200 °C for 30 min. In both years of the study biologically and thermally transformed mixtures of sewage sludge with wheat straw demonstrated similar impact on the amount of biomass plants to the pig manure. Bigger amounts of manganese were assessed in oat biomass than in spring rape biomass. The applied sewage sludge and its biologically and thermally converted mixtures did not significantly affect manganese content in plant biomass in comparison with the farmyard manure. The applied fertilization did not modify the values of translocation and bioaccumulation ratios of manganese in the above-ground parts and roots of spring rape and oat. No increase in the content of the available to plants forms of manganese in the soil after applying biologically and thermally transformed sewage sludge mixtures with straw was detected. In the second year, lower contents of these manganese forms were noted in the soil of all objects compared with the first year of the experiment.

Theoretical Biology and Medical Modelling: ensuring continued growth and future leadership.

Science.gov (United States)

Nishiura, Hiroshi; Rietman, Edward A; Wu, Rongling

2013-07-11

Theoretical biology encompasses a broad range of biological disciplines ranging from mathematical biology and biomathematics to philosophy of biology. Adopting a broad definition of "biology", Theoretical Biology and Medical Modelling, an open access journal, considers original research studies that focus on theoretical ideas and models associated with developments in biology and medicine.

Underway biological, meteorological, navigational, physical, profile and time series data collected aboard NOAA Ship Henry B. Bigelow in the North Atlantic Ocean from 2016-05-06 to 2016-06-05 (NCEI Accession 0153543)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — NCEI Accession 0153543 contains raw underway biological, meteorological, navigational, physical, profile and time series data logged by the Scientific Computer...

Underway biological, meteorological, navigational, physical, profile and time series data collected aboard NOAA Ship Henry B. Bigelow in the North Atlantic Ocean from 2015-09-01 to 2015-11-06 (NCEI Accession 0132052)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — NODC Accession 0132052 contains raw underway biological, meteorological, navigational, physical, profile and time series data logged by the Scientific Computer...

Underway biological, meteorological, navigational, physical, profile and time series data collected aboard NOAA Ship Henry B. Bigelow in the North Atlantic Ocean from 2015-03-13 to 2015-05-07 (NCEI Accession 0128346)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — NODC Accession 0128346 contains raw underway biological, meteorological, navigational, physical, profile and time series data logged by the Scientific Computer...

Underway biological, meteorological, navigational, physical, profile and time series data collected aboard NOAA Ship Henry B. Bigelow in the North Atlantic Ocean from 2014-03-31 to 2014-05-23 (NODC Accession 0119096)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — NODC Accession 0119096 contains raw underway biological, meteorological, navigational, physical, profile and time series data logged by the Scientific Computer...

Underway biological, meteorological, navigational, physical, profile and time series data collected aboard NOAA Ship Henry B. Bigelow in the North Atlantic Ocean from 2016-09-07 to 2016-09-23 (NCEI Accession 0164080)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — NCEI Accession 0164080 contains raw underway biological, meteorological, navigational, physical, profile and time series data logged by the Scientific Computer...

Underway biological, meteorological, navigational, physical, profile and time series data collected aboard NOAA Ship Henry B. Bigelow in the North Atlantic Ocean from 2017-03-28 to 2017-04-27 (NCEI Accession 0164797)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — NCEI Accession 0164797 contains raw underway biological, meteorological, navigational, physical, profile and time series data logged by the Scientific Computer...

Special aspects for forming the interiors of thai shopping malls through the use of the biological approach

Science.gov (United States)

Kuznetsova, Iryna O.; Rosliakova, Ljubov V.; Zakharchuk, Viktorija L.; Samosudova, Natalia

2017-10-01

This study reviews the biological approach to Thai shopping mall’s interior design planning. The authors defined the principles of the mall’s design optimization in Thailand on the basis of the imitation of biological samples at constructive, art-compositional, organizational and ecological levels. The analysis of forming the shopping malls interiors and space-planning solutions is based on the imitation of eight basic levels of organization of living things: molecules, cells, tissues, organs, organisms, populations, ecosystem and biosphere. The examples of the direct and implicit application of biological analogues were demonstrated in the architecture and design of Thai shopping malls. In the study, the shopping mall is regarded as an open self-sufficient system with a high level of autonomy and a fortified structural organization that includes various functional components. On the basis of the analysis of existing Thai shopping malls, a list of the basic requirements for the design of the malls was compiled. This corresponds to the needs and desires of the modern customer and ensures the competitiveness of the establishment. The phenomenon of multisensory design approach that enhances the psychophysical comfort of the shopping mall visitors is described. Socio-cultural and geographical factors were identified which determine the development of biodesign in Thailand. The article reveals the potential for a combination of biology and design to enhance the aesthetics, ergonomics and efficiency of the shopping malls. The prospects within the development of this field and the possibility of applying the solutions in practice were explored.

Phenomenology without conscious access is a form of consciousness without top-down attention

OpenAIRE

Koch, Christof; Tsuchiya, Naotsugu

2007-01-01

We agree with Block's basic hypothesis postulating the existence of phenomenal consciousness without cognitive access. We explain such states in terms of consciousness without top-down, endogenous attention and speculate that their correlates may be a coalition of neurons that are consigned to the back of cortex, without access to working memory and planning in frontal cortex.

The Importance of Biological Databases in Biological Discovery.

Science.gov (United States)

Baxevanis, Andreas D; Bateman, Alex

2015-06-19

Biological databases play a central role in bioinformatics. They offer scientists the opportunity to access a wide variety of biologically relevant data, including the genomic sequences of an increasingly broad range of organisms. This unit provides a brief overview of major sequence databases and portals, such as GenBank, the UCSC Genome Browser, and Ensembl. Model organism databases, including WormBase, The Arabidopsis Information Resource (TAIR), and those made available through the Mouse Genome Informatics (MGI) resource, are also covered. Non-sequence-centric databases, such as Online Mendelian Inheritance in Man (OMIM), the Protein Data Bank (PDB), MetaCyc, and the Kyoto Encyclopedia of Genes and Genomes (KEGG), are also discussed. Copyright © 2015 John Wiley & Sons, Inc.

Mailing lists are preferred to newsgroups as teaching tools for undergraduate biology classes.

Science.gov (United States)

Machart, J M; Silverthorn, D U

2000-06-01

Effective communication between instructors and students is a challenge regardless of the instructor-to-student ratio. Instructors of large classes, in particular, have resorted to various forms of Internet communication, such as mailing lists and newsgroups, to supplement class time and office hours. Mailing lists are closed discussions among subscribers who receive and send messages via an electronic mail program (e.g., Eudora). Newsgroups are public discussions to which anyone can gain access and respond via a newsreader program (e.g., Nuntius). Newsgroup messages are posted to a bulletin board that the subscriber must visit to read. Mailing lists and newsgroups share many advantages (convenience, greater anonymity, and speed of communication) and disadvantages (computer access required, impersonal nature, junk mail, and lack of graphics in older programs). However, surveys of both faculty and students in biology indicate that mailing lists are generally favored over newsgroups. Reasons given for mailing list popularity included greater familiarity with the E-mail format and ease of access.

Absence of hydrocortisone from cytoplasmic hormone-protein complexes formed in vivo after administration of biologically active doses of [3H] hydrocortisone

International Nuclear Information System (INIS)

Voigt, J.; Grote, H.; Sekeris, C.E.

1981-01-01

After administration of [ 3 H] hydrocortisone to adrenalectomized rats, hormone-protein complexes were isolated from liver cytosol by DEAE-cellulose chromatography. After application of biologically active and inactive doses of hydrocortisone five binding components were detected eluting at the same salt concentrations as the hormone-protein complexes observed after incubation of cytosol with [ 3 H] hydrocortisone in vitro. The isolated hormone-protein fractions were acidified and extracted with ethylacetate and the steroids were analyzed by thin-layer chromatography. No significant amount of hydrocortisone could be detected in any of the complexes formed in vivo 5-60 min after administration of biologically active doses of hydrocortisone. 3xi,11β,17α,20xi, 21-Pentahydroxypregnane, steroidal carboxy acids, glucuronides and a very polar conjugate of hydrocortisone were found in the different fractions. After an in vivo dose of hydrocortisone of about 1/5000th of the minimal dose required for enzyme induction, hydrocortisone could be found in all the cytoplasmic hormone-protein complexes formed. In contrast to the cytoplasmic hormone-protein complexes, hydrocortisone could be readily demonstrated in nuclei isolated after the administration of biologically active doses of hormone, although acid metabolites were found to represent the main part of the radioactive compounds present in the nuclei. These acid metabolites were located in the nuclear envelope. (orig.)

beachmat: A Bioconductor C++ API for accessing high-throughput biological data from a variety of R matrix types.

Directory of Open Access Journals (Sweden)

Aaron T L Lun

2018-05-01

Full Text Available Biological experiments involving genomics or other high-throughput assays typically yield a data matrix that can be explored and analyzed using the R programming language with packages from the Bioconductor project. Improvements in the throughput of these assays have resulted in an explosion of data even from routine experiments, which poses a challenge to the existing computational infrastructure for statistical data analysis. For example, single-cell RNA sequencing (scRNA-seq experiments frequently generate large matrices containing expression values for each gene in each cell, requiring sparse or file-backed representations for memory-efficient manipulation in R. These alternative representations are not easily compatible with high-performance C++ code used for computationally intensive tasks in existing R/Bioconductor packages. Here, we describe a C++ interface named beachmat, which enables agnostic data access from various matrix representations. This allows package developers to write efficient C++ code that is interoperable with dense, sparse and file-backed matrices, amongst others. We evaluated the performance of beachmat for accessing data from each matrix representation using both simulated and real scRNA-seq data, and defined a clear memory/speed trade-off to motivate the choice of an appropriate representation. We also demonstrate how beachmat can be incorporated into the code of other packages to drive analyses of a very large scRNA-seq data set.

beachmat: A Bioconductor C++ API for accessing high-throughput biological data from a variety of R matrix types.

Science.gov (United States)

Lun, Aaron T L; Pagès, Hervé; Smith, Mike L

2018-05-01

Biological experiments involving genomics or other high-throughput assays typically yield a data matrix that can be explored and analyzed using the R programming language with packages from the Bioconductor project. Improvements in the throughput of these assays have resulted in an explosion of data even from routine experiments, which poses a challenge to the existing computational infrastructure for statistical data analysis. For example, single-cell RNA sequencing (scRNA-seq) experiments frequently generate large matrices containing expression values for each gene in each cell, requiring sparse or file-backed representations for memory-efficient manipulation in R. These alternative representations are not easily compatible with high-performance C++ code used for computationally intensive tasks in existing R/Bioconductor packages. Here, we describe a C++ interface named beachmat, which enables agnostic data access from various matrix representations. This allows package developers to write efficient C++ code that is interoperable with dense, sparse and file-backed matrices, amongst others. We evaluated the performance of beachmat for accessing data from each matrix representation using both simulated and real scRNA-seq data, and defined a clear memory/speed trade-off to motivate the choice of an appropriate representation. We also demonstrate how beachmat can be incorporated into the code of other packages to drive analyses of a very large scRNA-seq data set.

beachmat: A Bioconductor C++ API for accessing high-throughput biological data from a variety of R matrix types

Science.gov (United States)

Pagès, Hervé

2018-01-01

Biological experiments involving genomics or other high-throughput assays typically yield a data matrix that can be explored and analyzed using the R programming language with packages from the Bioconductor project. Improvements in the throughput of these assays have resulted in an explosion of data even from routine experiments, which poses a challenge to the existing computational infrastructure for statistical data analysis. For example, single-cell RNA sequencing (scRNA-seq) experiments frequently generate large matrices containing expression values for each gene in each cell, requiring sparse or file-backed representations for memory-efficient manipulation in R. These alternative representations are not easily compatible with high-performance C++ code used for computationally intensive tasks in existing R/Bioconductor packages. Here, we describe a C++ interface named beachmat, which enables agnostic data access from various matrix representations. This allows package developers to write efficient C++ code that is interoperable with dense, sparse and file-backed matrices, amongst others. We evaluated the performance of beachmat for accessing data from each matrix representation using both simulated and real scRNA-seq data, and defined a clear memory/speed trade-off to motivate the choice of an appropriate representation. We also demonstrate how beachmat can be incorporated into the code of other packages to drive analyses of a very large scRNA-seq data set. PMID:29723188

SWS: accessing SRS sites contents through Web Services.

Science.gov (United States)

Romano, Paolo; Marra, Domenico

2008-03-26

Web Services and Workflow Management Systems can support creation and deployment of network systems, able to automate data analysis and retrieval processes in biomedical research. Web Services have been implemented at bioinformatics centres and workflow systems have been proposed for biological data analysis. New databanks are often developed by taking into account these technologies, but many existing databases do not allow a programmatic access. Only a fraction of available databanks can thus be queried through programmatic interfaces. SRS is a well know indexing and search engine for biomedical databanks offering public access to many databanks and analysis tools. Unfortunately, these data are not easily and efficiently accessible through Web Services. We have developed 'SRS by WS' (SWS), a tool that makes information available in SRS sites accessible through Web Services. Information on known sites is maintained in a database, srsdb. SWS consists in a suite of WS that can query both srsdb, for information on sites and databases, and SRS sites. SWS returns results in a text-only format and can be accessed through a WSDL compliant client. SWS enables interoperability between workflow systems and SRS implementations, by also managing access to alternative sites, in order to cope with network and maintenance problems, and selecting the most up-to-date among available systems. Development and implementation of Web Services, allowing to make a programmatic access to an exhaustive set of biomedical databases can significantly improve automation of in-silico analysis. SWS supports this activity by making biological databanks that are managed in public SRS sites available through a programmatic interface.

New Visions on Form and Growth

International Nuclear Information System (INIS)

Howard, M

2005-01-01

It is now nearly 90 years since the publication of D'Arcy Thompson's book On Growth and Form, a classic work that attempted a unification of pattern-forming phenomena in systems ranging from inanimate to living matter. Thompson's book came early in the development of mathematical techniques in biology. His work has had enormous influence in succeeding decades and has helped inspire the rapid growth in the application of theoretical techniques to biological phenomena. Pelce's book New Visions on Form and Growth takes its inspiration and title directly from D'Arcy Thompson. Furthermore, Pelce attempts what could not be achieved in D'Arcy Thompson's time, namely the presentation of a quantitative analysis of pattern forming phenomena. However, it should be emphasised that the vast majority of this book is concerned with inanimate matter, with rather little discussion of biology. The book begins with a presentation of the basic physics, including surface tension, first-order phase transition kinetics and a brief outline of chemical kinetics. With the essential physics established, Pelce then investigates simple growth forms, before showing how these regular geometries are destabilized into more complex forms by instabilities. The problem of velocity selection of growing patterns is then extensively discussed, before the question of (secondary) instabilities of the more complex growth forms is analysed. A chapter on stochastic patterns is also included. For the most part, the book concentrates on a few intensively studied pattern forming systems in physics, particularly viscous fingering in Hele-Shaw cells, the growth of dendrites, electrodeposition, flames, and, in the chapter on stochastic patterns, diffusion-limited aggregation. Only in a rather brief final chapter is a more speculative link made with biological pattern formation and morphogenesis. In general, I found the book to be a useful reference work on the theory of pattern forming systems. However, the

Facilitating or Restraining Access To Genetic Resources? Procedural Dimensions In Kenya

Directory of Open Access Journals (Sweden)

Evanson Chege Kamau

2009-09-01

Full Text Available States have the right to regulate access to biological resources subject to national legislations. Allowing, restricting or prohibiting access, however, requires a balance to avoid contravention of the objectives of the Convention on Biological Diversity. The Convention requires that, in regulating access, the measures adopted do not become a hindrance to access. In many instances, however, this has been the case. Overreaction to previous cases of bio-piracy and over-enthusiasm to tap into the benefits from discovered genetic resources have caused many provider countries to either over-regulate or extremely complicate access procedures, thus deterring access. In some instances, over-regulation and complex procedures are to be blamed on the users’ reluctance to collaborate with providers in minimising or eliminating abuse. Also, the need to protect certain rights over genetic resources or of an intellectual (property character, for example, might at times complicate regulation. While it is appreciated that such issues must also be taken into account in addressing and creating a balance in access and benefit sharing, a discussion embracing all these aspects cannot be captured within the ambit of this article. Focus is therefore laid on the procedural dimensions of access in Kenya and suggestions for improvement.

Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems.

Science.gov (United States)

Boué, Stéphanie; Talikka, Marja; Westra, Jurjen Willem; Hayes, William; Di Fabio, Anselmo; Park, Jennifer; Schlage, Walter K; Sewer, Alain; Fields, Brett; Ansari, Sam; Martin, Florian; Veljkovic, Emilija; Kenney, Renee; Peitsch, Manuel C; Hoeng, Julia

2015-01-01

With the wealth of publications and data available, powerful and transparent computational approaches are required to represent measured data and scientific knowledge in a computable and searchable format. We developed a set of biological network models, scripted in the Biological Expression Language, that reflect causal signaling pathways across a wide range of biological processes, including cell fate, cell stress, cell proliferation, inflammation, tissue repair and angiogenesis in the pulmonary and cardiovascular context. This comprehensive collection of networks is now freely available to the scientific community in a centralized web-based repository, the Causal Biological Network database, which is composed of over 120 manually curated and well annotated biological network models and can be accessed at http://causalbionet.com. The website accesses a MongoDB, which stores all versions of the networks as JSON objects and allows users to search for genes, proteins, biological processes, small molecules and keywords in the network descriptions to retrieve biological networks of interest. The content of the networks can be visualized and browsed. Nodes and edges can be filtered and all supporting evidence for the edges can be browsed and is linked to the original articles in PubMed. Moreover, networks may be downloaded for further visualization and evaluation. Database URL: http://causalbionet.com © The Author(s) 2015. Published by Oxford University Press.

Restricted access magnetic materials prepared by dual surface modification for selective extraction of therapeutic drugs from biological fluids

Energy Technology Data Exchange (ETDEWEB)

Wang Yu; Wang Yuxia; Chen Lei [School of Pharmaceutical Science and Technology, Tianjin University, Tianjin 300072 (China); Wan Qianhong, E-mail: qhwan@tju.edu.cn [School of Pharmaceutical Science and Technology, Tianjin University, Tianjin 300072 (China)

2012-02-15

Magnetic porous particles with dual functionality have been prepared by a two-step procedure and evaluated as novel restricted access materials for extraction of therapeutic agents from biological fluids. The magnetic silica particles served as scaffolds were first modified with diol groups, which were then converted to octadecyl esters through reaction with stearoyl chloride. In the second step, the octadecyl esters on the exterior surface were hydrolyzed by the action of lipase to yield magnetic particles with hydrophobic reversed-phase ligands on the inner surface and biocompatible diol groups on the outer surface. The restricted access behavior of the resulting materials was confirmed by differential binding of small molecules such as methotrexate (MTX), leucovorin (LV) and folic acid (FA) relative to bovine serum albumin. While MTX, LV and FA were all bound to the magnetic particles with high affinity, the adsorption of the protein was markedly reduced due to size exclusion effect. The utility of the magnetic particles for sample preparation was tested in solid-phase extraction of MTX, LV and FA from spiked human serum and the effects of the SPE conditions on the recovery of the analytes were systematically studied. Moreover, the magnetic particle-based sample preparation procedure coupled with reversed-phase liquid chromatography analysis was validated in terms of specificity, linearity and reproducibility. The method was shown to be free from interference of endogenous compounds and linear over the concentration range of 0.5-10 {mu}g/mL for the three drugs studied. The limits of detection for the three drugs in serum were in the range of 0.160-0.302 {mu}g/mL. Reproducibility expressed as the RSD of the recovery for ten replicated extractions at three different concentrations was found to be less than 8.93%. With a unique combination of surface functionality with magnetic cores, the restricted access magnetic particles may be adapted in automated and high

Accessible solitons of fractional dimension

Energy Technology Data Exchange (ETDEWEB)

Zhong, Wei-Ping, E-mail: zhongwp6@126.com [Department of Electronic and Information Engineering, Shunde Polytechnic, Guangdong Province, Shunde 528300 (China); Texas A& M University at Qatar, P.O. Box 23874, Doha (Qatar); Belić, Milivoj [Texas A& M University at Qatar, P.O. Box 23874, Doha (Qatar); Zhang, Yiqi [Key Laboratory for Physical Electronics and Devices of the Ministry of Education & Shaanxi Key Lab of Information Photonic Technique, Xi’an Jiaotong University, Xi’an 710049 (China)

2016-05-15

We demonstrate that accessible solitons described by an extended Schrödinger equation with the Laplacian of fractional dimension can exist in strongly nonlocal nonlinear media. The soliton solutions of the model are constructed by two special functions, the associated Legendre polynomials and the Laguerre polynomials in the fraction-dimensional space. Our results show that these fractional accessible solitons form a soliton family which includes crescent solitons, and asymmetric single-layer and multi-layer necklace solitons. -- Highlights: •Analytic solutions of a fractional Schrödinger equation are obtained. •The solutions are produced by means of self-similar method applied to the fractional Schrödinger equation with parabolic potential. •The fractional accessible solitons form crescent, asymmetric single-layer and multilayer necklace profiles. •The model applies to the propagation of optical pulses in strongly nonlocal nonlinear media.

Preservice Biology Teachers' Conceptions about the Tentative Nature of Theories and Models in Biology

Science.gov (United States)

Reinisch, Bianca; Krüger, Dirk

2018-01-01

In research on the nature of science, there is a need to investigate the role and status of different scientific knowledge forms. Theories and models are two of the most important knowledge forms within biology and are the focus of this study. During interviews, preservice biology teachers (N = 10) were asked about their understanding of theories…

Social and economic factors for the adoption of biological control of ...

African Journals Online (AJOL)

The results also showed that the decision on the application of biological control is determined by the educational level, income, mechanization level, extension activities, biological control awareness, social participation, attitude toward biological control and access to information sources which have significant influence.

Gender and access to land in Senegal

International Development Research Centre (IDRC) Digital Library (Canada)

bequests, gifts and loans emerge as the principal means of access to land. These types of access prior to the law on state land property (assignment) still retain a large social legitimacy. Often, these forms of access (family allowance, legacy) in which men are privileged, serve as reference for local officials who administer ...

The diversification of developmental biology.

Science.gov (United States)

Crowe, Nathan; Dietrich, Michael R; Alomepe, Beverly S; Antrim, Amelia F; ByrneSim, Bay Lauris; He, Yi

2015-10-01

In the 1960s, "developmental biology" became the dominant term to describe some of the research that had previously been included under the rubrics of embryology, growth, morphology, and physiology. As scientific societies formed under this new label, a new discipline took shape. Historians, however, have a number of different perspectives on what changes led to this new field of developmental biology and how the field itself was constituted during this period. Using the General Embryological Information Service, a global index of post-World War II development-related research, we have documented and visualized significant changes in the kinds of research that occurred as this new field formed. In particular, our analysis supports the claim that the transition toward developmental biology was marked by a growth in new topics and forms of research. Although many historians privilege the role of molecular biology and/or the molecularization of biology in general during this formative period, we have found that the influence of molecular biology is not sufficient to account for the wide range of new research that constituted developmental biology at the time. Overall, our work creates a robust characterization of the changes that occurred with regard to research on growth and development in the decades following World War II and provides a context for future work on the specific drivers of those changes. Copyright © 2015 Elsevier Ltd. All rights reserved.

Redox Biology Course Registration Form | Center for Cancer Research

Science.gov (United States)

The Redox Biology class is open to all NIH/NCI fellows and staff and will be held Septhember 27 - November 8, 2016. The last day to register is: September 21, 2016. The first 100 registrants will be accepted for the class. Those who plan to participate by Video TeleConference should also register so that you can receive the speaker handouts in advance.

NSF-Sponsored Biological and Chemical Oceanography Data Management Office

Science.gov (United States)

Allison, M. D.; Chandler, C. L.; Copley, N.; Galvarino, C.; Gegg, S. R.; Glover, D. M.; Groman, R. C.; Wiebe, P. H.; Work, T. T.; Biological; Chemical Oceanography Data Management Office

2010-12-01

Ocean biogeochemistry and marine ecosystem research projects are inherently interdisciplinary and benefit from improved access to well-documented data. Improved data sharing practices are important to the continued exploration of research themes that are a central focus of the ocean science community and are essential to interdisciplinary and international collaborations that address complex, global research themes. In 2006, the National Science Foundation Division of Ocean Sciences (NSF OCE) funded the Biological and Chemical Oceanography Data Management Office (BCO-DMO) to serve the data management requirements of scientific investigators funded by the National Science Foundation’s Biological and Chemical Oceanography Sections. BCO-DMO staff members work with investigators to manage marine biogeochemical, ecological, and oceanographic data and information developed in the course of scientific research. These valuable data sets are documented, stored, disseminated, and protected over short and intermediate time frames. One of the goals of the BCO-DMO is to facilitate regional, national, and international data and information exchange through improved data discovery, access, display, downloading, and interoperability. In May 2010, NSF released a statement to the effect that in October 2010, it is planning to require that all proposals include a data management plan in the form of a two-page supplementary document. The data management plan would be an element of the merit review process. NSF has long been committed to making data from NSF-funded research publicly available and the new policy will strengthen this commitment. BCO-DMO is poised to assist in creating the data management plans and in ultimately serving the data and information resulting from NSF OCE funded research. We will present an overview of the data management system capabilities including: geospatial and text-based data discovery and access systems; recent enhancements to data search tools; data

The role of informatics in the coordinated management of biological resources collections.

Science.gov (United States)

Romano, Paolo; Kracht, Manfred; Manniello, Maria Assunta; Stegehuis, Gerrit; Fritze, Dagmar

2005-01-01

The term 'biological resources' is applied to the living biological material collected, held and catalogued in culture collections: bacterial and fungal cultures; animal, human and plant cells; viruses; and isolated genetic material. A wealth of information on these materials has been accumulated in culture collections, and most of this information is accessible. Digitalisation of data has reached a high level; however, information is still dispersed. Individual and coordinated approaches have been initiated to improve accessibility of biological resource centres, their holdings and related information through the Internet. These approaches cover subjects such as standardisation of data handling and data accessibility, and standardisation and quality control of laboratory procedures. This article reviews some of the most important initiatives implemented so far, as well as the most recent achievements. It also discusses the possible improvements that could be achieved by adopting new communication standards and technologies, such as web services, in view of a deeper and more fruitful integration of biological resources information in the bioinformatics network environment.

Vascular cemeteries formed by biological nanoparticles

Energy Technology Data Exchange (ETDEWEB)

Sommer, Andrei P., E-mail: andrei.sommer@uni-ulm.de [University of Ulm, Institute of Micro and Nanomaterials (Germany); Tsurumoto, Toshiyuki [Nagasaki University, Department of Macroscopic Anatomy, Graduate School of Biomedical Science (Japan)

2013-04-15

We report the discovery of dense colonies of globular structures ranging from 100 nm to 5 {mu}m in the tunica media of the femoral artery of an 89-year-old female cadaver. Systematic analysis using scanning electron microscopy, energy dispersive X-ray spectroscopy and light microscopy reveals that the globular structures are surrounded by vascular smooth muscle cells (VSMCs) and consist predominantly of calcium phosphate. Inspection of the images suggests the action of two complementary growth processes. The structures may grow both in size and in number locally by Ostwald ripening and a replicative route, respectively. Morphology in conjunction with the quality of their native growth niche suggests that they are different from nanocrystals released from apoptotic bodies. Their tendency to fill VSMC pockets leads to the speculation that they could represent an effort of the VSMC system to wall off cytotoxic nanocrystals liberated from apoptotic bodies. Alternatively, the structures may be equivalent with nanobacteria (NB)-a nomenclature which caused confusion. This is reflected by the multitude of names used by different authors for the nanoentities (living nanovesicles, nanobionta, calcifying nanoparticles, and nanons). Indeed, there is no clear definition in the literature as to what NB are. Considering that the calcium phosphate nanoparticles have been identified in the human body, we used in our study the descriptive name biological nanoparticles-the world's first nanoparticles.

Approaches to chemical synthetic biology.

Science.gov (United States)

Chiarabelli, Cristiano; Stano, Pasquale; Anella, Fabrizio; Carrara, Paolo; Luisi, Pier Luigi

2012-07-16

Synthetic biology is first represented in terms of two complementary aspects, the bio-engineering one, based on the genetic manipulation of extant microbial forms in order to obtain forms of life which do not exist in nature; and the chemical synthetic biology, an approach mostly based on chemical manipulation for the laboratory synthesis of biological structures that do not exist in nature. The paper is mostly devoted to shortly review chemical synthetic biology projects currently carried out in our laboratory. In particular, we describe: the minimal cell project, then the "Never Born Proteins" and lastly the Never Born RNAs. We describe and critically analyze the main results, emphasizing the possible relevance of chemical synthetic biology for the progress in basic science and biotechnology. Copyright © 2012 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

Biology-inspired AMO physics

Science.gov (United States)

Mathur, Deepak

2015-01-01

This Topical Review presents an overview of increasingly robust interconnects that are being established between atomic, molecular and optical (AMO) physics and the life sciences. AMO physics, outgrowing its historical role as a facilitator—a provider of optical methodologies, for instance—now seeks to partner biology in its quest to link systems-level descriptions of biological entities to insights based on molecular processes. Of course, perspectives differ when AMO physicists and biologists consider various processes. For instance, while AMO physicists link molecular properties and dynamics to potential energy surfaces, these have to give way to energy landscapes in considerations of protein dynamics. But there are similarities also: tunnelling and non-adiabatic transitions occur both in protein dynamics and in molecular dynamics. We bring to the fore some such differences and similarities; we consider imaging techniques based on AMO concepts, like 4D fluorescence microscopy which allows access to the dynamics of cellular processes, multiphoton microscopy which offers a built-in confocality, and microscopy with femtosecond laser beams to saturate the suppression of fluorescence in spatially controlled fashion so as to circumvent the diffraction limit. Beyond imaging, AMO physics contributes with optical traps that probe the mechanical and dynamical properties of single ‘live’ cells, highlighting differences between healthy and diseased cells. Trap methodologies have also begun to probe the dynamics governing of neural stem cells adhering to each other to form neurospheres and, with squeezed light to probe sub-diffusive motion of yeast cells. Strong field science contributes not only by providing a source of energetic electrons and γ-rays via laser-plasma accelerations schemes, but also via filamentation and supercontinuum generation, enabling mainstream collision physics into play in diverse processes like DNA damage induced by low-energy collisions to

Adapting federated cyberinfrastructure for shared data collection facilities in structural biology.

Science.gov (United States)

Stokes-Rees, Ian; Levesque, Ian; Murphy, Frank V; Yang, Wei; Deacon, Ashley; Sliz, Piotr

2012-05-01

Early stage experimental data in structural biology is generally unmaintained and inaccessible to the public. It is increasingly believed that this data, which forms the basis for each macromolecular structure discovered by this field, must be archived and, in due course, published. Furthermore, the widespread use of shared scientific facilities such as synchrotron beamlines complicates the issue of data storage, access and movement, as does the increase of remote users. This work describes a prototype system that adapts existing federated cyberinfrastructure technology and techniques to significantly improve the operational environment for users and administrators of synchrotron data collection facilities used in structural biology. This is achieved through software from the Virtual Data Toolkit and Globus, bringing together federated users and facilities from the Stanford Synchrotron Radiation Lightsource, the Advanced Photon Source, the Open Science Grid, the SBGrid Consortium and Harvard Medical School. The performance and experience with the prototype provide a model for data management at shared scientific facilities.

Restricted access magnetic materials prepared by dual surface modification for selective extraction of therapeutic drugs from biological fluids

Science.gov (United States)

Wang, Yu; Wang, Yuxia; Chen, Lei; Wan, Qian-Hong

2012-02-01

Magnetic porous particles with dual functionality have been prepared by a two-step procedure and evaluated as novel restricted access materials for extraction of therapeutic agents from biological fluids. The magnetic silica particles served as scaffolds were first modified with diol groups, which were then converted to octadecyl esters through reaction with stearoyl chloride. In the second step, the octadecyl esters on the exterior surface were hydrolyzed by the action of lipase to yield magnetic particles with hydrophobic reversed-phase ligands on the inner surface and biocompatible diol groups on the outer surface. The restricted access behavior of the resulting materials was confirmed by differential binding of small molecules such as methotrexate (MTX), leucovorin (LV) and folic acid (FA) relative to bovine serum albumin. While MTX, LV and FA were all bound to the magnetic particles with high affinity, the adsorption of the protein was markedly reduced due to size exclusion effect. The utility of the magnetic particles for sample preparation was tested in solid-phase extraction of MTX, LV and FA from spiked human serum and the effects of the SPE conditions on the recovery of the analytes were systematically studied. Moreover, the magnetic particle-based sample preparation procedure coupled with reversed-phase liquid chromatography analysis was validated in terms of specificity, linearity and reproducibility. The method was shown to be free from interference of endogenous compounds and linear over the concentration range of 0.5-10 μg/mL for the three drugs studied. The limits of detection for the three drugs in serum were in the range of 0.160-0.302 μg/mL. Reproducibility expressed as the RSD of the recovery for ten replicated extractions at three different concentrations was found to be less than 8.93%. With a unique combination of surface functionality with magnetic cores, the restricted access magnetic particles may be adapted in automated and high

Synthetic biology and biosecurity: challenging the "myths".

OpenAIRE

Jefferson, C; Lentzos, F; Marris, C

2014-01-01

15.10.14 KB. Ok to add published version to spiral, OA paper under cc by Synthetic biology, a field that aims to make biology easier to engineer, is routinely described as leading to an increase in the dual-use threat, i.e., the potential for the same scientific research to be used for peaceful purposes or misused for warfare or terrorism. Fears have been expressed that the de-skilling of biology, combined with online access to the genomic DNA sequences of pathogenic organisms an...

Electrochemical and biological characterization of coatings formed on Ti-15Mo alloy by plasma electrolytic oxidation.

Science.gov (United States)

Kazek-Kęsik, Alicja; Krok-Borkowicz, Małgorzata; Pamuła, Elżbieta; Simka, Wojciech

2014-10-01

β-Type titanium alloys are considered the future materials for bone implants. To improve the bioactivity of Ti-15Mo, the surface was modified using the plasma electrolytic oxidation (PEO) process. Tricalcium phosphate (TCP, Ca3PO4), wollastonite (CaSiO3) and silica (SiO2) were selected as additives in the anodizing bath to enhance the bioactivity of the coatings formed during the PEO process. Electrochemical analysis of the samples was performed in Ringer's solution at 37°C. The open-circuit potential (EOCP) as a function of time, corrosion potential (ECORR), corrosion current density (jCORR) and polarization resistance (Rp) of the samples were determined. Surface modification improved the corrosion resistance of Ti-15Mo in Ringer's solution. In vitro studies with MG-63 osteoblast-like cells were performed for 1, 3 and 7 days. After 24h, the cells were well adhered on the entire surfaces, and their number increased with increasing culture time. The coatings formed in basic solution with wollastonite exhibited better biological performance compared with the as-ground sample. Copyright © 2014 Elsevier B.V. All rights reserved.

Computer access security code system

Science.gov (United States)

Collins, Earl R., Jr. (Inventor)

1990-01-01

A security code system for controlling access to computer and computer-controlled entry situations comprises a plurality of subsets of alpha-numeric characters disposed in random order in matrices of at least two dimensions forming theoretical rectangles, cubes, etc., such that when access is desired, at least one pair of previously unused character subsets not found in the same row or column of the matrix is chosen at random and transmitted by the computer. The proper response to gain access is transmittal of subsets which complete the rectangle, and/or a parallelepiped whose opposite corners were defined by first groups of code. Once used, subsets are not used again to absolutely defeat unauthorized access by eavesdropping, and the like.

Enhancing Ocean Research Data Access

Science.gov (United States)

Chandler, Cynthia; Groman, Robert; Shepherd, Adam; Allison, Molly; Arko, Robert; Chen, Yu; Fox, Peter; Glover, David; Hitzler, Pascal; Leadbetter, Adam; Narock, Thomas; West, Patrick; Wiebe, Peter

2014-05-01

The Biological and Chemical Oceanography Data Management Office (BCO-DMO) works in partnership with ocean science investigators to publish data from research projects funded by the Biological and Chemical Oceanography Sections and the Office of Polar Programs Antarctic Organisms & Ecosystems Program at the U.S. National Science Foundation. Since 2006, researchers have been contributing data to the BCO-DMO data system, and it has developed into a rich repository of data from ocean, coastal and Great Lakes research programs. While the ultimate goal of the BCO-DMO is to ensure preservation of NSF funded project data and to provide open access to those data, achievement of those goals is attained through a series of related phases that benefits from active collaboration and cooperation with a large community of research scientists as well as curators of data and information at complementary data repositories. The BCO-DMO is just one of many intermediate data management centers created to facilitate long-term preservation of data and improve access to ocean research data. Through partnerships with other data management professionals and active involvement in local and global initiatives, BCO-DMO staff members are working to enhance access to ocean research data available from the online BCO-DMO data system. Continuing efforts in use of controlled vocabulary terms, development of ontology design patterns and publication of content as Linked Open Data are contributing to improved discovery and availability of BCO-DMO curated data and increased interoperability of related content available from distributed repositories. We will demonstrate how Semantic Web technologies (e.g. RDF/XML, SKOS, OWL and SPARQL) have been integrated into BCO-DMO data access and delivery systems to better serve the ocean research community and to contribute to an expanding global knowledge network.

Restricted access magnetic materials prepared by dual surface modification for selective extraction of therapeutic drugs from biological fluids

International Nuclear Information System (INIS)

Wang Yu; Wang Yuxia; Chen Lei; Wan Qianhong

2012-01-01

Magnetic porous particles with dual functionality have been prepared by a two-step procedure and evaluated as novel restricted access materials for extraction of therapeutic agents from biological fluids. The magnetic silica particles served as scaffolds were first modified with diol groups, which were then converted to octadecyl esters through reaction with stearoyl chloride. In the second step, the octadecyl esters on the exterior surface were hydrolyzed by the action of lipase to yield magnetic particles with hydrophobic reversed-phase ligands on the inner surface and biocompatible diol groups on the outer surface. The restricted access behavior of the resulting materials was confirmed by differential binding of small molecules such as methotrexate (MTX), leucovorin (LV) and folic acid (FA) relative to bovine serum albumin. While MTX, LV and FA were all bound to the magnetic particles with high affinity, the adsorption of the protein was markedly reduced due to size exclusion effect. The utility of the magnetic particles for sample preparation was tested in solid-phase extraction of MTX, LV and FA from spiked human serum and the effects of the SPE conditions on the recovery of the analytes were systematically studied. Moreover, the magnetic particle-based sample preparation procedure coupled with reversed-phase liquid chromatography analysis was validated in terms of specificity, linearity and reproducibility. The method was shown to be free from interference of endogenous compounds and linear over the concentration range of 0.5-10 μg/mL for the three drugs studied. The limits of detection for the three drugs in serum were in the range of 0.160-0.302 μg/mL. Reproducibility expressed as the RSD of the recovery for ten replicated extractions at three different concentrations was found to be less than 8.93%. With a unique combination of surface functionality with magnetic cores, the restricted access magnetic particles may be adapted in automated and high

Reactome graph database: Efficient access to complex pathway data

Science.gov (United States)

Korninger, Florian; Viteri, Guilherme; Marin-Garcia, Pablo; Ping, Peipei; Wu, Guanming; Stein, Lincoln; D’Eustachio, Peter

2018-01-01

Reactome is a free, open-source, open-data, curated and peer-reviewed knowledgebase of biomolecular pathways. One of its main priorities is to provide easy and efficient access to its high quality curated data. At present, biological pathway databases typically store their contents in relational databases. This limits access efficiency because there are performance issues associated with queries traversing highly interconnected data. The same data in a graph database can be queried more efficiently. Here we present the rationale behind the adoption of a graph database (Neo4j) as well as the new ContentService (REST API) that provides access to these data. The Neo4j graph database and its query language, Cypher, provide efficient access to the complex Reactome data model, facilitating easy traversal and knowledge discovery. The adoption of this technology greatly improved query efficiency, reducing the average query time by 93%. The web service built on top of the graph database provides programmatic access to Reactome data by object oriented queries, but also supports more complex queries that take advantage of the new underlying graph-based data storage. By adopting graph database technology we are providing a high performance pathway data resource to the community. The Reactome graph database use case shows the power of NoSQL database engines for complex biological data types. PMID:29377902

Reactome graph database: Efficient access to complex pathway data.

Directory of Open Access Journals (Sweden)

Antonio Fabregat

2018-01-01

Full Text Available Reactome is a free, open-source, open-data, curated and peer-reviewed knowledgebase of biomolecular pathways. One of its main priorities is to provide easy and efficient access to its high quality curated data. At present, biological pathway databases typically store their contents in relational databases. This limits access efficiency because there are performance issues associated with queries traversing highly interconnected data. The same data in a graph database can be queried more efficiently. Here we present the rationale behind the adoption of a graph database (Neo4j as well as the new ContentService (REST API that provides access to these data. The Neo4j graph database and its query language, Cypher, provide efficient access to the complex Reactome data model, facilitating easy traversal and knowledge discovery. The adoption of this technology greatly improved query efficiency, reducing the average query time by 93%. The web service built on top of the graph database provides programmatic access to Reactome data by object oriented queries, but also supports more complex queries that take advantage of the new underlying graph-based data storage. By adopting graph database technology we are providing a high performance pathway data resource to the community. The Reactome graph database use case shows the power of NoSQL database engines for complex biological data types.

Reactome graph database: Efficient access to complex pathway data.

Science.gov (United States)

Fabregat, Antonio; Korninger, Florian; Viteri, Guilherme; Sidiropoulos, Konstantinos; Marin-Garcia, Pablo; Ping, Peipei; Wu, Guanming; Stein, Lincoln; D'Eustachio, Peter; Hermjakob, Henning

2018-01-01

Reactome is a free, open-source, open-data, curated and peer-reviewed knowledgebase of biomolecular pathways. One of its main priorities is to provide easy and efficient access to its high quality curated data. At present, biological pathway databases typically store their contents in relational databases. This limits access efficiency because there are performance issues associated with queries traversing highly interconnected data. The same data in a graph database can be queried more efficiently. Here we present the rationale behind the adoption of a graph database (Neo4j) as well as the new ContentService (REST API) that provides access to these data. The Neo4j graph database and its query language, Cypher, provide efficient access to the complex Reactome data model, facilitating easy traversal and knowledge discovery. The adoption of this technology greatly improved query efficiency, reducing the average query time by 93%. The web service built on top of the graph database provides programmatic access to Reactome data by object oriented queries, but also supports more complex queries that take advantage of the new underlying graph-based data storage. By adopting graph database technology we are providing a high performance pathway data resource to the community. The Reactome graph database use case shows the power of NoSQL database engines for complex biological data types.

Measuring the Thermophysical and Structural Properties of Glass-Forming and Quasicrystal-Forming Liquids

Science.gov (United States)

Hyers, Robert W.; Bradshaw, Richard C.; Rogers, Jan R.; Gangopadhyay, Anup K.; Kelton, Ken F.

2006-01-01

The thermophysical properties of glass-forming and quasicrystal-forming alloys show many interesting features in the undercooled liquid range. Some of the features in the thermophysical property curves are expected to reflect changes in the structure and coordination of the liquid. These measurements require containerless processing such as electrostatic levitation to access the undercooled liquid regime. An overview of the state of the art in measuring the thermophysical properties and structure of undercooled liquid glass-forming and quasicrystal-forming alloys will be presented, along with the status of current measurements.

Evaluating transportation equity : an intermetropolitan comparison of regional accessibility and urban form.

Science.gov (United States)

2013-06-01

The concept of accessibility is used as the measurement tool to assess the link between social equity and the built environment because : it simultaneously accounts for both land-use patterns and a transportation system. This study compares 25 metrop...

Underway biological, meteorological, navigational, physical, profile and time series data collected aboard NOAA Ship Henry B. Bigelow in the Bay of Fundy and North Atlantic Ocean from 2014-09-07 to 2014-11-13 (NODC Accession 0123520)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — NODC Accession 0123520 contains raw underway biological, meteorological, navigational, physical, profile and time series data logged by the Scientific Computer...

Joint Hybrid Backhaul and Access Links Design in Cloud-Radio Access Networks

KAUST Repository

Dhifallah, Oussama Najeeb; Dahrouj, Hayssam; Al-Naffouri, Tareq Y.; Alouini, Mohamed-Slim

2015-01-01

The cloud-radio access network (CRAN) is expected to be the core network architecture for next generation mobile radio systems. In this paper, we consider the downlink of a CRAN formed of one central processor (the cloud) and several base station

The RCSB Protein Data Bank: views of structural biology for basic and applied research and education.

Science.gov (United States)

Rose, Peter W; Prlić, Andreas; Bi, Chunxiao; Bluhm, Wolfgang F; Christie, Cole H; Dutta, Shuchismita; Green, Rachel Kramer; Goodsell, David S; Westbrook, John D; Woo, Jesse; Young, Jasmine; Zardecki, Christine; Berman, Helen M; Bourne, Philip E; Burley, Stephen K

2015-01-01

The RCSB Protein Data Bank (RCSB PDB, http://www.rcsb.org) provides access to 3D structures of biological macromolecules and is one of the leading resources in biology and biomedicine worldwide. Our efforts over the past 2 years focused on enabling a deeper understanding of structural biology and providing new structural views of biology that support both basic and applied research and education. Herein, we describe recently introduced data annotations including integration with external biological resources, such as gene and drug databases, new visualization tools and improved support for the mobile web. We also describe access to data files, web services and open access software components to enable software developers to more effectively mine the PDB archive and related annotations. Our efforts are aimed at expanding the role of 3D structure in understanding biology and medicine. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

Accessibility to Nodes of Interest: A Practical Application of the Various Forms of the Impedance Curves

Directory of Open Access Journals (Sweden)

GIOACCHINO DE CANDIA

2014-06-01

Full Text Available Impedance is, in territorial statistics, the greater or lesser difficulty of a territory to be served/provided with adequate infrastructure and related services, useful for the improvement of the resident’s quality of life. In the opposite, a greater impedance implies a low attractiveness of the territory for the establishment of new productive activities. The purpose of this research is to provide a picture as comprehensive as possible of the existing methodology for the elaboration of impedance, providing practical applications in relation to the Tuscan territory. The methodology used in this paper is part of the category of models called “gravitational”, which are characterized by the denominator of the equation (index that expresses the impediment in relation to accessibility between points in geographic space. In this case, the calculations have been made considering the cost of travel, which depends on the distance or travel time between points located on the transportation network that represent the points of departure and arrival. The processing affect the function of impedance by elaborating linear, exponential and logistic forms for the infrastructures related to hospitals with emergency rooms, upper secondary schools, airports, and railway stations. Processing separately covered the metropolitan municipality of Florence. The research highlights the main existing methodologies in relation to determining accessibility (attractiveness of the territories, according to their infrastructural facilities and services. The analysis reveals the strengths and weaknesses, as well as the salient features of the equation used. In this sense, the research has produced a real benchmark between different approaches, using from time to time the variation of the impedance function.

The ethics of open access publishing.

Science.gov (United States)

Parker, Michael

2013-03-22

Should those who work on ethics welcome or resist moves to open access publishing? This paper analyses arguments in favour and against the increasing requirement for open access publishing and considers their implications for bioethics research. In the context of biomedical science, major funders are increasingly mandating open access as a condition of funding and such moves are also common in other disciplines. Whilst there has been some debate about the implications of open-access for the social sciences and humanities, there has been little if any discussion about the implications of open access for ethics. This is surprising given both the central role of public reason and critique in ethics and the fact that many of the arguments made for and against open access have been couched in moral terms. In what follows I argue that those who work in ethics have a strong interest in supporting moves towards more open publishing approaches which have the potential both to inform and promote richer and more diverse forms of public deliberation and to be enriched by them. The importance of public deliberation in practical and applied ethics suggests that ethicists have a particular interest in the promotion of diverse and experimental forms of publication and debate and in supporting new, more creative and more participatory approaches to publication.

A global workspace model for phenomenal and access consciousness.

Science.gov (United States)

Raffone, Antonino; Pantani, Martina

2010-06-01

Both the global workspace theory and Block's distinction between phenomenal and access consciousness, are central in the current debates about consciousness and the neural correlates of consciousness. In this article, a unifying global workspace model for phenomenal and access consciousness is proposed. In the model, recurrent neural interactions take place in distinct yet interacting access and phenomenal brain loops. The effectiveness of feedback signaling onto sensory cortical maps is emphasized for the neural correlates of phenomenal consciousness. Two forms of top-down attention, attention for perception and attention for access, play differential roles for phenomenal and access consciousness. The model is implemented in a neural network form, with the simulation of single and multiple visual object processing, and of the attentional blink. 2010 Elsevier Inc. All rights reserved.

Sight Word Reading in Prereaders: Use of Logographic vs. Alphabetic Access Routes.

Science.gov (United States)

Scott, Judith Anne; Ehri, Linnea C.

1990-01-01

Investigates whether prereaders who knew all their letters are better at forming logographic access routes than letter-sound access routes into memory from words read by sight. Concludes that prereaders become capable of forming letter-sound access routes when they learn letters well enough to take advantage of the phonetic cues the letters…

A random-access microarray for programmable droplet storage, retrieval and manipulation

International Nuclear Information System (INIS)

Tseng, Yi-Ming; Wang, Jhih-Jhe; Su, Yu-Chuan

2012-01-01

This article presents an integrated microfluidic system that is capable of programmably metering, entrapping, coalescing, addressably storing, retrieving and manipulating emulsion droplets. A multilayer, flexible PDMS chip with specially designed fluidic channels dynamically reconfigured by pneumatically actuated diaphragms is utilized to integrate a variety of droplet manipulation schemes. Once droplets are formed, their motions are coordinated by a 2D multiplexing scheme, which exploits the bidirectional movement of diaphragms to implement a random-access microarray. In the prototype demonstration, a PDMS molding and bonding process is used to fabricate the proposed microfluidic system. Emulsion droplets with desired volumes and compositions are produced, addressably stored, manipulated and retrieved from a 4 × 4 array, which employs just 4 (= 2 × log 2 4) control inputs for the operation. It has been demonstrated that (1) the integration of droplet manipulation and 2D multiplexing schemes can be achieved readily using bidirectional diaphragm valves, (2) multiplexing of an N × N array could be realized utilizing only 2 × log 2 N control inputs and (3) a multifunctional, random-access microarray can be accomplished employing a multilayer PDMS chip. As such, the demonstrated random-access microarray could potentially serve as a platform for continuous tracking and multistep processing of emulsion droplets, which is desired for various biological and chemical applications. (paper)

Access to Investigational Drugs: FDA Expanded Access Programs or "Right-to-Try" Legislation?

Science.gov (United States)

Holbein, M E Blair; Berglund, Jelena P; Weatherwax, Kevin; Gerber, David E; Adamo, Joan E

2015-10-01

The Food and Drug Administration Expanded Access (EA) program and "Right-to-Try" legislation aim to provide seriously ill patients who have no other comparable treatment options to gain access to investigational drugs and biological agents. Physicians and institutions need to understand these programs to respond to questions and requests for access. FDA EA programs and state and federal legislative efforts to provide investigational products to patients by circumventing FDA regulations were summarized and compared. The FDA EA program includes Single Patient-Investigational New Drug (SP-IND), Emergency SP-IND, Intermediate Sized Population IND, and Treatment IND. Approval rates for all categories exceed 99%. Approval requires FDA and Institutional Review Board (IRB) approval, and cooperation of the pharmaceutical partner is essential. "Right-to-Try" legislation bypasses some of these steps, but provides no regulatory or safety oversight. The FDA EA program is a reasonable option for patients for whom all other therapeutic interventions have failed. The SP-IND not only provides patient access to new drugs, but also maintains a balance between immediacy and necessary patient protection. Rather than circumventing existing FDA regulations through proposed legislation, it seems more judicious to provide the knowledge and means to meet the EA requirements. © 2015 Wiley Periodicals, Inc.

Synthesis and Biological Evaluation of Isomeric Methoxy Substitutions on Anti-Cancer Indolyl-Pyridinyl-Propenones: Effects on Potency and Mode of Activity

OpenAIRE

Trabbic, Christopher J.; George, Sage M.; Alexander, Evan M.; Du, Shengnan; Offenbacher, Jennifer M.; Crissman, Emily J.; Overmeyer, Jean H.; Maltese, William A.; Erhardt, Paul W.

2016-01-01

Certain indolyl-pyridinyl-propenone analogues kill glioblastoma cells that have become resistant to conventional therapeutic drugs. Some of these analogues induce a novel form of non-apoptotic cell death called methuosis, while others primarily cause microtubule disruption. Ready access to 5-indole substitution has allowed characterization of this position to be important for both types of mechanisms when a simple methoxy group is present. We now report the syntheses and biological effects of...

Data publication with the structural biology data grid supports live analysis

NARCIS (Netherlands)

Meyer, Peter A.; Socias, Stephanie; Key, Jason; Ransey, Elizabeth; Tjon, Emily C.; Buschiazzo, Alejandro; Lei, Ming; Botka, Chris; Withrow, James; Neau, David; Rajashankar, Kanagalaghatta; Anderson, Karen S.; Baxter, Richard H.; Blacklow, Stephen C.; Boggon, Titus J.; Bonvin, Alexandre M J J|info:eu-repo/dai/nl/113691238; Borek, Dominika; Brett, Tom J.; Caflisch, Amedeo; Chang, Chung I.; Chazin, Walter J.; Corbett, Kevin D.; Cosgrove, Michael S.; Crosson, Sean; Dhe-Paganon, Sirano; Di Cera, Enrico; Drennan, Catherine L.; Eck, Michael J.; Eichman, Brandt F.; Fan, Qing R.; Ferré-D'Amaré, Adrian R.; Fromme, J. Christopher; Garcia, K. Christopher; Gaudet, Rachelle; Gong, Peng; Harrison, Stephen C.; Heldwein, Ekaterina E.; Jia, Zongchao; Keenan, Robert J.; Kruse, Andrew C.; Kvansakul, Marc; McLellan, Jason S.; Modis, Yorgo; Nam, Yunsun; Otwinowski, Zbyszek; Pai, Emil F.; Pereira, Pedro José Barbosa; Petosa, Carlo; Raman, C. S.; Rapoport, Tom A.; Roll-Mecak, Antonina; Rosen, Michael K.; Rudenko, Gabby; Schlessinger, Joseph; Schwartz, Thomas U.; Shamoo, Yousif; Sondermann, Holger; Tao, Yizhi J.; Tolia, Niraj H.; Tsodikov, Oleg V.; Westover, Kenneth D.; Wu, Hao; Foster, Ian; Fraser, James S.; Maia, Filipe R N C; Gonen, Tamir; Kirchhausen, Tom; Diederichs, Kay; Crosas, Mercé; Sliz, Piotr

2016-01-01

Access to experimental X-ray diffraction image data is fundamental for validation and reproduction of macromolecular models and indispensable for development of structural biology processing methods. Here, we established a diffraction data publication and dissemination system, Structural Biology

Fixed Access Network Sharing

Science.gov (United States)

Cornaglia, Bruno; Young, Gavin; Marchetta, Antonio

2015-12-01

Fixed broadband network deployments are moving inexorably to the use of Next Generation Access (NGA) technologies and architectures. These NGA deployments involve building fiber infrastructure increasingly closer to the customer in order to increase the proportion of fiber on the customer's access connection (Fibre-To-The-Home/Building/Door/Cabinet… i.e. FTTx). This increases the speed of services that can be sold and will be increasingly required to meet the demands of new generations of video services as we evolve from HDTV to "Ultra-HD TV" with 4k and 8k lines of video resolution. However, building fiber access networks is a costly endeavor. It requires significant capital in order to cover any significant geographic coverage. Hence many companies are forming partnerships and joint-ventures in order to share the NGA network construction costs. One form of such a partnership involves two companies agreeing to each build to cover a certain geographic area and then "cross-selling" NGA products to each other in order to access customers within their partner's footprint (NGA coverage area). This is tantamount to a bi-lateral wholesale partnership. The concept of Fixed Access Network Sharing (FANS) is to address the possibility of sharing infrastructure with a high degree of flexibility for all network operators involved. By providing greater configuration control over the NGA network infrastructure, the service provider has a greater ability to define the network and hence to define their product capabilities at the active layer. This gives the service provider partners greater product development autonomy plus the ability to differentiate from each other at the active network layer.

Breeding biology and the evolution of dynamic sexual dichromatism in frogs.

Science.gov (United States)

Bell, R C; Webster, G N; Whiting, M J

2017-12-01

Dynamic sexual dichromatism is a temporary colour change between the sexes and has evolved independently in a wide range of anurans, many of which are explosive breeders wherein males physically compete for access to females. Behavioural studies in a few species indicate that dynamic dichromatism functions as a visual signal in large breeding aggregations; however, the prevalence of this trait and the social and environmental factors underlying its expression are poorly understood. We compiled a database of 178 anurans with dynamic dichromatism that include representatives from 15 families and subfamilies. Dynamic dichromatism is common in two of the three subfamilies of hylid treefrogs. Phylogenetic comparative analyses of 355 hylid species (of which 95 display dynamic dichromatism) reveal high transition rates between dynamic dichromatism, ontogenetic (permanent) dichromatism and monochromatism reflecting the high evolutionary lability of this trait. Correlated evolution in hylids between dynamic dichromatism and forming large breeding aggregations indicates that the evolution of large breeding aggregations precedes the evolution of dynamic dichromatism. Multivariate phylogenetic logistic regression recovers the interaction between biogeographic distribution and forming breeding aggregations as a significant predictor of dynamic dichromatism in hylids. Accounting for macroecological differences between temperate and tropical regions, such as seasonality and the availability of breeding sites, may improve our understanding of ecological contexts in which dynamic dichromatism is likely to arise in tropical lineages and why it is retained in some temperate species and lost in others. © 2017 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2017 European Society For Evolutionary Biology.

Synthetic biology between technoscience and thing knowledge.

Science.gov (United States)

Gelfert, Axel

2013-06-01

Synthetic biology presents a challenge to traditional accounts of biology: Whereas traditional biology emphasizes the evolvability, variability, and heterogeneity of living organisms, synthetic biology envisions a future of homogeneous, humanly engineered biological systems that may be combined in modular fashion. The present paper approaches this challenge from the perspective of the epistemology of technoscience. In particular, it is argued that synthetic-biological artifacts lend themselves to an analysis in terms of what has been called 'thing knowledge'. As such, they should neither be regarded as the simple outcome of applying theoretical knowledge and engineering principles to specific technological problems, nor should they be treated as mere sources of new evidence in the general pursuit of scientific understanding. Instead, synthetic-biological artifacts should be viewed as partly autonomous research objects which, qua their material-biological constitution, embody knowledge about the natural world-knowledge that, in turn, can be accessed via continuous experimental interrogation. Copyright © 2013 Elsevier Ltd. All rights reserved.

14 CFR 153.5 - Aviation safety inspector airport access.

Science.gov (United States)

2010-01-01

... 14 Aeronautics and Space 3 2010-01-01 2010-01-01 false Aviation safety inspector airport access... TRANSPORTATION (CONTINUED) AIRPORTS AIRPORT OPERATIONS Aviation Safety Inspector Access § 153.5 Aviation safety... must grant Aviation Safety Inspectors bearing FAA Form 110A free and uninterrupted access to public-use...

Experimental protocol to assess the tourism vehicles accessibility based on heart rate and access time measurements

Energy Technology Data Exchange (ETDEWEB)

Alcala Fazio, E.; Alvarez Fernandez, N.

2016-07-01

The objective of the Project is to define an experimental protocol for the accessibility assessment of the transport vehicles, by analysing the evolution of the effort and time variables consumed by a target group –Persons of Reduced Mobility (PMRs). This protocol consisted in tests of accessibility on a sample of 6 passenger cars (class M1) by 8 elderly people carrying a heart rate monitor, and whose access manoeuvres were recorded by video cameras. Based on the Hilloskorpi et al. [1] model and by developing a method of truncation of the heart rate (HR) tests records - eliminating the component of the work biologically needed by the organism to keep its basal metabolic rate from the work each person performed – it was possible to evaluate how much energy each individual invested in each access manoeuver. Immediately after each test, and after the whole round of vehicles, each participant was surveyed for a subjective assessment of the difficulty of accessing to the cars. According to each of the above results, the HR objective measurements and the subjective opinion about the ease of access experienced by each individual, the vehicles were ranked by order of accessibility to the front and rear seats. The result of both rankings showed the orders of the similar vehicles, the potential of the method and a fair closeness between its results and the subjective, but real and unequivocal, judgments of the participants. (Author)

Structure and Oxidation of Pyrrole Adducts Formed between Aflatoxin B2a and Biological Amines.

Science.gov (United States)

Rushing, Blake R; Selim, Mustafa I

2017-06-19

Aflatoxin B 2a has been shown to bind to proteins through a dialdehyde intermediate under physiological conditions. The proposed structure of this adduct has been published showing a Schiff base interaction, but adequate verification using structural elucidation instrumental techniques has not been performed. In this work, we synthesized the aflatoxin B 2a amino acid adduct under alkaline conditions, and the formation of a new product was determined using high performance liquid chromatography-time-of-flight mass spectrometry. The resulting accurate mass was used to generate a novel proposed chemical structure of the adduct in which the dialdehyde forms a pyrrole ring with primary amines rather than the previously proposed Schiff base interaction. The pyrrole structure was confirmed using 1 H, 13 C, correlation spectroscopy, heteronuclear single quantum correlation, and heteronuclear multiple bond correlation NMR and tandem mass spectrometry. Reaction kinetics show that the reaction is overall second order and that the rate increases as pH increases. Additionally, this study shows for the first time that aflatoxin B 2a dialdehyde forms adducts with phosphatidylethanolamines and does so through pyrrole ring formation, which makes it the first aflatoxin-lipid adduct to be structurally identified. Furthermore, oxidation of the pyrrole adduct produced a product that was 16 m/z heavier. When the aflatoxin B 2a -lysine (ε) adduct was oxidized, it gave a product with an accurate mass, mass fragmentation pattern, and 1 H NMR spectrum that match aflatoxin B 1 -lysine, which suggest the transformation of the pyrrole ring to a pyrrolin-2-one ring. These data give new insight into the fate and chemical properties of biological adducts formed from aflatoxin B 2a as well as possible interferences with known aflatoxin B 1 exposure biomarkers.

Nucleon Form Factors Using Spin Degrees of Freedom

International Nuclear Information System (INIS)

Jones, Mark

2002-01-01

An overview of recent measurements of the neutron and proton electromagnetic form factors from double polarization experiments. Spin observables are sensitive to the product of nucleon form factor which allows access to the small nucleon electric form factors

Sixth-Form Projects in Biology: A Case History.

Science.gov (United States)

Robinson, P. M.; Parker, R. E.

1981-01-01

Some of the problems encountered in devising sixth-form projects are discussed and a detailed account given of one project in which a study was made of the effect of onion bulb volatiles on the germination of lettuce seed. (Author)

9 CFR 114.6 - Mixing biological products.

Science.gov (United States)

2010-01-01

... 9 Animals and Animal Products 1 2010-01-01 2010-01-01 false Mixing biological products. 114.6... BIOLOGICAL PRODUCTS § 114.6 Mixing biological products. Each biological product, when in liquid form, shall be mixed thoroughly in a single container. During bottling operations, the product shall be...

Stretching chimeric DNA: A test for the putative S-form

Science.gov (United States)

Whitelam, Stephen; Pronk, Sander; Geissler, Phillip L.

2008-11-01

Double-stranded DNA "overstretches" at a pulling force of about 65 pN, increasing in length by a factor of 1.7. The nature of the overstretched state is unknown, despite its considerable importance for DNA's biological function and technological application. Overstretching is thought by some to be a force-induced denaturation and by others to consist of a transition to an elongated, hybridized state called S-DNA. Within a statistical mechanical model, we consider the effect upon overstretching of extreme sequence heterogeneity. "Chimeric" sequences possessing halves of markedly different AT composition elongate under fixed external conditions via distinct, spatially segregated transitions. The corresponding force-extension data vary with pulling rate in a manner that depends qualitatively and strikingly upon whether the hybridized S-form is accessible. This observation implies a test for S-DNA that could be performed in experiment.

Specifications of Standards in Systems and Synthetic Biology.

Science.gov (United States)

Schreiber, Falk; Bader, Gary D; Golebiewski, Martin; Hucka, Michael; Kormeier, Benjamin; Le Novère, Nicolas; Myers, Chris; Nickerson, David; Sommer, Björn; Waltemath, Dagmar; Weise, Stephan

2015-09-04

Standards shape our everyday life. From nuts and bolts to electronic devices and technological processes, standardised products and processes are all around us. Standards have technological and economic benefits, such as making information exchange, production, and services more efficient. However, novel, innovative areas often either lack proper standards, or documents about standards in these areas are not available from a centralised platform or formal body (such as the International Standardisation Organisation). Systems and synthetic biology is a relatively novel area, and it is only in the last decade that the standardisation of data, information, and models related to systems and synthetic biology has become a community-wide effort. Several open standards have been established and are under continuous development as a community initiative. COMBINE, the ‘COmputational Modeling in BIology’ NEtwork has been established as an umbrella initiative to coordinate and promote the development of the various community standards and formats for computational models. There are yearly two meeting, HARMONY (Hackathons on Resources for Modeling in Biology), Hackathon-type meetings with a focus on development of the support for standards, and COMBINE forums, workshop-style events with oral presentations, discussion, poster, and breakout sessions for further developing the standards. For more information see http://co.mbine.org/. So far the different standards were published and made accessible through the standards’ web- pages or preprint services. The aim of this special issue is to provide a single, easily accessible and citable platform for the publication of standards in systems and synthetic biology. This special issue is intended to serve as a central access point to standards and related initiatives in systems and synthetic biology, it will be published annually to provide an opportunity for standard development groups to communicate updated specifications.

EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2013. Scientific Opinion on Bioreduction application

DEFF Research Database (Denmark)

Hald, Tine; Baggesen, Dorte Lau

A method for on-farm containment of animal by-products (ABPs), called a ‘Bioreduction’ system, was assessed. The material for containment is of ovine origin and classified as a Category (Cat.) 1 ABP material. The proposed process consists of an aerobic degradation of the ABP material in a vented...... the risks related to pathogens such as non-spore forming bacteria and viruses. However, it is highly improbable that the risks related to more resistant biological hazards can be reduced. The application does not provide clear information about the location of the system and the origin of the material...... the risk of aerogenic transmission of biological agents and it is accessible to living vectors. Moreover, there is a risk of release of pathogens to the environment when opening the vessel. Therefore, the whole system cannot be considered as a closed system. The proposed Bioreduction method cannot...

Access to Investigational Drugs: FDA Expanded Access Programs or “Right‐to‐Try” Legislation?

Science.gov (United States)

Berglund, Jelena P.; Weatherwax, Kevin; Gerber, David E.; Adamo, Joan E.

2015-01-01

Abstract Purpose The Food and Drug Administration Expanded Access (EA) program and “Right‐to‐Try” legislation aim to provide seriously ill patients who have no other comparable treatment options to gain access to investigational drugs and biological agents. Physicians and institutions need to understand these programs to respond to questions and requests for access. Methods FDA EA programs and state and federal legislative efforts to provide investigational products to patients by circumventing FDA regulations were summarized and compared. Results The FDA EA program includes Single Patient‐Investigational New Drug (SP‐IND), Emergency SP‐IND, Intermediate Sized Population IND, and Treatment IND. Approval rates for all categories exceed 99%. Approval requires FDA and Institutional Review Board (IRB) approval, and cooperation of the pharmaceutical partner is essential. “Right‐to‐Try” legislation bypasses some of these steps, but provides no regulatory or safety oversight. Conclusion The FDA EA program is a reasonable option for patients for whom all other therapeutic interventions have failed. The SP‐IND not only provides patient access to new drugs, but also maintains a balance between immediacy and necessary patient protection. Rather than circumventing existing FDA regulations through proposed legislation, it seems more judicious to provide the knowledge and means to meet the EA requirements. PMID:25588691

Biological Apatite Formed from Polyphosphate and Alkaline Phosphatase May Exchange Oxygen Isotopes from Water through Carbonate

Science.gov (United States)

Omelon, S. J.; Stanley, S. Y.; Gorelikov, I.; Matsuura, N.

2011-12-01

The oxygen isotopic composition in bone mineral phosphate is known to reflect the local water composition, environmental humidity, and diet1. Once ingested, biochemical processes presumably equilibrate PO43- with "body water" by the many biochemical reactions involving PO43- 2. Blake et al. demonstrated that enzymatic release of PO43- from organophosphorus compounds, and microbial metabolism of dissolved orthophosphate, significantly exchange the oxygen in precipitated apatite within environmental water3,4, which otherwise does not exchange with water at low temperatures. One of the enzymes that can cleave phosphates from organic substrates is alkaline phosphastase5, the enzyme also associated with bone mineralization. The literature often states that the mineral in bone in hydroxylapatite, however the mineral in bone is carbonated apatite that also contains some fluoride6. Deprotonation of HPO32- occurs at pH 12, which is impossibly high for biological system, and the predominate carbonate species in solution at neutral pH is HCO3-. To produce an apatite mineral without a significant hydroxyl content, it is possible that apatite biomineralization occurs through a polyphosphate pathway, where the oxygen atom required to transform polyphosphate into individual phosphate ions is from carbonate: [PO3-]n + CO32- -> [PO3-]n-1 + PO43- + CO2. Alkaline phosphatase can depolymerise polyphosphate into orthophosphate5. If alkaline phosphatase cleaves an oxygen atom from a calcium-carbonate complex, then there is no requirement for removing a hydrogen atom from the HCO3- or HPO43- ions of body water to form bioapatite. A mix of 1 mL of 1 M calcium polyphosphate hydogel, or nano-particles of calcium polyphosphate, and amorphous calcium carbonate were reacted with alkaline phosphatase, and maintained at neutral to basic pH. After two weeks, carbonated apatite and other calcium phosphate minerals were identified by powder x-ray diffraction. Orthophosphate and unreacted

Do-it-yourself biology: challenges and promises for an open science and technology movement.

Science.gov (United States)

Landrain, Thomas; Meyer, Morgan; Perez, Ariel Martin; Sussan, Remi

2013-09-01

The do-it-yourself biology (DIYbio) community is emerging as a movement that fosters open access to resources permitting modern molecular biology, and synthetic biology among others. It promises in particular to be a source of cheaper and simpler solutions for environmental monitoring, personal diagnostic and the use of biomaterials. The successful growth of a global community of DIYbio practitioners will depend largely on enabling safe access to state-of-the-art molecular biology tools and resources. In this paper we analyze the rise of DIYbio, its community, its material resources and its applications. We look at the current projects developed for the international genetically engineered machine competition in order to get a sense of what amateur biologists can potentially create in their community laboratories over the coming years. We also show why and how the DIYbio community, in the context of a global governance development, is putting in place a safety/ethical framework for guarantying the pursuit of its activity. And finally we argue that the global spread of DIY biology potentially reconfigures and opens up access to biological information and laboratory equipment and that, therefore, it can foster new practices and transversal collaborations between professional scientists and amateurs.

Understanding the political economy and key drivers of energy access in addressing national energy access priorities and policies: African Perspective

International Nuclear Information System (INIS)

Khennas, Smail

2012-01-01

This paper is focused on the key drivers of energy access in North and sub-Saharan Africa which are characterized by huge discrepancies in terms of energy access to modern forms of energy. The paper points out that long term development strategies and large programmes with significant financial resources are essential to achieving substantial results in terms of energy access. The paper argues that building up the energy infrastructure (power plants, grid interconnections and small-scale decentralized energy options in rural areas.) is a pre-condition for economic growth and ultimately for energy access. It underlines that historically there is a trend towards more efficient, convenient and cost effective forms of energy. Low carbon path and above all renewable will therefore play an increasing role in the energy mix in the next couple of decades. Manufacturing of capital goods for the renewable energy industry in Africa will be a key challenge to achieving energy security economic growth and energy access. - Highlights: ► Sharp differences of energy access situation and approaches between North and Sub Saharan Africa. ► Energy infrastructure is a pre-condition to economic growth and energy access. ► Interconnections and small-scale decentralized energy schemes are a good mechanism to increasing energy access. ► However interconnections will only contribute marginally to the urban-rural energy divide. ► Manufacturing of capital goods is a key challenge to economic development.

12 CFR 404.14 - Requirements of request for access.

Science.gov (United States)

2010-01-01

... 12 Banks and Banking 4 2010-01-01 2010-01-01 false Requirements of request for access. 404.14 Section 404.14 Banks and Banking EXPORT-IMPORT BANK OF THE UNITED STATES INFORMATION DISCLOSURE Access to Records Under the Privacy Act of 1974 § 404.14 Requirements of request for access. (a) Form. Requests for...

The development of a multi-dimensional gambling accessibility scale.

Science.gov (United States)

Hing, Nerilee; Haw, John

2009-12-01

The aim of the current study was to develop a scale of gambling accessibility that would have theoretical significance to exposure theory and also serve to highlight the accessibility risk factors for problem gambling. Scale items were generated from the Productivity Commission's (Australia's Gambling Industries: Report No. 10. AusInfo, Canberra, 1999) recommendations and tested on a group with high exposure to the gambling environment. In total, 533 gaming venue employees (aged 18-70 years; 67% women) completed a questionnaire that included six 13-item scales measuring accessibility across a range of gambling forms (gaming machines, keno, casino table games, lotteries, horse and dog racing, sports betting). Also included in the questionnaire was the Problem Gambling Severity Index (PGSI) along with measures of gambling frequency and expenditure. Principal components analysis indicated that a common three factor structure existed across all forms of gambling and these were labelled social accessibility, physical accessibility and cognitive accessibility. However, convergent validity was not demonstrated with inconsistent correlations between each subscale and measures of gambling behaviour. These results are discussed in light of exposure theory and the further development of a multi-dimensional measure of gambling accessibility.

Biology-inspired AMO physics

International Nuclear Information System (INIS)

Mathur, Deepak

2015-01-01

This Topical Review presents an overview of increasingly robust interconnects that are being established between atomic, molecular and optical (AMO) physics and the life sciences. AMO physics, outgrowing its historical role as a facilitator—a provider of optical methodologies, for instance—now seeks to partner biology in its quest to link systems-level descriptions of biological entities to insights based on molecular processes. Of course, perspectives differ when AMO physicists and biologists consider various processes. For instance, while AMO physicists link molecular properties and dynamics to potential energy surfaces, these have to give way to energy landscapes in considerations of protein dynamics. But there are similarities also: tunnelling and non-adiabatic transitions occur both in protein dynamics and in molecular dynamics. We bring to the fore some such differences and similarities; we consider imaging techniques based on AMO concepts, like 4D fluorescence microscopy which allows access to the dynamics of cellular processes, multiphoton microscopy which offers a built-in confocality, and microscopy with femtosecond laser beams to saturate the suppression of fluorescence in spatially controlled fashion so as to circumvent the diffraction limit. Beyond imaging, AMO physics contributes with optical traps that probe the mechanical and dynamical properties of single ‘live’ cells, highlighting differences between healthy and diseased cells. Trap methodologies have also begun to probe the dynamics governing of neural stem cells adhering to each other to form neurospheres and, with squeezed light to probe sub-diffusive motion of yeast cells. Strong field science contributes not only by providing a source of energetic electrons and γ-rays via laser-plasma accelerations schemes, but also via filamentation and supercontinuum generation, enabling mainstream collision physics into play in diverse processes like DNA damage induced by low-energy collisions to

The order axiom and the biological space time

International Nuclear Information System (INIS)

Vu Huu Nhu

2014-01-01

This work focuses on the field of Biological Space - Time. In fact the conception of Biological Space - Time is connected with order character of sets. Because the illustration of order axioms is very important for searching order systems. In this work, the new form of order axioms has been illustrated in the form of (a,b) ≠ (b.a). It is a common form of Descartes product. Based on this we suggest the following formation of order lemma (a.b) ≠(b.a)↔ a Φ b. In this case Φ is an order relation. From the new form of order axiom, we determine the order system as follows: If S = (a,b) the set of two elements and the order axiom (a.b) ≠ (b.a) is satisfied. So that, in this case, S is called an order system. The life system are the most important order systems. We could illustrate the biological system as: S = (A, T, G, C). In this set, A, T, G, C are the elements of the genetic code and the order axiom is satisfied. As we know, for example, in genetic code: (AUG) ≠ (UGA) ≠ (UAG). The order biological system induces an order relation and it is the origin of the conception of Biological Space Time. The students of Physics and Biology could use this book as basic course for studies of Biological Space Time. (author)

[The hyperiricosuria as an indicator of derangement of biologic functions of endoecology and adaptation, biologic reactions of excretion, inflammation and arterial tension].

Science.gov (United States)

Titov, V N; Oshchepkova, E V; Dmitriev, V A; Gushchina, O V; Shiriaeva, Iu K; Iashin, A Ia

2012-04-01

During millions years in all animals allantoine (oxidized by uricase uric acid) was catabolite of purines and ascorbic acid was an acceptor of active forms of oxygen. The proximal tubules of nephron reabsorbed the trace amounts of uric acid Then during phylogenesis the primates had a mutation of ascorbic acid gen minus. Later on occurred a second spontaneous mutation and uricase gen minus and uric acid became catabolites of purines. In absence of ascorbic acid synthesis ions of urates became a major capturers of active forms of oxygen and all uric acid as before underwent the reabsorption. Later the carriers were formed which began in epithelium of proximal tubules to secrete all uric acid into urine. At every incident of "littering" of intercellular medium with endogenic flogogens (impairment of biologic function of endoecology) under compensatory development of biologic reaction of inflammation the need in inactivation of active forms of oxygen increases. Hence later on in phylogenesis one more stage was formed--post secretory reabsorption of uric acid In the biologic reaction of inflammation epithelium of proximal tubules initiates retentional hyperiricosuria. The general antioxidant activity of human blood plasma in 60% is presented by urates' ions. The excretion of uric acid includes 4 stages: filtration, full reabsorption, secretion and post secretory reabsorption. In phylogenesis these stages formed in sequence. The mild hyperiricosuria is most frequently considered as a non-specific indicator of activation of biologic reaction of inflammation. The productive hyperiricosuria develops more infrequently under surplus of meat food and cytolysis syndrome (intensification of cell loss in vivo). Under concentration of uric acid more than 400 mkmol/l part of urates circulates in intercellular medium in the form of crystals. The microcrystals of uric acid (biologic "litter") initiate the syndrome of systemic inflammatory response as an endogenic flogogen

Dual Causality and the Autonomy of Biology.

Science.gov (United States)

Bock, Walter J

2017-03-01

Ernst Mayr's concept of dual causality in biology with the two forms of causes (proximate and ultimate) continues to provide an essential foundation for the philosophy of biology. They are equivalent to functional (=proximate) and evolutionary (=ultimate) causes with both required for full biological explanations. The natural sciences can be classified into nomological, historical nomological and historical dual causality, the last including only biology. Because evolutionary causality is unique to biology and must be included for all complete biological explanations, biology is autonomous from the physical sciences.

Handwritten-word spotting using biologically inspired features

NARCIS (Netherlands)

van der Zant, Tijn; Schomaker, Lambert; Haak, Koen

For quick access to new handwritten collections, current handwriting recognition methods are too cumbersome. They cannot deal with the lack of labeled data and would require extensive laboratory training for each individual script, style, language, and collection. We propose a biologically inspired

Biological species is the only possible form of existence for higher organisms: the evolutionary meaning of sexual reproduction

Directory of Open Access Journals (Sweden)

Shcherbakov Victor P

2010-03-01

Full Text Available Abstract Consistent holistic view of sexual species as the highest form of biological existence is presented. The Weismann's idea that sex and recombination provide the variation for the natural selection to act upon is dominated in most discussions of the biological meaning of the sexual reproduction. Here, the idea is substantiated that the main advantage of sex is the opposite: the ability to counteract not only extinction but further evolution as well. Living systems live long owing to their ability to reproduce themselves with a high fidelity. Simple organisms (like bacteria reach the continued existence due to the high fidelity of individual genome replication. In organisms with a large genome and complex development, the achievable fidelity of DNA replication is not enough for the precise reproduction of the genome. Such species must be capable of surviving and must remain unchanged in spite of the continuous changes of their genes. This problem has no solution in the frame of asexual ("homeogenomic" lineages. They would rapidly degrade and become extinct or blurred out in the course of the reckless evolution. The core outcome of the transition to sexual reproduction was the creation of multiorganismic entity - biological species. Individual organisms forfeited their ability to reproduce autonomously. It implies that individual organisms forfeited their ability to substantive evolution. They evolve as a part of the biological species. In case of obligatory sexuality, there is no such a thing as synchronic multi-level selection. Natural selection cannot select anything that is not a unit of reproduction. Hierarchy in biology implies the functional predestination of the parts for the sake of the whole. A crucial feature of the sexual reproduction is the formation of genomes of individual organisms by random picking them over from the continuously shuffled gene pool instead of the direct replication of the ancestor's genome. A clear anti

Electromagnetic form factors at large momenta from lattice QCD

Science.gov (United States)

Chambers, A. J.; Dragos, J.; Horsley, R.; Nakamura, Y.; Perlt, H.; Pleiter, D.; Rakow, P. E. L.; Schierholz, G.; Schiller, A.; Somfleth, K.; Stüben, H.; Young, R. D.; Zanotti, J. M.; Qcdsf/Ukqcd/Cssm Collaborations

2017-12-01

Accessing hadronic form factors at large momentum transfers has traditionally presented a challenge for lattice QCD simulations. Here, we demonstrate how a novel implementation of the Feynman-Hellmann method can be employed to calculate hadronic form factors in lattice QCD at momenta much higher than previously accessible. Our simulations are performed on a single set of gauge configurations with three flavors of degenerate mass quarks corresponding to mπ≈470 MeV . We are able to determine the electromagnetic form factors of the pion and nucleon up to approximately 6 GeV2 , with results for the ratio of the electric and magnetic form factors of the proton at our simulated quark mass agreeing well with experimental results.

Recent Advances in Point-of-Access Water Quality Monitoring

Science.gov (United States)

Korostynska, O.; Arshak, K.; Velusamy, V.; Arshak, A.; Vaseashta, Ashok

Clean water is one of our most valuable natural resources. In addition to providing safe drinking water it assures functional ecosystems that support fisheries and recreation. Human population growth and its associated increased demands on water pose risks to maintaining acceptable water quality. It is vital to assess source waters and the aquatic systems that receive inputs from industrial waste and sewage treatment plants, storm water systems, and runoff from urban and agricultural lands. Rapid and confident assessments of aquatic resources form the basis for sound environmental management. Current methods engaged in tracing the presence of various bacteria in water employ bulky laboratory equipment and are time consuming. Thus, real-time water quality monitoring is essential for National and International Health and Safety. Environmental water monitoring includes measurements of physical characteristics (e.g. pH, temperature, conductivity), chemical parameters (e.g. oxygen, alkalinity, nitrogen and phosphorus compounds), and abundance of certain biological taxa. Monitoring could also include assays of biological activity such as alkaline phosphatase, tests for toxins such as microcystins and direct measurements of pollutants such as heavy metals or hydrocarbons. Real time detection can significantly reduce the level of damage and also the cost to remedy the problem. This paper presents overview of state-of-the-art methods and devices used for point-of-access water quality monitoring and suggest further developments in this area.

Assessing biological invasions in European Seas: Biological traits of the most widespread non-indigenous species

Science.gov (United States)

Cardeccia, Alice; Marchini, Agnese; Occhipinti-Ambrogi, Anna; Galil, Bella; Gollasch, Stephan; Minchin, Dan; Narščius, Aleksas; Olenin, Sergej; Ojaveer, Henn

2018-02-01

The biological traits of the sixty-eight most widespread multicellular non-indigenous species (MWNIS) in European Seas: Baltic Sea, Western European Margin of the Atlantic Ocean and the Mediterranean Sea were examined. Data for nine biological traits was analyzed, and a total of 41 separate categories were used to describe the biological and ecological functions of these NIS. Our findings show that high dispersal ability, high reproductive rate and ecological generalization are the biological traits commonly associated with MWNIS. The functional groups that describe most of the 68 MWNIS are: photoautotrophic, zoobenthic (both sessile and motile) and nektonic predatory species. However, these 'most widespread' species comprise a wide range of taxa and biological trait profiles; thereby a clear "identikit of a perfect invader" for marine and brackish environments is difficult to define. Some traits, for example: "life form", "feeding method" and "mobility", feature multiple behaviours and strategies. Even species introduced by a single pathway, e.g. vessels, feature diverse biological trait profiles. MWNIS likely to impact community organization, structure and diversity are often associated with brackish environments. For many traits ("life form", "sociability", "reproductive type", "reproductive frequency", "haploid and diploid dispersal" and "mobility"), the categories mostly expressed by the impact-causing MWNIS do not differ substantially from the whole set of MWNIS.

Review of the functional morphology, biology and perturbation impacts on the boreal, habitat-forming horse mussel Modiolus modiolus (Bivalvia: Mytilidae: Modiolinae)

DEFF Research Database (Denmark)

Dinesen, Grete E.; Morton, Brian

2014-01-01

The boreal bivalve Modiolus modiolus is common subtidally where it aggregates to form extensive, long-lived, biogenic habitats with a diverse associated flora and, especially, fauna. Despite this ecological importance, M. modiolus has not been described in terms of its functional morphology and o...... several M. modiolus habitats with deleterious impacts on ecosystem functioning. Post-impact recovery times are slow and dependent on both local and mega-population distributions...... and overall biology. Modiolus modiolus is a typical epibenthic, suspension-feeding mytilid, albeit with anatomical modifications adapting it to a partially buried, gregarious lifestyle in a stable environment experiencing medium–high energy levels. The juvenile shell is covered partly in byssal setae secreted...... and locality. With age (≥ 20–45 years), shells often become deformed, particularly posteriorly and around the byssal gape, thereby increasing reproductive capacity (gonadal volume) without increasing somatic growth. Information on the biology, reproductive strategy and life history traits of M. modiolus...

Integrating rehabilitation engineering technology with biologics.

Science.gov (United States)

Collinger, Jennifer L; Dicianno, Brad E; Weber, Douglas J; Cui, Xinyan Tracy; Wang, Wei; Brienza, David M; Boninger, Michael L

2011-06-01

Rehabilitation engineers apply engineering principles to improve function or to solve challenges faced by persons with disabilities. It is critical to integrate the knowledge of biologics into the process of rehabilitation engineering to advance the field and maximize potential benefits to patients. Some applications in particular demonstrate the value of a symbiotic relationship between biologics and rehabilitation engineering. In this review we illustrate how researchers working with neural interfaces and integrated prosthetics, assistive technology, and biologics data collection are currently integrating these 2 fields. We also discuss the potential for further integration of biologics and rehabilitation engineering to deliver the best technologies and treatments to patients. Engineers and clinicians must work together to develop technologies that meet clinical needs and are accessible to the intended patient population. Copyright © 2011 American Academy of Physical Medicine and Rehabilitation. Published by Elsevier Inc. All rights reserved.

Ein Klassiker der Padagogik in Evolutionarer Perspektive: Eduard Sprangers "Lebensformen" im Lichte der Modernen Biologie (A Classic of Pedagogics from an Evolutionary Perspective: Edward Spranger's "Forms of Life" in the Light of Modern Biology).

Science.gov (United States)

Neumann, Dieter

2002-01-01

Interprets Edward Spranger's "Forms of Life" against the background of the findings of modern biology. Shows how far Spranger's diagnosis of different human types, which are not affected by external influences on characteristics, conform with research hypotheses of modern biological sciences. (CAJ)

Suspect online sellers and contraceptive access.

Science.gov (United States)

Liang, Bryan A; Mackey, Tim K; Lovett, Kimberly M

2012-11-01

Issues surrounding contraception access have been a national focus. During this debate, adolescent and adult women may seek these products online. Due to safety concerns, including potential counterfeit forms, we wished to assess whether online "no prescription" contraceptives were available. We assessed online availability of reversible, prescription contraceptive methods resulting in online pharmacy marketing is shifting from direct search engine access to social media (Facebook, Twitter, Slidehare, flickr). Online contraceptive sales represent patient safety risks and a parallel system of high-risk product access absent professional guidance. Providers should educate patients, while policy makers employ legal strategies to address these systemic risks. Copyright © 2012 Elsevier Inc. All rights reserved.

RFID Based Security Access Control System with GSM Technology

OpenAIRE

Peter Adole; Joseph M. Môm; Gabriel A. Igwue

2016-01-01

The security challenges being encountered in many places today require electronic means of controlling access to secured premises in addition to the available security personnel. Various technologies were used in different forms to solve these challenges. The Radio Frequency Identification (RFID) Based Access Control Security system with GSM technology presented in this work helps to prevent unauthorized access to controlled environments (secured premises). This is achieved mainly...

External irradiation facilities open for biological studies - progress in july 2005; Les installations d'irradiation externe accessibles aux etudes de biologie etat d'avancement juillet 2005

Energy Technology Data Exchange (ETDEWEB)

Gaillard-Lecanu, E. [CEA Fontenay aux Roses (DSV/Carmin), 92 (France); Authier, N.; Verrey, B. [CEA Valduc, Dept. Recherche sur les Materiaux Nucleaires, 21 - Is-sur-Tille (France); Bailly, I. [CEA Bruyeres le Chatel, 91 (France). Dept. de Physique Theorique et Appliquee; Baldacchino, G.; Pin, S.; Pommeret, S.; Renault, J.Ph. [CEA Saclay, Dept. de Recherche sur Etat Condense, les Atomes et les Molecules, 91 - Gif sur Yvette (France); Bordy, J.M. [CEA Saclay, Dir. de la Recherche Technologique (DRT/DETECS/LNHB/LMD), 91 - Gif sur Yvette (France); Coffigny, H. [CEA Fontenay aux Roses, Dept. de Radiobiologie et de Radiopathologie, 92 (France); Cortela, L. [CEA Grenoble, ARC-Nucleart, 38 (France); Duval, D. [CEA Saclay, Schering - CIS bio International, 91 - Gif sur Yvette (France); Leplat, J.J. [CEA Saclay (DSV/DRR/LREG), 91 - Gif sur Yvette (France); Poncy, J.L. [CEA Fontenay aux Roses (DSV/DRR/SRCA), 92 (France); Testard, I. [CEA Caen (DSV/DRR/LRO-LARIA), 14 - Caen (France); Thuret, J.Y. [CEA Saclay (DSV/DBJC/SBGM), 91 - Gif sur Yvette (France)

2005-07-01

The Life Science Division of the Atomic Energy Commission is making an inventory of the various radiation sources accessible for investigation on the biological effects of ionizing radiation. In this field, a wide range of studies is being carried out at the Life Science Division, attempting to characterize the kind of lesions with their early biological consequences (on the various cell compartments) and their late biological consequences (deterministic or stochastic effects), in relation to the radiation type and dose, especially at low doses. Several experimental models are available: plants, bacteria, eukaryotic cells from yeast up to mammalian cells and in vivo studies, mostly on rodents, in order to characterize the somatic late effects and the hereditary effects. Due to the significant cost of these facilities, also to their specific properties (nature of the radiation, dose and dose rate, possible accuracy of the irradiation at the molecular level), the closeness is no longer the only criteria for biologists to make a choice. The current evolution is to set up irradiation infrastructures combining ionizing radiation sources themselves and specific tools dedicated to biological studies: cell or molecular biology laboratories, animal facilities. The purpose, in this new frame, is to provide biologists with the most suitable facilities, and, if possible, to change these facilities according to requirements in radiobiology. In this report, the basics of interactions of ionizing radiation with biological tissues are briefly introduced, followed by a presentation of some of the facilities available for radiobiological studies especially at CEA. This panorama is not a comprehensive one, new data will be included as they advance, whether reporting existing facilities or if a new one is developed. (authors)

Power Laws, Scale-Free Networks and Genome Biology

CERN Document Server

Koonin, Eugene V; Karev, Georgy P

2006-01-01

Power Laws, Scale-free Networks and Genome Biology deals with crucial aspects of the theoretical foundations of systems biology, namely power law distributions and scale-free networks which have emerged as the hallmarks of biological organization in the post-genomic era. The chapters in the book not only describe the interesting mathematical properties of biological networks but moves beyond phenomenology, toward models of evolution capable of explaining the emergence of these features. The collection of chapters, contributed by both physicists and biologists, strives to address the problems in this field in a rigorous but not excessively mathematical manner and to represent different viewpoints, which is crucial in this emerging discipline. Each chapter includes, in addition to technical descriptions of properties of biological networks and evolutionary models, a more general and accessible introduction to the respective problems. Most chapters emphasize the potential of theoretical systems biology for disco...

[Classification of organisms and structuralism in biology].

Science.gov (United States)

Vasil'eva, L I

2001-01-01

Structuralism in biology is the oldest trend oriented to the search for natural "laws of forms" comparable with laws of growth of crystal, was revived at the end of 20th century on the basis of structuralist thought in socio-humanitarian sciences. The development of principal ideas of the linguistic structuralism in some aspects is similar to that of biological systematics, especially concerning the relationships between "system" and "evolution". However, apart from this general similarity, biological structuralism is strongly focused on familiar problems of the origin of diversity in nature. In their striving for the renovation of existing views, biological structuralists oppose the neo-darwinism emphasizing the existence of "law of forms", that are independent on heredity and genetic "determinism". The trend to develop so-called "rational taxonomy" is also characteristic of biological structuralism but this attempt failed being connected neither with Darwin's historicism nor with Plato's typology.

Biological strategies for enhanced hydrolysis of lignocellulosic biomass during anaerobic digestion: Current status and future perspectives.

Science.gov (United States)

Shrestha, Shilva; Fonoll, Xavier; Khanal, Samir Kumar; Raskin, Lutgarde

2017-12-01

Lignocellulosic biomass is the most abundant renewable bioresource on earth. In lignocellulosic biomass, the cellulose and hemicellulose are bound with lignin and other molecules to form a complex structure not easily accessible to microbial degradation. Anaerobic digestion (AD) of lignocellulosic biomass with a focus on improving hydrolysis, the rate limiting step in AD of lignocellulosic feedstocks, has received considerable attention. This review highlights challenges with AD of lignocellulosic biomass, factors contributing to its recalcitrance, and natural microbial ecosystems, such as the gastrointestinal tracts of herbivorous animals, capable of performing hydrolysis efficiently. Biological strategies that have been evaluated to enhance hydrolysis of lignocellulosic biomass include biological pretreatment, co-digestion, and inoculum selection. Strategies to further improve these approaches along with future research directions are outlined with a focus on linking studies of microbial communities involved in hydrolysis of lignocellulosics to process engineering. Copyright © 2017 Elsevier Ltd. All rights reserved.

Finding optimal interaction interface alignments between biological complexes

KAUST Repository

Cui, Xuefeng

2015-06-13

Motivation: Biological molecules perform their functions through interactions with other molecules. Structure alignment of interaction interfaces between biological complexes is an indispensable step in detecting their structural similarities, which are keys to understanding their evolutionary histories and functions. Although various structure alignment methods have been developed to successfully access the similarities of protein structures or certain types of interaction interfaces, existing alignment tools cannot directly align arbitrary types of interfaces formed by protein, DNA or RNA molecules. Specifically, they require a \\'blackbox preprocessing\\' to standardize interface types and chain identifiers. Yet their performance is limited and sometimes unsatisfactory. Results: Here we introduce a novel method, PROSTA-inter, that automatically determines and aligns interaction interfaces between two arbitrary types of complex structures. Our method uses sequentially remote fragments to search for the optimal superimposition. The optimal residue matching problem is then formulated as a maximum weighted bipartite matching problem to detect the optimal sequence order-independent alignment. Benchmark evaluation on all non-redundant protein-DNA complexes in PDB shows significant performance improvement of our method over TM-align and iAlign (with the \\'blackbox preprocessing\\'). Two case studies where our method discovers, for the first time, structural similarities between two pairs of functionally related protein-DNA complexes are presented. We further demonstrate the power of our method on detecting structural similarities between a protein-protein complex and a protein-RNA complex, which is biologically known as a protein-RNA mimicry case. © The Author 2015. Published by Oxford University Press.

Opportunities for Merging Chemical and Biological Synthesis

Science.gov (United States)

Wallace, Stephen; Balskus, Emily P.

2014-01-01

Organic chemists and metabolic engineers use largely orthogonal technologies to access small molecules like pharmaceuticals and commodity chemicals. As the use of biological catalysts and engineered organisms for chemical production grows, it is becoming increasingly evident that future efforts for chemical manufacture will benefit from the integration and unified expansion of these two fields. This review will discuss approaches that combine chemical and biological synthesis for small molecule production. We highlight recent advances in combining enzymatic and non-enzymatic catalysis in vitro, discuss the application of design principles from organic chemistry for engineering non-biological reactivity into enzymes, and describe the development of biocompatible chemistry that can be interfaced with microbial metabolism. PMID:24747284

The growing role of biologics and biosimilars in the United States: Perspectives from the APhA Biologics and Biosimilars Stakeholder Conference.

Science.gov (United States)

Crespi-Lofton, Judy; Skelton, Jann B

The American Pharmacists Association (APhA) convened the Biologics and Biosimilars Stakeholder Conference on November 30, 2016, in Washington DC. The objectives of the Conference were to determine the key issues and challenges within the marketplace for biologics, follow-on biologics (FOBs), and biosimilars, identify potential roles and responsibilities of pharmacists regarding biologic and biosimilar medications, and identify actions or activities that pharmacists may take to optimize the safe and cost-effective use of biologics and biosimilars. National thought leaders and stakeholder representatives, including individuals from the Food and Drug Administration, Centers for Medicare and Medicaid Services, a private third-party payer, manufacturers, and several national organizations of health care professionals, participated in the conference. Information shared by this group was supplemented with relevant legal and regulatory information and published literature. Biologics play a valuable role in the treatment of numerous health conditions, but their associated costs, which tend to be greater than those of small-molecule drugs, place a burden on the health care system. Biosimilars (both noninterchangeable and interchangeable) are highly similar copies of the originator biologic and offer the potential to reduce costs and improve patient access to biological products by increasing treatment options and creating a more competitive market. Despite the potential benefits of biosimilars, certain factors may limit their uptake. The conference participants explored issues that different stakeholders think influence the use of biologics, including biosimilars, in the United States. Barriers included technology, prescriber-pharmacist communication, legislation and regulations, limited patient and health care practitioner knowledge of biological products, patient and health care practitioner perceptions of biosimilars, and evolving science or lack of long-term data. After

Electromagnetic form factors at large momenta from lattice QCD

International Nuclear Information System (INIS)

Chambers, Alexander J.; Dragos, J.; Michigan State Univ., East Lansing, MI; Horsley, R.

2017-01-01

Accessing hadronic form factors at large momentum transfers has traditionally presented a challenge for lattice QCD simulations. Here we demonstrate how a novel implementation of the Feynman-Hellmann method can be employed to calculate hadronic form factors in lattice QCD at momenta much higher than previously accessible. Our simulations are performed on a single set of gauge configurations with three flavours of degenerate mass quarks corresponding to m_π∼470 MeV. We are able to determine the electromagnetic form factors of the pion and nucleon up to approximately 6 GeV"2, with results for G_E/G_M in the proton agreeing well with experimental results.

An Access Control Framework for Reflective Middleware

Institute of Scientific and Technical Information of China (English)

Gang Huang; Lian-Shan Sun

2008-01-01

Reflective middleware opens up the implementation details of middleware platform and applications at runtime for improving the adaptability of middleware-based systems. However, such openness brings new challenges to access control of the middleware-based systems.Some users can access the system via reflective entities, which sometimes cannot be protected by access control mechanisms of traditional middleware. To deliver high adaptability securely, reflective middleware should be equipped with proper access control mechanisms for potential access control holes induced by reflection. One reason of integrating these mechanisms in reflective middleware is that one goal of reflective middleware is to equip applications with reflection capabilities as transparent as possible. This paper studies how to design a reflective J2EE middlewarePKUAS with access control in mind. At first, a computation model of reflective system is built to identify all possible access control points induced by reflection. Then a set of access control mechanisms, including the wrapper of MBeans and a hierarchy of Java class loaders, are equipped for controlling the identified access control points. These mechanisms together with J2EE access control mechanism form the access control framework for PKUAS. The paper evaluates the security and the performance overheads of the framework in quality and quantity.

Biological drugs for the treatment of psoriasis in a public health system

Directory of Open Access Journals (Sweden)

Luciane Cruz Lopes

2014-08-01

Full Text Available OBJECTIVE To analyze the access and utilization profile of biological medications for psoriasis provided by the judicial system in Brazil. METHODS This is a cross-sectional study. We interviewed a total of 203 patients with psoriasis who were on biological medications obtained by the judicial system of the State of Sao Paulo, from 2004 to 2010. Sociodemographics, medical, and political-administrative characteristics were complemented with data obtained from dispensation orders that included biological medications to treat psoriasis and the legal actions involved. The data was analyzed using an electronic data base and shown as simple variable frequencies. The prescriptions contained in the lawsuits were analyzed according to legal provisions. RESULTS A total of 190 lawsuits requesting several biological drugs (adalimumab, efalizumab, etanercept, and infliximab were analyzed. Patients obtained these medications as a result of injunctions (59.5% or without having ever demanded biological medication from any health institution (86.2%, i.e., public or private health services. They used the prerogative of free legal aid (72.6%, even though they were represented by private lawyers (91.1% and treated in private facilities (69.5%. Most of the patients used a biological medication for more than 13 months (66.0%, and some patients were undergoing treatment with this medication when interviewed (44.9%. Approximately one third of the patients discontinued treatment due to worsening of their illness (26.6%, adverse drug reactions (20.5%, lack of efficacy, or because the doctor discontinued this medication (13.8%. None of the analyzed medical prescriptions matched the legal prescribing requirements. Clinical monitoring results showed that 70.3% of the patients had not undergone laboratory examinations (blood work, liver and kidney function tests for treatment control purposes. CONCLUSIONS The plaintiffs resorted to legal action to get access to biological

Biological drugs for the treatment of psoriasis in a public health system

Science.gov (United States)

Lopes, Luciane Cruz; Silveira, Miriam Sanches do Nascimento; de Camargo, Iara Alves; Barberato, Silvio; Del Fiol, Fernando de Sá; Osorio-de-Castro, Claudia Garcia Serpa

2014-01-01

OBJECTIVE To analyze the access and utilization profile of biological medications for psoriasis provided by the judicial system in Brazil. METHODS This is a cross-sectional study. We interviewed a total of 203 patients with psoriasis who were on biological medications obtained by the judicial system of the State of Sao Paulo, from 2004 to 2010. Sociodemographics, medical, and political-administrative characteristics were complemented with data obtained from dispensation orders that included biological medications to treat psoriasis and the legal actions involved. The data was analyzed using an electronic data base and shown as simple variable frequencies. The prescriptions contained in the lawsuits were analyzed according to legal provisions. RESULTS A total of 190 lawsuits requesting several biological drugs (adalimumab, efalizumab, etanercept, and infliximab) were analyzed. Patients obtained these medications as a result of injunctions (59.5%) or without having ever demanded biological medication from any health institution (86.2%), i.e., public or private health services. They used the prerogative of free legal aid (72.6%), even though they were represented by private lawyers (91.1%) and treated in private facilities (69.5%). Most of the patients used a biological medication for more than 13 months (66.0%), and some patients were undergoing treatment with this medication when interviewed (44.9%). Approximately one third of the patients discontinued treatment due to worsening of their illness (26.6%), adverse drug reactions (20.5%), lack of efficacy, or because the doctor discontinued this medication (13.8%). None of the analyzed medical prescriptions matched the legal prescribing requirements. Clinical monitoring results showed that 70.3% of the patients had not undergone laboratory examinations (blood work, liver and kidney function tests) for treatment control purposes. CONCLUSIONS The plaintiffs resorted to legal action to get access to biological medications

iFORM: Incorporating Find Occurrence of Regulatory Motifs.

Science.gov (United States)

Ren, Chao; Chen, Hebing; Yang, Bite; Liu, Feng; Ouyang, Zhangyi; Bo, Xiaochen; Shu, Wenjie

2016-01-01

Accurately identifying the binding sites of transcription factors (TFs) is crucial to understanding the mechanisms of transcriptional regulation and human disease. We present incorporating Find Occurrence of Regulatory Motifs (iFORM), an easy-to-use and efficient tool for scanning DNA sequences with TF motifs described as position weight matrices (PWMs). Both performance assessment with a receiver operating characteristic (ROC) curve and a correlation-based approach demonstrated that iFORM achieves higher accuracy and sensitivity by integrating five classical motif discovery programs using Fisher's combined probability test. We have used iFORM to provide accurate results on a variety of data in the ENCODE Project and the NIH Roadmap Epigenomics Project, and the tool has demonstrated its utility in further elucidating individual roles of functional elements. Both the source and binary codes for iFORM can be freely accessed at https://github.com/wenjiegroup/iFORM. The identified TF binding sites across human cell and tissue types using iFORM have been deposited in the Gene Expression Omnibus under the accession ID GSE53962.

Seed biometric parameters in oil palm accessions from a Brazilian germplasm bank

Directory of Open Access Journals (Sweden)

Julcéia Camillo

2014-08-01

Full Text Available The objective of this work was to evaluate the morphological diversity of oil palm seeds and to cluster the accessions according to their morphological characteristics. Forty-one accessions from the oil palm germplasm bank of Embrapa Amazônia Ocidental were evaluated - 18 of Elaeis oleifera and 23 of E. guineensis. The groups were formed based on morphological characteristics, by principal component analysis. In E. oleifera, four groups were formed, tied to their region of origin, but with significant morphological differences between accessions from the same population. For tenera-type E. guineensis seeds, three widely divergent groups were formed, especially as to external parameters, which differentiated them from the other ones. The parameter endocarp thickness stood out in intra- and inter-population differentiation. For dura-type E. guineensis, three groups were formed, with larger seeds and thicker endocarps, which differed from all the other ones. The variability observed for seed characteristics in the analyzed accessions allows the establishment of different groups, to define strategies for genetic improvement.

In Search of Market Access: Why the Doha “Plan B” for December 2011 is likely to fail Effective Market Access (Part I)

OpenAIRE

Carrere, Céline; De Melo, Jaime

2011-01-01

Once again the Doha Round negotiators are struggling to reach an agreement, this time by mid-December on a “plan B” package that would give increased market access to Least Developed Countries (LDCs) in the form of duty-free-quota free (DFQF) access accompanied by simplified rules of origin. Estimating ‘effective market access' to the two largest ‘preference-givers', the US and EU preferences, this note shows that remaining market access left for the LDCs is negligible at around 3 percent in ...

Text mining for biology--the way forward

DEFF Research Database (Denmark)

Altman, Russ B; Bergman, Casey M; Blake, Judith

2008-01-01

This article collects opinions from leading scientists about how text mining can provide better access to the biological literature, how the scientific community can help with this process, what the next steps are, and what role future BioCreative evaluations can play. The responses identify...... several broad themes, including the possibility of fusing literature and biological databases through text mining; the need for user interfaces tailored to different classes of users and supporting community-based annotation; the importance of scaling text mining technology and inserting it into larger...

Prediction of phenotypes of missense mutations in human proteins from biological assemblies.

Science.gov (United States)

Wei, Qiong; Xu, Qifang; Dunbrack, Roland L

2013-02-01

Single nucleotide polymorphisms (SNPs) are the most frequent variation in the human genome. Nonsynonymous SNPs that lead to missense mutations can be neutral or deleterious, and several computational methods have been presented that predict the phenotype of human missense mutations. These methods use sequence-based and structure-based features in various combinations, relying on different statistical distributions of these features for deleterious and neutral mutations. One structure-based feature that has not been studied significantly is the accessible surface area within biologically relevant oligomeric assemblies. These assemblies are different from the crystallographic asymmetric unit for more than half of X-ray crystal structures. We find that mutations in the core of proteins or in the interfaces in biological assemblies are significantly more likely to be disease-associated than those on the surface of the biological assemblies. For structures with more than one protein in the biological assembly (whether the same sequence or different), we find the accessible surface area from biological assemblies provides a statistically significant improvement in prediction over the accessible surface area of monomers from protein crystal structures (P = 6e-5). When adding this information to sequence-based features such as the difference between wildtype and mutant position-specific profile scores, the improvement from biological assemblies is statistically significant but much smaller (P = 0.018). Combining this information with sequence-based features in a support vector machine leads to 82% accuracy on a balanced dataset of 50% disease-associated mutations from SwissVar and 50% neutral mutations from human/primate sequence differences in orthologous proteins. Copyright © 2012 Wiley Periodicals, Inc.

Data management and data enrichment for systems biology projects.

Science.gov (United States)

Wittig, Ulrike; Rey, Maja; Weidemann, Andreas; Müller, Wolfgang

2017-11-10

Collecting, curating, interlinking, and sharing high quality data are central to de.NBI-SysBio, the systems biology data management service center within the de.NBI network (German Network for Bioinformatics Infrastructure). The work of the center is guided by the FAIR principles for scientific data management and stewardship. FAIR stands for the four foundational principles Findability, Accessibility, Interoperability, and Reusability which were established to enhance the ability of machines to automatically find, access, exchange and use data. Within this overview paper we describe three tools (SABIO-RK, Excemplify, SEEK) that exemplify the contribution of de.NBI-SysBio services to FAIR data, models, and experimental methods storage and exchange. The interconnectivity of the tools and the data workflow within systems biology projects will be explained. For many years we are the German partner in the FAIRDOM initiative (http://fair-dom.org) to establish a European data and model management service facility for systems biology. Copyright © 2017 The Authors. Published by Elsevier B.V. All rights reserved.

New partnerships and business models for facilitating energy access

International Nuclear Information System (INIS)

Chaurey, Akanksha; Krithika, P.R.; Palit, Debajit; Rakesh, Smita; Sovacool, Benjamin K.

2012-01-01

Twenty years since the Rio Summit, the global community is still struggling to develop a world with universal access to sustainable energy services. The discussion on energy and its linkages with sustainable development is at the heart of the debate in achieving the Millennium Development Goals (MDGs). This paper discusses the role of innovations in terms of partnerships and business models to enhance energy access, especially for those living at the so-called bottom of pyramid. The role of innovative energy options and policy choices that enable overall operationalization of energy access in developing countries as well as new forms of partnerships and innovative mechanisms that are based on established success, replicability and potential for scaling up has been examined through two case-studies, namely the Lighting a Billion Lives project and India's National Rural Electrification Programme. This paper suggests the need for new forms of public and private sector partnerships, especially the pro-poor ones that are effective in enhancing energy access. - Highlights: ► We analyze the role of new partnerships and innovations in energy access. ► Emerging context of 5Ps in delivery of energy access is used for this analysis. ► LaBL and India's Rural Electrification programme used as examples. ► We recommend the need for pro-poor PPP for enhancing energy access.

The Human Genome Project: Information access, management, and regulation. Final report

Energy Technology Data Exchange (ETDEWEB)

McInerney, J.D.; Micikas, L.B.

1996-08-31

The Human Genome Project is a large, internationally coordinated effort in biological research directed at creating a detailed map of human DNA. This report describes the access of information, management, and regulation of the project. The project led to the development of an instructional module titled The Human Genome Project: Biology, Computers, and Privacy, designed for use in high school biology classes. The module consists of print materials and both Macintosh and Windows versions of related computer software-Appendix A contains a copy of the print materials and discs containing the two versions of the software.

Field Markup Language: biological field representation in XML.

Science.gov (United States)

Chang, David; Lovell, Nigel H; Dokos, Socrates

2007-01-01

With an ever increasing number of biological models available on the internet, a standardized modeling framework is required to allow information to be accessed or visualized. Based on the Physiome Modeling Framework, the Field Markup Language (FML) is being developed to describe and exchange field information for biological models. In this paper, we describe the basic features of FML, its supporting application framework and its ability to incorporate CellML models to construct tissue-scale biological models. As a typical application example, we present a spatially-heterogeneous cardiac pacemaker model which utilizes both FML and CellML to describe and solve the underlying equations of electrical activation and propagation.

VIERS Electronic Form Submission Service (EFSS)

Data.gov (United States)

Department of Veterans Affairs — The D2D EFSS (Inc 1 and 2) provides a common access point to standardize, centralize, and integrate the universal collection of Benefit Claim Forms and supporting...

The Role of Genome Accessibility in Transcription Factor Binding in Bacteria.

Directory of Open Access Journals (Sweden)

Antonio L C Gomes

2016-04-01

Full Text Available ChIP-seq enables genome-scale identification of regulatory regions that govern gene expression. However, the biological insights generated from ChIP-seq analysis have been limited to predictions of binding sites and cooperative interactions. Furthermore, ChIP-seq data often poorly correlate with in vitro measurements or predicted motifs, highlighting that binding affinity alone is insufficient to explain transcription factor (TF-binding in vivo. One possibility is that binding sites are not equally accessible across the genome. A more comprehensive biophysical representation of TF-binding is required to improve our ability to understand, predict, and alter gene expression. Here, we show that genome accessibility is a key parameter that impacts TF-binding in bacteria. We developed a thermodynamic model that parameterizes ChIP-seq coverage in terms of genome accessibility and binding affinity. The role of genome accessibility is validated using a large-scale ChIP-seq dataset of the M. tuberculosis regulatory network. We find that accounting for genome accessibility led to a model that explains 63% of the ChIP-seq profile variance, while a model based in motif score alone explains only 35% of the variance. Moreover, our framework enables de novo ChIP-seq peak prediction and is useful for inferring TF-binding peaks in new experimental conditions by reducing the need for additional experiments. We observe that the genome is more accessible in intergenic regions, and that increased accessibility is positively correlated with gene expression and anti-correlated with distance to the origin of replication. Our biophysically motivated model provides a more comprehensive description of TF-binding in vivo from first principles towards a better representation of gene regulation in silico, with promising applications in systems biology.

Synthetic biology analysed tools for discussion and evaluation

CERN Document Server

2016-01-01

Synthetic biology is a dynamic, young, ambitious, attractive, and heterogeneous scientific discipline. It is constantly developing and changing, which makes societal evaluation of this emerging new science a challenging task, prone to misunderstandings. Synthetic biology is difficult to capture, and confusion arises not only regarding which part of synthetic biology the discussion is about, but also with respect to the underlying concepts in use. This book offers a useful toolbox to approach this complex and fragmented field. It provides a biological access to the discussion using a 'layer' model that describes the connectivity of synthetic or semisynthetic organisms and cells to the realm of natural organisms derived by evolution. Instead of directly reviewing the field as a whole, firstly our book addresses the characteristic features of synthetic biology that are relevant to the societal discussion. Some of these features apply only to parts of synthetic biology, whereas others are relevant to synthetic bi...

29 CFR 1960.69 - Retention and updating of old forms.

Science.gov (United States)

2010-07-01

... in effect prior to January 1, 2005 for five years following the year to which they relate and continue to provide access to the data as though these forms were the OSHA Form 300 Log and Form 301...

Study of transitory forms of carotenoids

International Nuclear Information System (INIS)

Mathis, Paul

1970-01-01

In order to explain the biological role of the carotenoids their transitory forms were studied with an apparatus measuring the small (∼10 -3 ) short-lived (100 ns to 1 ms) optical density variations obtained by excitation with a ruby laser. Two forms were studied: a) Triplet state 3 Car. - This state (t 1/2 ∼6 μs) is obtained not by direct excitation but by T-T energy transfer from chlorophyll, in different media (chloroplasts, pigments in solution or in micelle). Two arguments can be advanced to explain in terms of triplet energy transfer an essential biological role of carotenoids, protection against photodynamic effects: - the energy level of 3 Car is lower than that of the singlet of oxygen; - in vivo the T-T transfer from chlorophyll to the carotenoids is very fast: 30 ns.. b) Radical cation Car + . - This form is obtained by electron transfer from carotene to the triplet of Toluidine Blue, in ethanol. Car + (t 1/2 ∼200 μs) shows a strong absorption band at 910 nm. The properties of Car + are discussed in relation to other polyene derivatives and to hydrocarbon ions. Car + could be involved in certain biological electron transfers. (author) [fr

Analysis of biological spectrum of Divčibare flora

Directory of Open Access Journals (Sweden)

Popović Ivana

2006-01-01

Full Text Available One of the essential analyses which is performed during the floristic study of a region is the analysis of the biological spectrum. The analysis of the biological spectrum of the flora includes the determination of the type of life form for each taxon described in the flora of the study region. If it is considered that life form is a specific structural-functional response to the environmental effects and the result of the adaptation during the species evolution, it is clear that the basic characteristics of the site are more or less reflected in any life form. This fact is confirmed by the analysis of the biological spectrum of Divčibare flora. The study results are in correlation with the results of the analysis of the biological spectrum of the flora of Serbia and the Balkan Peninsula.

Optical Access Networks

Science.gov (United States)

Zheng, Jun; Ansari, Nirwan

2005-01-01

have been receiving tremendous attention from both academia and industry. A large number of research activities have been carried out or are now underway this hot area. The purpose of this feature issue is to expose the networking community to the latest research breakthroughs and progresses in the area of optical access networks. Scope of Contributions This feature issue aims to present a collection of papers that focus on the state-of-the-art research in various networking aspects of optical access networks. Original papers are solicited from all researchers involved in area of optical access networks. Topics of interest include but not limited to: Optical access network architectures and protocols Passive optical networks (BPON, EPON, GPON, etc.) Active optical networks Multiple access control Multiservices and QoS provisioning Network survivability Field trials and standards Performance modeling and analysis Manuscript Submission To submit to this special issue, follow the normal procedure for submission to JON, indicating ``Optical Access Networks feature' in the ``Comments' field of the online submission form. For all other questions relating to this feature issue, please send an e-mail to jon@osa.org, subject line ``Optical Access Networks' Additional information can be found on the JON website: http://www.osa-jon.org/submission/. Submission Deadline: 1 June 2005

Yeast systems biology to unravel the network of life

DEFF Research Database (Denmark)

Mustacchi, Roberta; Hohmann, S; Nielsen, Jens

2006-01-01

Systems biology focuses on obtaining a quantitative description of complete biological systems, even complete cellular function. In this way, it will be possible to perform computer-guided design of novel drugs, advanced therapies for treatment of complex diseases, and to perform in silico design....... Furthermore, it serves as an industrial workhorse for production of a wide range of chemicals and pharmaceuticals. Systems biology involves the combination of novel experimental techniques from different disciplines as well as functional genomics, bioinformatics and mathematical modelling, and hence no single...... laboratory has access to all the necessary competences. For this reason the Yeast Systems Biology Network (YSBN) has been established. YSBN will coordinate research efforts, in yeast systems biology and, through the recently obtained EU funding for a Coordination Action, it will be possible to set...

Laboratory of Biological Modeling

Data.gov (United States)

Federal Laboratory Consortium — The Laboratory of Biological Modeling is defined by both its methodologies and its areas of application. We use mathematical modeling in many forms and apply it to a...

Open access and knowledge sharing: reflections on the Pathfinder projects and Open Access Good Practice initiative

Directory of Open Access Journals (Sweden)

Hannah DeGroff

2016-07-01

Full Text Available The following article provides a selection of reflections from a number of higher education institutions and their staff about participation in the UK-wide Pathfinder project scheme. These nine projects (comprising 30 institutions form the core of the Jisc-funded Open Access Good Practice initiative. They have produced a wide range of outputs which endorse and encourage best practice when implementing open access across institutions. Each project has a blog where progress and outputs can be tracked. Details are listed at the end of this article.

Mining biological networks from full-text articles.

Science.gov (United States)

Czarnecki, Jan; Shepherd, Adrian J

2014-01-01

The study of biological networks is playing an increasingly important role in the life sciences. Many different kinds of biological system can be modelled as networks; perhaps the most important examples are protein-protein interaction (PPI) networks, metabolic pathways, gene regulatory networks, and signalling networks. Although much useful information is easily accessible in publicly databases, a lot of extra relevant data lies scattered in numerous published papers. Hence there is a pressing need for automated text-mining methods capable of extracting such information from full-text articles. Here we present practical guidelines for constructing a text-mining pipeline from existing code and software components capable of extracting PPI networks from full-text articles. This approach can be adapted to tackle other types of biological network.

Accessing Your Health Information: How can I access my health information and medical records?

Science.gov (United States)

... from the doctor’s office. Visit the Guide to Getting & Using Your Health Records for practical tips to help you access, review, and make the most of your health records. Open Survey Content last reviewed on April 4, 2018 Was this page helpful? Yes No Form Approved OMB# 0990-0379 Exp. Date ...

National Measures on Access to Genetic Resources and Benefit Sharing – The Case of the Philippines

Directory of Open Access Journals (Sweden)

Aphrodite Smagadi

2005-06-01

Full Text Available The objective of the Convention on Biological Diversity stipulated at the United Nations Conference on Environment and Development (Rio de Janeiro, 1992 was not merely to promote the conservation and sustainable use of biological resources, but to ensure the fair and equitable sharing of benefits arising from their utilisation. The Convention stresses the sovereignty that signatory states exert over the biological wealth within their jurisdiction and calls on them to enact national legislation that will contribute to fleshing out the provisions on access to genetic resources and benefit sharing. The Philippines was the first country to enact such legislation and has thus accrued a decade of experience in this field. The first and much-analysed access and benefit sharing instrument enacted by the Government of the Philippines, was Executive Order 247 of 1995. However, due to problems experienced during the implementation of the Order, draft guidelines based on the 2001 Implementing Rules to the Wildlife Act have been drafted and are expected to correct the failures of the previous law. This article takes the example of the Philippines to assess the extent to which laws regulating the access and benefit sharing of biological resources can be effective in any country.

Biological indication in aquatic ecosystems. Biological indication in limnic and coastal ecosystems - fundamentals, techniques, methodology

International Nuclear Information System (INIS)

Gunkel, G.

1994-01-01

Biological methods of water quality evaluation today form an integral part of environmental monitoring and permit to continuously monitor the condition of aquatic ecosystems. They indicate both improvements in water quality following redevelopment measures, and the sometimes insidious deterioration of water quality. This book on biological indication in aquatic ecosystems is a compendium of measurement and evaluation techniques for limnic systems by means of biological parameters. At present, however, an intense discussion of biological evaluation techniques is going on, for one thing as a consequence of the German reunification and the need to unify evaluation techniques, and for another because of harmonizations within the European Community. (orig./EF) [de

Integrating systems biology models and biomedical ontologies.

Science.gov (United States)

Hoehndorf, Robert; Dumontier, Michel; Gennari, John H; Wimalaratne, Sarala; de Bono, Bernard; Cook, Daniel L; Gkoutos, Georgios V

2011-08-11

Systems biology is an approach to biology that emphasizes the structure and dynamic behavior of biological systems and the interactions that occur within them. To succeed, systems biology crucially depends on the accessibility and integration of data across domains and levels of granularity. Biomedical ontologies were developed to facilitate such an integration of data and are often used to annotate biosimulation models in systems biology. We provide a framework to integrate representations of in silico systems biology with those of in vivo biology as described by biomedical ontologies and demonstrate this framework using the Systems Biology Markup Language. We developed the SBML Harvester software that automatically converts annotated SBML models into OWL and we apply our software to those biosimulation models that are contained in the BioModels Database. We utilize the resulting knowledge base for complex biological queries that can bridge levels of granularity, verify models based on the biological phenomenon they represent and provide a means to establish a basic qualitative layer on which to express the semantics of biosimulation models. We establish an information flow between biomedical ontologies and biosimulation models and we demonstrate that the integration of annotated biosimulation models and biomedical ontologies enables the verification of models as well as expressive queries. Establishing a bi-directional information flow between systems biology and biomedical ontologies has the potential to enable large-scale analyses of biological systems that span levels of granularity from molecules to organisms.

Characteristics of Open Access Journals in Six Subject Areas

Science.gov (United States)

Walters, William H.; Linvill, Anne C.

2011-01-01

We examine the characteristics of 663 Open Access (OA) journals in biology, computer science, economics, history, medicine, and psychology, then compare the OA journals with impact factors to comparable subscription journals. There is great variation in the size of OA journals; the largest publishes more than 2,700 articles per year, but half…

CellBase, a comprehensive collection of RESTful web services for retrieving relevant biological information from heterogeneous sources.

Science.gov (United States)

Bleda, Marta; Tarraga, Joaquin; de Maria, Alejandro; Salavert, Francisco; Garcia-Alonso, Luz; Celma, Matilde; Martin, Ainoha; Dopazo, Joaquin; Medina, Ignacio

2012-07-01

During the past years, the advances in high-throughput technologies have produced an unprecedented growth in the number and size of repositories and databases storing relevant biological data. Today, there is more biological information than ever but, unfortunately, the current status of many of these repositories is far from being optimal. Some of the most common problems are that the information is spread out in many small databases; frequently there are different standards among repositories and some databases are no longer supported or they contain too specific and unconnected information. In addition, data size is increasingly becoming an obstacle when accessing or storing biological data. All these issues make very difficult to extract and integrate information from different sources, to analyze experiments or to access and query this information in a programmatic way. CellBase provides a solution to the growing necessity of integration by easing the access to biological data. CellBase implements a set of RESTful web services that query a centralized database containing the most relevant biological data sources. The database is hosted in our servers and is regularly updated. CellBase documentation can be found at http://docs.bioinfo.cipf.es/projects/cellbase.

Structure of the cleavage-activated prefusion form of the parainfluenza virus 5 fusion protein.

Science.gov (United States)

Welch, Brett D; Liu, Yuanyuan; Kors, Christopher A; Leser, George P; Jardetzky, Theodore S; Lamb, Robert A

2012-10-09

The paramyxovirus parainfluenza virus 5 (PIV5) enters cells by fusion of the viral envelope with the plasma membrane through the concerted action of the fusion (F) protein and the receptor binding protein hemagglutinin-neuraminidase. The F protein folds initially to form a trimeric metastable prefusion form that is triggered to undergo large-scale irreversible conformational changes to form the trimeric postfusion conformation. It is thought that F refolding couples the energy released with membrane fusion. The F protein is synthesized as a precursor (F0) that must be cleaved by a host protease to form a biologically active molecule, F1,F2. Cleavage of F protein is a prerequisite for fusion and virus infectivity. Cleavage creates a new N terminus on F1 that contains a hydrophobic region, known as the FP, which intercalates target membranes during F protein refolding. The crystal structure of the soluble ectodomain of the uncleaved form of PIV5 F is known; here we report the crystal structure of the cleavage-activated prefusion form of PIV5 F. The structure shows minimal movement of the residues adjacent to the protease cleavage site. Most of the hydrophobic FP residues are buried in the uncleaved F protein, and only F103 at the newly created N terminus becomes more solvent-accessible after cleavage. The conformational freedom of the charged arginine residues that compose the protease recognition site increases on cleavage of F protein.

WWW.Cell Biology Education: Using the World Wide Web to Develop a New Teaching Topic

Science.gov (United States)

Blystone, Robert V.; MacAlpine, Barbara

2005-01-01

"Cell Biology Education" calls attention each quarter to several Web sites of educational interest to the biology community. The Internet provides access to an enormous array of potential teaching materials. In this article, the authors describe one approach for using the World Wide Web to develop a new college biology laboratory exercise. As a…

News: Synthetic biology leading to specialty chemicals

Science.gov (United States)

Synthetic biology can combine the disciplines of biology, engineering, and chemistry productively to form molecules of great scientific and commercial value. Recent advances in the new field are explored for their connection to new tools that have been used to elucidate productio...

Facile Chemical Access to Biologically Active Norcantharidin Derivatives from Biomass

Directory of Open Access Journals (Sweden)

Konstantin I. Galkin

2017-12-01

Full Text Available Reductive amination of 2,5-diformylfuran (DFF was used to implement the transition from bio-derived 5-hydroxymethylfurfural (HMF to pharmaceuticals. The synthesized bis(aminomethylfurans were utilized as building blocks for the construction of new derivatives with structural cores of naturally occurring biologically active compounds. Using the one-pot procedure, which included the Diels–Alder reaction followed by hydrogenation of the double bond, bio-derived analogues of the anticancer drug norcantharidin were obtained. The cyclization process was diastereoselective, and resulted in the formation of tricyclic products with the endo configuration. Analysis of cytotoxycity for the resulting tricyclic amine-containing compounds showed an increase of anticancer activity as compared with the unsubstituted norcantharimide.

Imaging and the new biology: What's wrong with this picture?

Science.gov (United States)

Vannier, Michael W.

2004-05-01

The Human Genome has been defined, giving us one part of the equation that stems from the central dogma of molecular biology. Despite this awesome scientific achievement, the correspondence between genomics and imaging is weak, since we cannot predict an organism's phenotype from even perfect knowledge of its genetic complement. Biological knowledge comes in several forms, and the genome is perhaps the best known and most completely understood type. Imaging creates another form of biological information, providing the ability to study morphology, growth and development, metabolic processes, and diseases in vitro and in vivo at many levels of scale. The principal challenge in biomedical imaging for the future lies in the need to reconcile the data provided by one or multiple modalities with other forms of biological knowledge, most importantly the genome, proteome, physiome, and other "-ome's." To date, the imaging science community has not set a high priority on the unification of their results with genomics, proteomics, and physiological functions in most published work. Images are relatively isolated from other forms of biological data, impairing our ability to conceive and address many fundamental questions in research and clinical practice. This presentation will explain the challenge of biological knowledge integration in basic research and clinical applications from the standpoint of imaging and image processing. The impediments to progress, isolation of the imaging community, and mainstream of new and future biological science will be identified, so the critical and immediate need for change can be highlighted.

Rapid classification of biological components

Energy Technology Data Exchange (ETDEWEB)

Thompson, Vicki S.; Barrett, Karen B.; Key, Diane E.

2013-10-15

A method is disclosed for analyzing a biological sample by antibody profiling for identifying forensic samples or for detecting the presence of an analyte. In an illustrative embodiment of the invention, the analyte is a drug, such as marijuana, cocaine (crystalline tropane alkaloid), methamphetamine, methyltestosterone, or mesterolone. The method involves attaching antigens to a surface of a solid support in a preselected pattern to form an array wherein the locations of the antigens are known; contacting the array with the biological sample such that a portion of antibodies in the sample reacts with and binds to antigens in the array, thereby forming immune complexes; washing away antibodies that do not form immune complexes; and detecting the immune complexes, thereby forming an antibody profile. Forensic samples are identified by comparing a sample from an unknown source with a sample from a known source. Further, an assay, such as a test for illegal drug use, can be coupled to a test for identity such that the results of the assay can be positively correlated to a subject's identity.

Rapid classification of biological components

Energy Technology Data Exchange (ETDEWEB)

Thompson, Vicki S. (Idaho Falls, ID); Barrett, Karen B. (Meridian, ID); Key, Diane E. (Idaho Falls, ID)

2010-03-23

A method is disclosed for analyzing a biological sample by antibody profiling for identifying forensic samples or for detecting the presence of an analyte. In an illustrative embodiment of the invention, the analyte is a drug, such as marijuana, cocaine (crystalline tropane alkaloid), methamphetamine, methyltestosterone, or mesterolone. The method involves attaching antigens to a surface of a solid support in a preselected pattern to form an array wherein the locations of the antigens are known; contacting the array with the biological sample such that a portion of antibodies in the sample reacts with and binds to antigens in the array, thereby forming immune complexes; washing away antibodies that do not form immune complexes; and detecting the immune complexes, thereby forming an antibody profile. Forensic samples are identified by comparing a sample from an unknown source with a sample from a known source. Further, an assay, such as a test for illegal drug use, can be coupled to a test for identity such that the results of the assay can be positively correlated to a subject's identity.

Rapid classification of biological components

Energy Technology Data Exchange (ETDEWEB)

Thompson, Vicki S. (Idaho Falls, ID); Barrett, Karen B. (Meridian, ID); Key, Diane E. (Idaho Falls, ID)

2010-03-23

A method is disclosed for analyzing a biological sample by antibody profiling for identifying forensic samples or for detecting the presence of an analyte. In an illustrative embodiment of the invention, the analyte is a drug, such as marijuana, Cocaine (crystalline tropane alkaloid), methamphetamine, methyltestosterone, or mesterolone. The method involves attaching antigens of the surface of a solid support in a preselected pattern to form an array wherein the locations of the antigens are known; contacting the array with the biological sample such that a portion of antibodies in the sample reacts with and binds to antigens in the array, thereby forming immune complexes; washing away antibodies that do not form immune complexes; and detecting the immune complexes, thereby forming an antibody profile. Forensic samples are identified by comparing a sample from an unknown source with a sample from a known source. Further, an assay, such as a test for illegal drug use, can be coupled to a test for identity such that the results of the assay can be positively correlated to a subject's identity.

Rapid classification of biological components

Energy Technology Data Exchange (ETDEWEB)

Thompson, Vicki S.; Barrett, Karen B.; Key, Diane E.

2006-01-24

A method is disclosed for analyzing a biological sample by antibody profiling for identifying forensic samples or for detecting the presence of an analyte. In an illustrative embodiment of the invention, the analyte is a drug, such as marijuana, cocaine, methamphetamine, methyltestosterone, or mesterolone. The method involves attaching antigens to the surface of a solid support in a preselected pattern to form an array wherein the locations of the antigens are known; contacting the array with the biological sample such that a portion of antibodies in the sample reacts with and binds to antigens in the array, thereby forming immune complexes; washing away antibodies that do form immune complexes; and detecting the immune complexes, thereby forming an antibody profile. Forensic samples are identified by comparing a sample from an unknown source with a sample from a known source. Further, an assay, such as a test for illegal drug use, can be coupled to a test for identity such that the results of the assay can be positively correlated to the subject's identity.

Traditional Knowledge in the Time of Neo-Liberalism: Access and Benefit-Sharing Regimes in India and Bhutan

Directory of Open Access Journals (Sweden)

Indrani Barpujari

2017-03-01

Full Text Available In a neoliberal world, traditional knowledge (TK of biodiversity possessed by Indigenous and Local Communities (ILCs in the global South has become a valuable "commodity" or "bio-resource," necessitating the setting up of harmonized ground rules (international and national in the form of an access and benefitsharing regime to facilitate its exchange in the world market. Despite criticisms that a regime with a neo-liberal orientation is antithetical to the normative ethos of ILCs, it could also offer a chance for developing countries and ILCs to generate revenue for socioeconomic development—to which they are gradually becoming open, but only under fair and equitable terms. Based on this context, this article proposes to look into the legal and policy frameworks and institutional regimes governing access and benefit sharing of TK associated with biological resources in two countries of South Asia: India and Bhutan. The article seeks to examine how such regimes are reconciling the imperatives of a neo-liberal economy with providing a just and equitable framework for ILCs and TK holders, which is truly participatory and not top-down.

Review of Pasteuria penetrans: Biology, Ecology, and Biological Control Potential.

Science.gov (United States)

Chen, Z X; Dickson, D W

1998-09-01

Pasteuria penetrans is a mycelial, endospore-forming, bacterial parasite that has shown great potential as a biological control agent of root-knot nematodes. Considerable progress has been made during the last 10 years in understanding its biology and importance as an agent capable of effectively suppressing root-knot nematodes in field soil. The objective of this review is to summarize the current knowledge of the biology, ecology, and biological control potential of P. penetrans and other Pasteuria members. Pasteuria spp. are distributed worldwide and have been reported from 323 nematode species belonging to 116 genera of free-living, predatory, plant-parasitic, and entomopathogenic nematodes. Artificial cultivation of P. penetrans has met with limited success; large-scale production of endospores depends on in vivo cultivation. Temperature affects endospore attachment, germination, pathogenesis, and completion of the life cycle in the nematode pseudocoelom. The biological control potential of Pasteuria spp. have been demonstrated on 20 crops; host nematodes include Belonolaimus longicaudatus, Heterodera spp., Meloidogyne spp., and Xiphinema diversicaudatum. Pasteuria penetrans plays an important role in some suppressive soils. The efficacy of the bacterium as a biological control agent has been examined. Approximately 100,000 endospores/g of soil provided immediate control of the peanut root-knot nematode, whereas 1,000 and 5,000 endospores/g of soil each amplified in the host nematode and became suppressive after 3 years.

[Implementation of safety devices: biological accident prevention].

Science.gov (United States)

Catalán Gómez, M Teresa; Sol Vidiella, Josep; Castellà Castellà, Manel; Castells Bo, Carolina; Losada Pla, Nuria; Espuny, Javier Lluís

2010-04-01

Accidental exposures to blood and biological material were the most frequent and potentially serious accidents in healthcare workers, reported in the Prevention of Occupational Risks Unit within 2002. Evaluate the biological percutaneous accidents decrease after a progressive introduction of safety devices. Biological accidents produced between 2.002 and 2.006 were analyzed and reported by the injured healthcare workers to the Level 2b Hospital Prevention of Occupational Risk Unit with 238 beds and 750 employees. The key of the study was the safety devices (peripheral i.v. catheter, needleless i.v. access device and capillary blood collection lancet). Within 2002, 54 percutaneous biological accidents were registered and 19 in 2006, that represents a 64.8% decreased. There has been no safety devices accident reported involving these material. Accidents registered during the implantation period occurred because safety devices were not used at that time. Safety devices have proven to be effective in reducing needle stick percutaneous accidents, so that they are a good choice in the primary prevention of biological accidents contact.

Biological, chemical, physical and time series data collected from station WQB04 by University of Hawai'i at Hilo and assembled by Pacific Islands Ocean Observing System (PacIOOS) in the North Pacific Ocean from 2010-10-23 to 2016-12-31 (NCEI Accession 0161523)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — NCEI Accession 0161523 contains biological, chemical, physical and time series data in netCDF formatted files, which follow the Climate and Forecast metadata...

The principle of the accessibility of the right to education (international aspect

Directory of Open Access Journals (Sweden)

Karapetyan G.A.

2017-06-01

Full Text Available the article describes the principle of the accessibility of the right to education from the perspective of international legal documents; establishes the forms of the accessibility according to the signs of directionality and duration of education; detects the types of the accessibility in the context of international acts.

Marine Biological Survey, Peacock Point Outfall, Wake Atoll June 1998 (NODC Accession 0000247)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — The U.S. Army Space and Missile Defense Command (SMDC), in support of the Ballistic Missile Defense Organization (BMDO) sponsored a marine biological survey at Wake...

Game theory and its applications in the social and biological sciences

CERN Document Server

Colman, Andrew M; Humphreys, Peter; Negrine, Ralph

2013-01-01

Andrew Coleman provides an accessible introduction to the fundamentals of mathematical gaming and other major applications in social psychology, decision theory, economics, politics, evolutionary biology, philosophy, operational research and sociology.

Cellular potts models multiscale extensions and biological applications

CERN Document Server

Scianna, Marco

2013-01-01

A flexible, cell-level, and lattice-based technique, the cellular Potts model accurately describes the phenomenological mechanisms involved in many biological processes. Cellular Potts Models: Multiscale Extensions and Biological Applications gives an interdisciplinary, accessible treatment of these models, from the original methodologies to the latest developments. The book first explains the biophysical bases, main merits, and limitations of the cellular Potts model. It then proposes several innovative extensions, focusing on ways to integrate and interface the basic cellular Potts model at the mesoscopic scale with approaches that accurately model microscopic dynamics. These extensions are designed to create a nested and hybrid environment, where the evolution of a biological system is realistically driven by the constant interplay and flux of information between the different levels of description. Through several biological examples, the authors demonstrate a qualitative and quantitative agreement with t...

Human Development V: Biochemistry Unable to Explain the Emergence of Biological Form (Morphogenesis and Therefore a New Principle as Source of Biological Information is Needed

Directory of Open Access Journals (Sweden)

Søren Ventegodt

2006-01-01

Full Text Available Today's biomedicine builds on the conviction that biochemistry can explain the creation of the body, its anatomy and physiology. Unfortunately there are still deep mysteries strangely “fighting back” when we try to define and understand the organism and its creation in the ontogenesis as emerging from biochemistry. In analysing this from a theoretical perspective using a mathematical model focusing on the noise in complex chemical systems we argue that evolving biological structure cannot in principle be a product of chemistry. In this paper we go through the chemical gradient model and argue that this is not able to explain the ontogenesis. We discuss the used gradients as information carriers in chemical self-organizing systems and argue that by use of the “Turing structures” we are only able to modelling the mostly simple biological systems. The bio-chemical model is only able to model simple organization but not to explain the complexity of biological phenomena. We conclude that we seemingly have presented a formal proof (a NO-GO theorem that the self-organizing chemical systems that are using chemical gradients are not able to explain complex biological matters as the ontogenesis. We need a fundamentally new, information-carrying principle to understand biological information and biological order.

Content-rich biological network constructed by mining PubMed abstracts

Directory of Open Access Journals (Sweden)

Sharp Burt M

2004-10-01

Full Text Available Abstract Background The integration of the rapidly expanding corpus of information about the genome, transcriptome, and proteome, engendered by powerful technological advances, such as microarrays, and the availability of genomic sequence from multiple species, challenges the grasp and comprehension of the scientific community. Despite the existence of text-mining methods that identify biological relationships based on the textual co-occurrence of gene/protein terms or similarities in abstract texts, knowledge of the underlying molecular connections on a large scale, which is prerequisite to understanding novel biological processes, lags far behind the accumulation of data. While computationally efficient, the co-occurrence-based approaches fail to characterize (e.g., inhibition or stimulation, directionality biological interactions. Programs with natural language processing (NLP capability have been created to address these limitations, however, they are in general not readily accessible to the public. Results We present a NLP-based text-mining approach, Chilibot, which constructs content-rich relationship networks among biological concepts, genes, proteins, or drugs. Amongst its features, suggestions for new hypotheses can be generated. Lastly, we provide evidence that the connectivity of molecular networks extracted from the biological literature follows the power-law distribution, indicating scale-free topologies consistent with the results of previous experimental analyses. Conclusions Chilibot distills scientific relationships from knowledge available throughout a wide range of biological domains and presents these in a content-rich graphical format, thus integrating general biomedical knowledge with the specialized knowledge and interests of the user. Chilibot http://www.chilibot.net can be accessed free of charge to academic users.

Open-access public-private partnerships to enable drug discovery--new approaches.

Science.gov (United States)

Müller, Susanne; Weigelt, Johan

2010-03-01

The productivity of the pharmaceutical industry, as assessed by the number of NMEs produced per US dollar spent in R&D, has been in steady decline during the past 40 years. This decline in productivity not only poses a significant challenge to the pharmaceutical industry, but also to society because of the importance of developing drugs for the treatment of unmet medical needs. The major challenge in progressing a new drug to the market is the successful completion of clinical trials. However, the failure rate of drugs entering trials has not decreased, despite various technological and scientific breakthroughs in recent decades, and despite intense target validation efforts. This lack of success suggests limitations in the fundamental understanding of target biology and human pharmacology. One contributing factor may be the traditional secrecy of the pharmaceutical sector, a characteristic that does not promote scientific discovery in an optimal manner. Access to broader knowledge relating to target biology and human pharmacology is difficult to obtain because interactions between researchers in industry and academia are typically restricted to closed collaborations in which the knowledge gained is confidential.However, open-access collaborative partnerships are gaining momentum in industry, and are also favored by funding agencies. Such open-access collaborations may be a powerful alternative to closed collaborations; the sharing of early-stage research data is expected to enable scientific discovery by engaging a broader section of the scientific community in the exploration of new findings. Potentially, the sharing of data could contribute to an increased understanding of biological processes and a decrease in the attrition of clinical programs.

Promoting an active form of learning out-of-class via answering online "study questions" leads to higher than expected exam scores in General Biology.

Science.gov (United States)

Gibson, Susan I

2015-01-01

A rising need for workers in science, technology, engineering and mathematics (STEM) fields has fueled interest in improving teaching within STEM disciplines. Numerous studies have demonstrated the benefits of active learning approaches on student learning outcomes. However, many of these studies have been conducted in experimental, rather than real-life class, settings. In addition, most of these studies have focused on in-class active learning exercises. This study tested the effects of answering questions outside of class on exam performance for General Biology students at the University of Minnesota. An online database of 1,020 multiple-choice questions covering material from the first half of the course was generated. Students in seven course sections (with an average of ∼265 students per section) were given unlimited access to the online study questions. These students made extensive use of the online questions, with students answering an average of 1,323 questions covering material from the half of the semester for which the questions were available. After students answered a set of questions, they were shown the correct answers for those questions. More specific feedback describing how to arrive at the correct answer was provided for the 73% of the questions for which the correct answers were not deemed to be self-explanatory. The extent to which access to the online study questions improved student learning outcomes was assessed by comparing the performance on exam questions of students in the seven course sections with access to the online study questions with the performance of students in course sections without access to the online study questions. Student performance was analyzed for a total of 89 different exams questions that were not included in the study questions, but that covered the same material covered by the study questions. Each of these 89 questions was used on one to five exams given to students in course sections that had access to the

Pathway Distiller - multisource biological pathway consolidation.

Science.gov (United States)

Doderer, Mark S; Anguiano, Zachry; Suresh, Uthra; Dashnamoorthy, Ravi; Bishop, Alexander J R; Chen, Yidong

2012-01-01

One method to understand and evaluate an experiment that produces a large set of genes, such as a gene expression microarray analysis, is to identify overrepresentation or enrichment for biological pathways. Because pathways are able to functionally describe the set of genes, much effort has been made to collect curated biological pathways into publicly accessible databases. When combining disparate databases, highly related or redundant pathways exist, making their consolidation into pathway concepts essential. This will facilitate unbiased, comprehensive yet streamlined analysis of experiments that result in large gene sets. After gene set enrichment finds representative pathways for large gene sets, pathways are consolidated into representative pathway concepts. Three complementary, but different methods of pathway consolidation are explored. Enrichment Consolidation combines the set of the pathways enriched for the signature gene list through iterative combining of enriched pathways with other pathways with similar signature gene sets; Weighted Consolidation utilizes a Protein-Protein Interaction network based gene-weighting approach that finds clusters of both enriched and non-enriched pathways limited to the experiments' resultant gene list; and finally the de novo Consolidation method uses several measurements of pathway similarity, that finds static pathway clusters independent of any given experiment. We demonstrate that the three consolidation methods provide unified yet different functional insights of a resultant gene set derived from a genome-wide profiling experiment. Results from the methods are presented, demonstrating their applications in biological studies and comparing with a pathway web-based framework that also combines several pathway databases. Additionally a web-based consolidation framework that encompasses all three methods discussed in this paper, Pathway Distiller (http://cbbiweb.uthscsa.edu/PathwayDistiller), is established to allow

National Radiobiology Archives distributed access programmer's guide

International Nuclear Information System (INIS)

Prather, J.C.; Smith, S.K.; Watson, C.R.

1991-12-01

The National Radiobiology Archives is a comprehensive effort to gather, organize, and catalog original data, representative specimens, and supporting materials related to significant radiobiology studies. This provides researchers with information for analyses which compare or combine results of these and other studies and with materials for analysis by advanced molecular biology techniques. This Programmer's Guide document describes the database access software, NRADEMO, and the subset loading script NRADEMO/MAINT/MAINTAIN, which comprise the National Laboratory Archives Distributed Access Package. The guide is intended for use by an experienced database management specialist. It contains information about the physical and logical organization of the software and data files. It also contains printouts of all the scripts and associated batch processing files. It is part of a suite of documents published by the National Radiobiology Archives

Data Basin: Expanding Access to Conservation Data, Tools, and People

Science.gov (United States)

Comendant, T.; Strittholt, J.; Frost, P.; Ward, B. C.; Bachelet, D. M.; Osborne-Gowey, J.

2009-12-01

Mapping and spatial analysis are a fundamental part of problem solving in conservation science, yet spatial data are widely scattered, difficult to locate, and often unavailable. Valuable time and resources are wasted locating and gaining access to important biological, cultural, and economic datasets, scientific analysis, and experts. As conservation problems become more serious and the demand to solve them grows more urgent, a new way to connect science and practice is needed. To meet this need, an open-access, web tool called Data Basin (www.databasin.org) has been created by the Conservation Biology Institute in partnership with ESRI and the Wilburforce Foundation. Users of Data Basin can gain quick access to datasets, experts, groups, and tools to help solve real-world problems. Individuals and organizations can perform essential tasks such as exploring and downloading from a vast library of conservation datasets, uploading existing datasets, connecting to other external data sources, create groups, and produce customized maps that can be easily shared. Data Basin encourages sharing and publishing, but also provides privacy and security for sensitive information when needed. Users can publish projects within Data Basin to tell more complete and rich stories of discovery and solutions. Projects are an ideal way to publish collections of datasets, maps and other information on the internet to reach wider audiences. Data Basin also houses individual centers that provide direct access to data, maps, and experts focused on specific geographic areas or conservation topics. Current centers being developed include the Boreal Information Centre, the Data Basin Climate Center, and proposed Aquatic and Forest Conservation Centers.

"Open Access" Requires Clarification: Medical Journal Publication Models Evolve.

Science.gov (United States)

Lubowitz, James H; Brand, Jefferson C; Rossi, Michael J; Provencher, Matthew T

2017-03-01

While Arthroscopy journal is a traditional subscription model journal, our companion journal Arthroscopy Techniques is "open access." We used to believe open access simply meant online and free of charge. However, while open-access journals are free to readers, in 2017 authors must make a greater sacrifice in the form of an article-processing charge (APC). Again, while this does not apply to Arthroscopy, the APC will apply to Arthroscopy Techniques. Copyright © 2016 Arthroscopy Association of North America. Published by Elsevier Inc. All rights reserved.

Genetic divergence among accessions of Axonopus jesuiticus x A. scoparius based on morphological and agronomical traits

Directory of Open Access Journals (Sweden)

SIMONE M. SCHEFFER-BASSO

2014-03-01

Full Text Available This study had the objective of assessing the genetic divergence in giant missionary grass (Axonopus jesuiticus x A. scoparius germplasm based on morphological and agronomic traits. Five accessions were evaluated in the field: V14337, V14403, V14404, V14405 and V14406. Three contrasting groups were formed using the UPGMA clustering method: V14337 and V14404 formed one group, V14403 and V14405 formed another, and V14406 was isolated from the other accessions. The most striking traits for the identification of the accessions were the height of the plant and the change color of the leaf. Only V14406 accession had purplish green leaves. The other four accessions differed with regards to plant height and dry matter production, with superiority of V14337 and V14404 accessions. The high similarity, as assessed by the mean Euclidean distance, suggests that V14337 and V14404 share the same genotype. The genotypic variability among accessions indicates their potential use in breeding programs.

78 FR 51276 - Proposed Information Collection (Access to Care Dialysis Pilot Survey and Interview); Activity...

Science.gov (United States)

2013-08-20

... to Care Dialysis Pilot Survey and Interview); Activity: Comment Request AGENCY: Veterans Health... Care Dialysis Pilot Survey and Interview)'' in any correspondence. During the comment period, comments... and Interview, VA Form 10-10067. a. Access to Care Questionnaire, VA Form 10-10067. b. Access to Care...

Biological Weapons Attribution: A Primer

Science.gov (United States)

2007-06-01

environment rich in amino acids , nucleosides, and glucose—such as that found in the blood or tissue of an animal or human host. 33 Anthrax can be found...The Grapes of Wrath and the Speckled Monster, Part III: Epidemics, Natural Disasters and Biological Terrorism-The Federal Response,” Michigan State...Control. Accessed at http://www.bt.cdc.gov/planning/pdf/cdcresponseguide.pdf on March 5, 2007. Sciarrino, Alfred J. “The Grapes of Wrath and the

Opening science: New publication forms in science

Directory of Open Access Journals (Sweden)

Scheliga, Kaja

2014-12-01

Full Text Available [english] Digital technologies change how scientists access and process information and consequently impact publication forms in science. Even though the core of scientific publications has remained the same, established publication formats, such as the scientific paper or book, are succumbing to the transitions caused by digital technologies. At the same time, new online tools enable new publication forms, such as blogs, microblogs or wikis, to emerge. This article explores the changing and emerging publications forms in science and also reflects upon the changing role of libraries. The transformations of publishing forms are discussed in the context of open science.

Integration of open access literature into the RCSB Protein Data Bank using BioLit

Directory of Open Access Journals (Sweden)

Bourne Philip E

2010-04-01

Full Text Available Abstract Background Biological data have traditionally been stored and made publicly available through a variety of on-line databases, whereas biological knowledge has traditionally been found in the printed literature. With journals now on-line and providing an increasing amount of open access content, often free of copyright restriction, this distinction between database and literature is blurring. To exploit this opportunity we present the integration of open access literature with the RCSB Protein Data Bank (PDB. Results BioLit provides an enhanced view of articles with markup of semantic data and links to biological databases, based on the content of the article. For example, words matching to existing biological ontologies are highlighted and database identifiers are linked to their database of origin. Among other functions, it identifies PDB IDs that are mentioned in the open access literature, by parsing the full text for all research articles in PubMed Central (PMC and exposing the results as simple XML Web Services. Here, we integrate BioLit results with the RCSB PDB website by using these services to find PDB IDs that are mentioned in research articles and subsequently retrieving abstract, figures, and text excerpts for those articles. A new RCSB PDB literature view permits browsing through the figures and abstracts of the articles that mention a given structure. The BioLit Web Services that are providing the underlying data are publicly accessible. A client library is provided that supports querying these services (Java. Conclusions The integration between literature and websites, as demonstrated here with the RCSB PDB, provides a broader view for how a given structure has been analyzed and used. This approach detects the mention of a PDB structure even if it is not formally cited in the paper. Other structures related through the same literature references can also be identified, possibly providing new scientific insight. To our

A semi-automated vascular access system for preclinical models

International Nuclear Information System (INIS)

Berry-Pusey, B N; David, J; Taschereau, R; Silverman, R W; Williams, D; Ladno, W; Stout, D; Chatziioannou, A; Chang, Y C; Prince, S W; Chu, K; Tsao, T C

2013-01-01

Murine models are used extensively in biological and translational research. For many of these studies it is necessary to access the vasculature for the injection of biologically active agents. Among the possible methods for accessing the mouse vasculature, tail vein injections are a routine but critical step for many experimental protocols. To perform successful tail vein injections, a high skill set and experience is required, leaving most scientists ill-suited to perform this task. This can lead to a high variability between injections, which can impact experimental results. To allow more scientists to perform tail vein injections and to decrease the variability between injections, a vascular access system (VAS) that semi-automatically inserts a needle into the tail vein of a mouse was developed. The VAS uses near infrared light, image processing techniques, computer controlled motors, and a pressure feedback system to insert the needle and to validate its proper placement within the vein. The VAS was tested by injecting a commonly used radiolabeled probe (FDG) into the tail veins of five mice. These mice were then imaged using micro-positron emission tomography to measure the percentage of the injected probe remaining in the tail. These studies showed that, on average, the VAS leaves 3.4% of the injected probe in the tail. With these preliminary results, the VAS system demonstrates the potential for improving the accuracy of tail vein injections in mice. (paper)

A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology

DEFF Research Database (Denmark)

Herrgard, Markus; Swainston, Neil; Dobson, Paul

2008-01-01

and in a manner that permits automated reasoning. The reconstruction is readily available via a publicly accessible database and in the Systems Biology Markup Language (http://www.comp-sys-bio.org/yeastnet). It can be maintained as a resource that serves as a common denominator for studying the systems biology...

SWS: accessing SRS sites contents through Web Services

OpenAIRE

Romano, Paolo; Marra, Domenico

2008-01-01

Background Web Services and Workflow Management Systems can support creation and deployment of network systems, able to automate data analysis and retrieval processes in biomedical research. Web Services have been implemented at bioinformatics centres and workflow systems have been proposed for biological data analysis. New databanks are often developed by taking into account these technologies, but many existing databases do not allow a programmatic access. Only a fraction of available datab...

BCO-DMO: Enabling Access to Federally Funded Research Data

Science.gov (United States)

Kinkade, D.; Allison, M. D.; Chandler, C. L.; Groman, R. C.; Rauch, S.; Shepherd, A.; Gegg, S. R.; Wiebe, P. H.; Glover, D. M.

2013-12-01

In a February, 2013 memo1, the White House Office of Science and Technology Policy (OSTP) outlined principles and objectives to increase access by the public to federally funded research publications and data. Such access is intended to drive innovation by allowing private and commercial efforts to take full advantage of existing resources, thereby maximizing Federal research dollars and efforts. The Biological and Chemical Oceanography Data Management Office (BCO-DMO; bco-dmo.org) serves as a model resource for organizations seeking compliance with the OSTP policy. BCO-DMO works closely with scientific investigators to publish their data from research projects funded by the National Science Foundation (NSF), within the Biological and Chemical Oceanography Sections (OCE) and the Division of Polar Programs Antarctic Organisms & Ecosystems Program (PLR). BCO-DMO addresses many of the OSTP objectives for public access to digital scientific data: (1) Marine biogeochemical and ecological data and metadata are disseminated via a public website, and curated on intermediate time frames; (2) Preservation needs are met by collaborating with appropriate national data facilities for data archive; (3) Cost and administrative burden associated with data management is minimized by the use of one dedicated office providing hundreds of NSF investigators support for data management plan development, data organization, metadata generation and deposition of data and metadata into the BCO-DMO repository; (4) Recognition of intellectual property is reinforced through the office's citation policy and the use of digital object identifiers (DOIs); (5) Education and training in data stewardship and use of the BCO-DMO system is provided by office staff through a variety of venues. Oceanographic research data and metadata from thousands of datasets generated by hundreds of investigators are now available through BCO-DMO. 1 White House Office of Science and Technology Policy, Memorandum for

45 CFR 164.524 - Access of individuals to protected health information.

Science.gov (United States)

2010-10-01

... individual with access to the protected health information in the form or format requested by the individual, if it is readily producible in such form or format; or, if not, in a readable hard copy form or such other form or format as agreed to by the covered entity and the individual. (ii) The covered entity may...

A high-throughput screening approach to discovering good forms of biologically inspired visual representation.

Science.gov (United States)

Pinto, Nicolas; Doukhan, David; DiCarlo, James J; Cox, David D

2009-11-01

While many models of biological object recognition share a common set of "broad-stroke" properties, the performance of any one model depends strongly on the choice of parameters in a particular instantiation of that model--e.g., the number of units per layer, the size of pooling kernels, exponents in normalization operations, etc. Since the number of such parameters (explicit or implicit) is typically large and the computational cost of evaluating one particular parameter set is high, the space of possible model instantiations goes largely unexplored. Thus, when a model fails to approach the abilities of biological visual systems, we are left uncertain whether this failure is because we are missing a fundamental idea or because the correct "parts" have not been tuned correctly, assembled at sufficient scale, or provided with enough training. Here, we present a high-throughput approach to the exploration of such parameter sets, leveraging recent advances in stream processing hardware (high-end NVIDIA graphic cards and the PlayStation 3's IBM Cell Processor). In analogy to high-throughput screening approaches in molecular biology and genetics, we explored thousands of potential network architectures and parameter instantiations, screening those that show promising object recognition performance for further analysis. We show that this approach can yield significant, reproducible gains in performance across an array of basic object recognition tasks, consistently outperforming a variety of state-of-the-art purpose-built vision systems from the literature. As the scale of available computational power continues to expand, we argue that this approach has the potential to greatly accelerate progress in both artificial vision and our understanding of the computational underpinning of biological vision.

A high-throughput screening approach to discovering good forms of biologically inspired visual representation.

Directory of Open Access Journals (Sweden)

Nicolas Pinto

2009-11-01

Full Text Available While many models of biological object recognition share a common set of "broad-stroke" properties, the performance of any one model depends strongly on the choice of parameters in a particular instantiation of that model--e.g., the number of units per layer, the size of pooling kernels, exponents in normalization operations, etc. Since the number of such parameters (explicit or implicit is typically large and the computational cost of evaluating one particular parameter set is high, the space of possible model instantiations goes largely unexplored. Thus, when a model fails to approach the abilities of biological visual systems, we are left uncertain whether this failure is because we are missing a fundamental idea or because the correct "parts" have not been tuned correctly, assembled at sufficient scale, or provided with enough training. Here, we present a high-throughput approach to the exploration of such parameter sets, leveraging recent advances in stream processing hardware (high-end NVIDIA graphic cards and the PlayStation 3's IBM Cell Processor. In analogy to high-throughput screening approaches in molecular biology and genetics, we explored thousands of potential network architectures and parameter instantiations, screening those that show promising object recognition performance for further analysis. We show that this approach can yield significant, reproducible gains in performance across an array of basic object recognition tasks, consistently outperforming a variety of state-of-the-art purpose-built vision systems from the literature. As the scale of available computational power continues to expand, we argue that this approach has the potential to greatly accelerate progress in both artificial vision and our understanding of the computational underpinning of biological vision.

Heuristics Miner for E-Commerce Visitor Access Pattern Representation

Directory of Open Access Journals (Sweden)

Kartina Diah Kesuma Wardhani

2017-06-01

Full Text Available E-commerce click stream data can form a certain pattern that describe visitor behavior while surfing the e-commerce website. This pattern can be used to initiate a design to determine alternative access sequence on the website. This research use heuristic miner algorithm to determine the pattern. σ-Algorithm and Genetic Mining are methods used for pattern recognition with frequent sequence item set approach. Heuristic Miner is an evolved form of those methods. σ-Algorithm assume that an activity in a website, that has been recorded in the data log, is a complete sequence from start to finish, without any tolerance to incomplete data or data with noise. On the other hand, Genetic Mining is a method that tolerate incomplete data or data with noise, so it can generate a more detailed e-commerce visitor access pattern. In this study, the same sequence of events obtained from six-generated patterns. The resulting pattern of visitor access is that visitors are often access the home page and then the product category page or the home page and then the full text search page.

Forming of educational motivation of students to direction of preparation «Health of a man» in the process of study of medical and biological disciplines

Directory of Open Access Journals (Sweden)

Babich N.L.

2012-12-01

Full Text Available The features of forming of educational motivation of students are considered in the process of study of disciplines of medical and biological disciplines. 73 students took part in research. The analysis of publications is resulted in relation to determination of category vehicle of the probed problem, classification of educational reasons; motivational technologies of studies; correlation of reasons of educational activity of students. It is certain and grounded pedagogical terms of forming positive educational motivation of students on the example of study of discipline «Anatomy of timber-toe by bases of sporting morphology». It is recommended in the process of study of the rich in content modules of discipline to make examples of widespread diseases of the different systems and organs. It is set that the noted examples allow directly to influence on forming of educational motivation of students.

Theoretical Discussion on Forms of Cultural Capital in Singapore

Science.gov (United States)

Tan, Cheng Yong

2013-01-01

This article is a theoretical discussion on five forms of cultural resources that constitute cultural capital for children in the meritocratic yet stratified society of Singapore. These five forms of cultural capital are namely "academic" tastes and leisure preferences, use of Standard English, access to and dispositions toward…

Controlled dehydration of a biological sample using an alternative form of environmental SEM

Czech Academy of Sciences Publication Activity Database

Neděla, Vilém

2010-01-01

Roč. 237, č. 1 (2010), s. 7-11 ISSN 0022-2720 Institutional research plan: CEZ:AV0Z20650511 Keywords : biological sample * dehydration * environmental SEM * AQUASEM II * hydration system Subject RIV: JA - Electronics ; Optoelectronics, Electrical Engineering Impact factor: 1.872, year: 2010

Animals as Mobile Biological Sensors for Forest Fire Detection

Directory of Open Access Journals (Sweden)

Yasar Guneri Sahin

2007-12-01

Full Text Available This paper proposes a mobile biological sensor system that can assist in earlydetection of forest fires one of the most dreaded natural disasters on the earth. The main ideapresented in this paper is to utilize animals with sensors as Mobile Biological Sensors(MBS. The devices used in this system are animals which are native animals living inforests, sensors (thermo and radiation sensors with GPS features that measure thetemperature and transmit the location of the MBS, access points for wireless communicationand a central computer system which classifies of animal actions. The system offers twodifferent methods, firstly: access points continuously receive data about animals’ locationusing GPS at certain time intervals and the gathered data is then classified and checked tosee if there is a sudden movement (panic of the animal groups: this method is called animalbehavior classification (ABC. The second method can be defined as thermal detection(TD: the access points get the temperature values from the MBS devices and send the datato a central computer to check for instant changes in the temperatures. This system may beused for many purposes other than fire detection, namely animal tracking, poachingprevention and detecting instantaneous animal death.

A theory of biological relativity: no privileged level of causation.

Science.gov (United States)

Noble, Denis

2012-02-06

Must higher level biological processes always be derivable from lower level data and mechanisms, as assumed by the idea that an organism is completely defined by its genome? Or are higher level properties necessarily also causes of lower level behaviour, involving actions and interactions both ways? This article uses modelling of the heart, and its experimental basis, to show that downward causation is necessary and that this form of causation can be represented as the influences of initial and boundary conditions on the solutions of the differential equations used to represent the lower level processes. These insights are then generalized. A priori, there is no privileged level of causation. The relations between this form of 'biological relativity' and forms of relativity in physics are discussed. Biological relativity can be seen as an extension of the relativity principle by avoiding the assumption that there is a privileged scale at which biological functions are determined.

Biology Needs Evolutionary Software Tools: Let’s Build Them Right

Science.gov (United States)

Team, Galaxy; Goecks, Jeremy; Taylor, James

2018-01-01

Abstract Research in population genetics and evolutionary biology has always provided a computational backbone for life sciences as a whole. Today evolutionary and population biology reasoning are essential for interpretation of large complex datasets that are characteristic of all domains of today’s life sciences ranging from cancer biology to microbial ecology. This situation makes algorithms and software tools developed by our community more important than ever before. This means that we, developers of software tool for molecular evolutionary analyses, now have a shared responsibility to make these tools accessible using modern technological developments as well as provide adequate documentation and training. PMID:29688462

Promoting an active form of learning out-of-class via answering online “study questions” leads to higher than expected exam scores in General Biology

Directory of Open Access Journals (Sweden)

Susan I. Gibson

2015-10-01

Full Text Available A rising need for workers in science, technology, engineering and mathematics (STEM fields has fueled interest in improving teaching within STEM disciplines. Numerous studies have demonstrated the benefits of active learning approaches on student learning outcomes. However, many of these studies have been conducted in experimental, rather than real-life class, settings. In addition, most of these studies have focused on in-class active learning exercises. This study tested the effects of answering questions outside of class on exam performance for General Biology students at the University of Minnesota. An online database of 1,020 multiple-choice questions covering material from the first half of the course was generated. Students in seven course sections (with an average of ∼265 students per section were given unlimited access to the online study questions. These students made extensive use of the online questions, with students answering an average of 1,323 questions covering material from the half of the semester for which the questions were available. After students answered a set of questions, they were shown the correct answers for those questions. More specific feedback describing how to arrive at the correct answer was provided for the 73% of the questions for which the correct answers were not deemed to be self-explanatory. The extent to which access to the online study questions improved student learning outcomes was assessed by comparing the performance on exam questions of students in the seven course sections with access to the online study questions with the performance of students in course sections without access to the online study questions. Student performance was analyzed for a total of 89 different exams questions that were not included in the study questions, but that covered the same material covered by the study questions. Each of these 89 questions was used on one to five exams given to students in course sections that

University access for social justice: a capabilities perspective

Directory of Open Access Journals (Sweden)

Merridy Wilson-Strydom

2011-01-01

Full Text Available The closely related, but often contradictory, issues of increasing access to university and improving students' chances of success in their university studies have been and continue to be an important research focus within higher education studies and policy in South Africa and beyond. More recently, the challenge of underpreparedness of students entering university has gained prominence as universities struggle to increase their throughput rates. It can be argued that increasing access, without increasing chances of success, is becoming a new form of social exclusion within higher education. Thispaperproposes that approaching issues of access from a capabilities perspective (as developed by Amartya Sen provides a means of fostering access for social justice and countering access that leads to social exclusion. As such, this is a theoretical paper building on existing work on the capabilities approach within education to argue that the notion of capabilities provides a useful theoretical and conceptual framework for understanding the complexities of meaningful access to university in a deeply divided society like South Africa.

Biological trade and markets.

Science.gov (United States)

Hammerstein, Peter; Noë, Ronald

2016-02-05

Cooperation between organisms can often be understood, like trade between merchants, as a mutually beneficial exchange of services, resources or other 'commodities'. Mutual benefits alone, however, are not sufficient to explain the evolution of trade-based cooperation. First, organisms may reject a particular trade if another partner offers a better deal. Second, while human trade often entails binding contracts, non-human trade requires unwritten 'terms of contract' that 'self-stabilize' trade and prevent cheating even if all traders strive to maximize fitness. Whenever trading partners can be chosen, market-like situations arise in nature that biologists studying cooperation need to account for. The mere possibility of exerting partner choice stabilizes many forms of otherwise cheatable trade, induces competition, facilitates the evolution of specialization and often leads to intricate forms of cooperation. We discuss selected examples to illustrate these general points and review basic conceptual approaches that are important in the theory of biological trade and markets. Comparing these approaches with theory in economics, it turns out that conventional models-often called 'Walrasian' markets-are of limited relevance to biology. In contrast, early approaches to trade and markets, as found in the works of Ricardo and Cournot, contain elements of thought that have inspired useful models in biology. For example, the concept of comparative advantage has biological applications in trade, signalling and ecological competition. We also see convergence between post-Walrasian economics and biological markets. For example, both economists and biologists are studying 'principal-agent' problems with principals offering jobs to agents without being sure that the agents will do a proper job. Finally, we show that mating markets have many peculiarities not shared with conventional economic markets. Ideas from economics are useful for biologists studying cooperation but need

A common basis for facilitated legitimate exchange of biological materials proposed by the European Culture Collections' Organisation

Directory of Open Access Journals (Sweden)

Dagmar Fritze

2009-12-01

Full Text Available Being charged with the task of accessioning and supplying of living microbiological material, microbial culture collections are institutions that play a central role between the interests of a variety of user communities. On the one side are the providers of living microbiological material, such as individual scientists, institutions and countries of origin and on the other side are the various kinds of recipients/users of cultures of microorganisms from academia and industry. Thus, providing access to high quality biological material and scientific services while at the same time observing donor countries' rights, intellectual property rights, biosafety and biosecurity aspects poses demanding challenges. E.g. donor countries rights relate to Article 15 of the Convention on Biological Diversity: "Contracting parties …. recognize the sovereign rights of states over their natural resources …. shall facilitate access to resources … and not impose restrictions that run counter to the aims of the Convention. Access to natural resources shall be by mutually agreed terms and subject to prior informed consent ..." The use of a proposed standard contract by culture collections is discussed as a way of contractually safeguarding the existing research commons, while observing the new rights established in the Convention on Biological Diversity as well as other existing and new legislation impacting on the accessibility of living microbial material.

Fungal biology in the post-genomic era.

Science.gov (United States)

Scazzocchio, Claudio

2014-01-01

In this review I give a personal perspective of how fungal biology has changed since I started my Ph. D. in 1963. At that time we were working in the shadow of the birth of molecular biology as an autonomous and reductionistic discipline, embodied in Crick's central dogma. This first period was methodologically characterised by the fact that we knew what genes were, but we could not access them directly. This radically changed in the 70s-80s when gene cloning, reverse genetics and DNA sequencing become possible. The "next generation" sequencing techniques have produced a further qualitative revolutionary change. The ready access to genomes and transcriptomes of any microbial organism allows old questions to be asked in a radically different way and new questions to be approached. I provide examples chosen somewhat arbitrarily to illustrate some of these changes, from applied aspects to fundamental problems such as the origin of fungal specific genes, the evolutionary history of genes clusters and the realisation of the pervasiveness of horizontal transmission. Finally, I address how the ready availability of genomes and transcriptomes could change the status of model organisms.

The Textile Form of Sound

DEFF Research Database (Denmark)

Bendixen, Cecilie

Sound is a part of architecture, and sound is complex. Upon this, sound is invisible. How is it then possible to design visual objects that interact with the sound? This paper addresses the problem of how to get access to the complexity of sound and how to make textile material revealing the form...... goemetry by analysing the sound pattern at a specific spot. This analysis is done theoretically with algorithmic systems and practical with waves in water. The paper describes the experiments and the findings, and explains how an analysis of sound can be catched in a textile form....

Synthesis and biological evaluation of glycogen synthase kinase 3 (GSK-3) inhibitors: an fast and atom efficient access to 1-aryl-3-benzylureas.

Science.gov (United States)

Monte, Fabio Lo; Kramer, Thomas; Boländer, Alexander; Plotkin, Batya; Eldar-Finkelman, Hagit; Fuertes, Ana; Dominguez, Juan; Schmidt, Boris

2011-09-15

The glycogen synthase kinase 3 (GSK-3) is implicated in multiple cellular processes and has been linked to the pathogenesis of Alzheimer's disease (AD). In the course of our research topic we synthesized a library of potent GSK-3 inhibitors. We utilized the urea scaffold present in the potent and highly selective GSK-3 inhibitor AR-A014418 (AstraZeneca). This moiety suits both (a) a convergent approach utilizing readily accessible building blocks and (b) a divergent approach based on a microwave heating assisted Suzuki coupling. We established a chromatography-free purification method to generate products with sufficient purity for the biological assays. The structure-activity relationship of the library provided the rationale for the synthesis of the benzothiazolylurea 66 (IC(50)=140 nM) and the pyridylurea 62 (IC(50)=98 nM), which displayed two to threefold enhanced activity versus the reference compound 18 (AR-A014418: IC(50)=330 nM) in our assays. Copyright © 2011. Published by Elsevier Ltd.

Biological biomaterials

Energy Technology Data Exchange (ETDEWEB)

Jorge-Herrero, E. [Servicio de Cirugia Experimental. Clinica Puerta de Hierro, Madrid (Spain)

1997-05-01

There are a number of situations in which substances of biological origin are employed as biomaterials. Most of them are macromolecules derived from isolated connective tissue or the connective tissue itself in membrane form, in both cases, the tissue can be used in its natural form or be chemically treated. In other cases, certain blood vessels can be chemically pretreated and used as vascular prostheses. Proteins such as albumin, collagen and fibrinogen are employed to coat vascular prostheses. Certain polysaccharides have also been tested for use in controlled drug release systems. Likewise, a number of tissues, such as dura mater, bovine pericardium, procine valves and human valves, are used in the preparation of cardiac prostheses. We also use veins from animals or humans in arterial replacement. In none of these cases are the tissues employed dissimilar to the native tissues as they have been chemically modified, becoming a new bio material with different physical and biochemical properties. In short, we find that natural products are being utilized as biomaterials and must be considered as such; thus, it is necessary to study both their chemicobiological and physicomechanical properties. In the present report, we review the current applications, problems and future prospects of some of these biological biomaterials. (Author) 84 refs.

libChEBI: an API for accessing the ChEBI database.

Science.gov (United States)

Swainston, Neil; Hastings, Janna; Dekker, Adriano; Muthukrishnan, Venkatesh; May, John; Steinbeck, Christoph; Mendes, Pedro

2016-01-01

ChEBI is a database and ontology of chemical entities of biological interest. It is widely used as a source of identifiers to facilitate unambiguous reference to chemical entities within biological models, databases, ontologies and literature. ChEBI contains a wealth of chemical data, covering over 46,500 distinct chemical entities, and related data such as chemical formula, charge, molecular mass, structure, synonyms and links to external databases. Furthermore, ChEBI is an ontology, and thus provides meaningful links between chemical entities. Unlike many other resources, ChEBI is fully human-curated, providing a reliable, non-redundant collection of chemical entities and related data. While ChEBI is supported by a web service for programmatic access and a number of download files, it does not have an API library to facilitate the use of ChEBI and its data in cheminformatics software. To provide this missing functionality, libChEBI, a comprehensive API library for accessing ChEBI data, is introduced. libChEBI is available in Java, Python and MATLAB versions from http://github.com/libChEBI, and provides full programmatic access to all data held within the ChEBI database through a simple and documented API. libChEBI is reliant upon the (automated) download and regular update of flat files that are held locally. As such, libChEBI can be embedded in both on- and off-line software applications. libChEBI allows better support of ChEBI and its data in the development of new cheminformatics software. Covering three key programming languages, it allows for the entirety of the ChEBI database to be accessed easily and quickly through a simple API. All code is open access and freely available.

Allelic database and accession divergence of a Brazilian mango collection based on microsatellite markers.

Science.gov (United States)

Dos Santos Ribeiro, I C N; Lima Neto, F P; Santos, C A F

2012-12-19

Allelic patterns and genetic distances were examined in a collection of 103 foreign and Brazilian mango (Mangifera indica) accessions in order to develop a reference database to support cultivar protection and breeding programs. An UPGMA dendrogram was generated using Jaccard's coefficients from a distance matrix based on 50 alleles of 12 microsatellite loci. The base pair number was estimated by the method of inverse mobility. The cophenetic correlation was 0.8. The accessions had a coefficient of similarity from 30 to 100%, which reflects high genetic variability. Three groups were observed in the UPGMA dendrogram; the first group was formed predominantly by foreign accessions, the second group was formed by Brazilian accessions, and the Dashehari accession was isolated from the others. The 50 microsatellite alleles did not separate all 103 accessions, indicating that there are duplicates in this mango collection. These 12 microsatellites need to be validated in order to establish a reliable set to identify mango cultivars.

Patient access to new cancer drugs in the United States and Australia.

Science.gov (United States)

Wilson, Andrew; Cohen, Joshua

2011-01-01

In light of the current debate on the use value and potential impact of comparative effectiveness research on patient access, it may prove insightful to compare a health-care system that systematically bases its reimbursement decisions on comparative effectiveness evidence with the United States (US) system that hitherto has only been informed by such evidence on an ad hoc basis. For a set of 2000-2009 approved new molecular entities and biologics indicated for cancer, we compared patient access between US Medicare and Australian Pharmaceutical Benefits Scheme (PBS) beneficiaries. Here, access is defined in terms of marketing availability, payer coverage, and patient out-of-pocket costs. Although 34 drugs and biologics were approved for cancer in the US, just more than one-third (35%) were ultimately covered by the Australian PBS. The PBS also placed more restrictions on use. On the other hand, prices and patient out-of-pocket costs were greater for the US Medicare population. Our analysis points to a possible trade-off in market access to oncology drugs. Although more oncology drugs are available in the US and a higher percentage of available drugs are covered, the evidence-based approach adopted by Australia has contributed to reduced prices, thereby improving affordability for payers and patients for those medications deemed cost-effective by the reimbursement authority. Copyright © 2011 International Society for Pharmacoeconomics and Outcomes Research (ISPOR). Published by Elsevier Inc. All rights reserved.

The Systems Biology Research Tool: evolvable open-source software

Directory of Open Access Journals (Sweden)

Wright Jeremiah

2008-06-01

Full Text Available Abstract Background Research in the field of systems biology requires software for a variety of purposes. Software must be used to store, retrieve, analyze, and sometimes even to collect the data obtained from system-level (often high-throughput experiments. Software must also be used to implement mathematical models and algorithms required for simulation and theoretical predictions on the system-level. Results We introduce a free, easy-to-use, open-source, integrated software platform called the Systems Biology Research Tool (SBRT to facilitate the computational aspects of systems biology. The SBRT currently performs 35 methods for analyzing stoichiometric networks and 16 methods from fields such as graph theory, geometry, algebra, and combinatorics. New computational techniques can be added to the SBRT via process plug-ins, providing a high degree of evolvability and a unifying framework for software development in systems biology. Conclusion The Systems Biology Research Tool represents a technological advance for systems biology. This software can be used to make sophisticated computational techniques accessible to everyone (including those with no programming ability, to facilitate cooperation among researchers, and to expedite progress in the field of systems biology.

A model for the biological precipitation of Precambrian iron-formation

Science.gov (United States)

Laberge, G. L.

1986-01-01

A biological model for the precipitation of Precambrian iron formations is presented. Assuming an oxygen deficient atmosphere and water column to allow sufficient Fe solubility, it is proposed that local oxidizing environments, produced biologically, led to precipitation of iron formations. It is further suggested that spheroidal structures about 30 mm in diameter, which are widespread in low grade cherty rion formations, are relict forms of the organic walled microfossil Eosphaera tylerii. The presence of these structures suggests that the organism may have had a siliceous test, which allowed sufficient rigidity for accumulation and preservation. The model involves precipitation of ferric hydrates by oxidation of iron in the photic zone by a variety of photosynthetic organisms. Silica may have formed in the frustules of silica secreting organisms, including Eosphaera tylerii. Iron formates formed, therefore, by a sediment rain of biologically produced ferric hydrates and silica and other organic material. Siderite and hematite formed diagenetically on basin floors, and subsequent metamorphism produced magnetite and iron silicates.

Opening science: New publication forms in science

OpenAIRE

Scheliga, Kaja

2014-01-01

Digital technologies change how scientists access and process information and consequently impact publication forms in science. Even though the core of scientific publications has remained the same, established publication formats, such as the scientific paper or book, are succumbing to the transitions caused by digital technologies. At the same time, new online tools enable new publication forms, such as blogs, microblogs or wikis, to emerge. This article explores the changing and emerging p...

Scaffolded biology.

Science.gov (United States)

Minelli, Alessandro

2016-09-01

Descriptions and interpretations of the natural world are dominated by dichotomies such as organism vs. environment, nature vs. nurture, genetic vs. epigenetic, but in the last couple of decades strong dissatisfaction with those partitions has been repeatedly voiced and a number of alternative perspectives have been suggested, from perspectives such as Dawkins' extended phenotype, Turner's extended organism, Oyama's Developmental Systems Theory and Odling-Smee's niche construction theory. Last in time is the description of biological phenomena in terms of hybrids between an organism (scaffolded system) and a living or non-living scaffold, forming unit systems to study processes such as reproduction and development. As scaffold, eventually, we can define any resource used by the biological system, especially in development and reproduction, without incorporating it as happens in the case of resources fueling metabolism. Addressing biological systems as functionally scaffolded systems may help pointing to functional relationships that can impart temporal marking to the developmental process and thus explain its irreversibility; revisiting the boundary between development and metabolism and also regeneration phenomena, by suggesting a conceptual framework within which to investigate phenomena of regular hypermorphic regeneration such as characteristic of deer antlers; fixing a periodization of development in terms of the times at which a scaffolding relationship begins or is terminated; and promoting plant galls to legitimate study objects of developmental biology.

Biological design in science classrooms

Science.gov (United States)

Scott, Eugenie C.; Matzke, Nicholas J.

2007-01-01

Although evolutionary biology is replete with explanations for complex biological structures, scientists concerned about evolution education have been forced to confront “intelligent design” (ID), which rejects a natural origin for biological complexity. The content of ID is a subset of the claims made by the older “creation science” movement. Both creationist views contend that highly complex biological adaptations and even organisms categorically cannot result from natural causes but require a supernatural creative agent. Historically, ID arose from efforts to produce a form of creationism that would be less vulnerable to legal challenges and that would not overtly rely upon biblical literalism. Scientists do not use ID to explain nature, but because it has support from outside the scientific community, ID is nonetheless contributing substantially to a long-standing assault on the integrity of science education. PMID:17494747

ADAM: analysis of discrete models of biological systems using computer algebra.

Science.gov (United States)

Hinkelmann, Franziska; Brandon, Madison; Guang, Bonny; McNeill, Rustin; Blekherman, Grigoriy; Veliz-Cuba, Alan; Laubenbacher, Reinhard

2011-07-20

Many biological systems are modeled qualitatively with discrete models, such as probabilistic Boolean networks, logical models, Petri nets, and agent-based models, to gain a better understanding of them. The computational complexity to analyze the complete dynamics of these models grows exponentially in the number of variables, which impedes working with complex models. There exist software tools to analyze discrete models, but they either lack the algorithmic functionality to analyze complex models deterministically or they are inaccessible to many users as they require understanding the underlying algorithm and implementation, do not have a graphical user interface, or are hard to install. Efficient analysis methods that are accessible to modelers and easy to use are needed. We propose a method for efficiently identifying attractors and introduce the web-based tool Analysis of Dynamic Algebraic Models (ADAM), which provides this and other analysis methods for discrete models. ADAM converts several discrete model types automatically into polynomial dynamical systems and analyzes their dynamics using tools from computer algebra. Specifically, we propose a method to identify attractors of a discrete model that is equivalent to solving a system of polynomial equations, a long-studied problem in computer algebra. Based on extensive experimentation with both discrete models arising in systems biology and randomly generated networks, we found that the algebraic algorithms presented in this manuscript are fast for systems with the structure maintained by most biological systems, namely sparseness and robustness. For a large set of published complex discrete models, ADAM identified the attractors in less than one second. Discrete modeling techniques are a useful tool for analyzing complex biological systems and there is a need in the biological community for accessible efficient analysis tools. ADAM provides analysis methods based on mathematical algorithms as a web

The accessibility of Poland’s Space to the Trans-European Transport Network

Directory of Open Access Journals (Sweden)

Wiśniewski Szymon

2017-09-01

Full Text Available The aim of the article is to analyse the land transport accessibility of two trans-European corridors within the boundaries of Poland. The adjustment of the course of transport routes to the distribution of the population and the country’s land development (including economic potential and logistic infrastructure was outlined using measurements of cumulative accessibility. The results were presented in both cartographic form (isochrone approach and tabular form (cumulative approach. Research was conducted adopting different forms of transport used for relocation (including foot traffic, car, rail and multimodal transport and both the current and target layout of the transport network. This made it possible to determine the changes that will effectively run the process of investment in transport infrastructure on Polish territory. This allowed the identification of the areas of Poland which are particularly conveniently located in relation to domestic connections (in terms of the international network and those for which the European transport network remains difficult to access.

A dedicated database system for handling multi-level data in systems biology

OpenAIRE

Pornputtapong, Natapol; Wanichthanarak, Kwanjeera; Nilsson, Avlant; Nookaew, Intawat; Nielsen, Jens

2014-01-01

Background Advances in high-throughput technologies have enabled extensive generation of multi-level omics data. These data are crucial for systems biology research, though they are complex, heterogeneous, highly dynamic, incomplete and distributed among public databases. This leads to difficulties in data accessibility and often results in errors when data are merged and integrated from varied resources. Therefore, integration and management of systems biological data remain very challenging...

Current dichotomy between traditional molecular biological and omic research in cancer biology and pharmacology.

Science.gov (United States)

Reinhold, William C

2015-12-10

There is currently a split within the cancer research community between traditional molecular biological hypothesis-driven and the more recent "omic" forms or research. While the molecular biological approach employs the tried and true single alteration-single response formulations of experimentation, the omic employs broad-based assay or sample collection approaches that generate large volumes of data. How to integrate the benefits of these two approaches in an efficient and productive fashion remains an outstanding issue. Ideally, one would merge the understandability, exactness, simplicity, and testability of the molecular biological approach, with the larger amounts of data, simultaneous consideration of multiple alterations, consideration of genes both of known interest along with the novel, cross-sample comparisons among cell lines and patient samples, and consideration of directed questions while simultaneously gaining exposure to the novel provided by the omic approach. While at the current time integration of the two disciplines remains problematic, attempts to do so are ongoing, and will be necessary for the understanding of the large cell line screens including the Developmental Therapeutics Program's NCI-60, the Broad Institute's Cancer Cell Line Encyclopedia, and the Wellcome Trust Sanger Institute's Cancer Genome Project, as well as the the Cancer Genome Atlas clinical samples project. Going forward there is significant benefit to be had from the integration of the molecular biological and the omic forms or research, with the desired goal being improved translational understanding and application.

The next step in biology: a periodic table?

Science.gov (United States)

Dhar, Pawan K

2007-08-01

Systems biology is an approach to explain the behaviour of a system in relation to its individual components. Synthetic biology uses key hierarchical and modular concepts of systems biology to engineer novel biological systems. In my opinion the next step in biology is to use molecule-to-phenotype data using these approaches and integrate them in the form a periodic table. A periodic table in biology would provide chassis to classify, systematize and compare diversity of component properties vis-a-vis system behaviour. Using periodic table it could be possible to compute higher- level interactions from component properties. This paper examines the concept of building a bio-periodic table using protein fold as the fundamental unit.

Pediatric central venous access devices: nursing interventions

Directory of Open Access Journals (Sweden)

Duffy EA

2017-05-01

Full Text Available Elizabeth A Duffy, Kathryn N Nelson Department of Health Behavior and Biological Sciences, The University of Michigan School of Nursing, Ann Arbor, MI, USA Abstract: A central venous catheter (CVC is an indwelling catheter that provides permanent or temporary stable venous access for both acute and chronically ill pediatric patients. These catheters provide stable venous access that can be used for a variety of medical purposes including drawing blood, hemodynamic monitoring, infusion of intravenous medications, infusion of intravenous fluids, chemotherapy, blood products, and parenteral nutrition. Each day, nurses access and care for CVCs in infants, children, and adolescents; the precision of this care can prevent life-threatening complications. The purpose of this review and the case study is to highlight the importance and components of evidence-based nursing practice in pediatric CVC care. A historical perspective of CVC care is provided in conjunction with current national initiatives to improve patient outcomes for children with CVCs. Infection prevention, clinical practice guidelines, quality improvement, and evidence-based care bundles are discussed. Keywords: pediatric nursing, central venous catheters, central line-associated bloodstream infection, care bundles, pediatric case study 

Using of Quantum Dots in Biology and Medicine.

Science.gov (United States)

Pleskova, Svetlana; Mikheeva, Elza; Gornostaeva, Ekaterina

2018-01-01

Quantum dots are nanoparticles, which due to their unique physical and chemical (first of all optical) properties, are promising in biology and medicine. There are many ways for quantum dots synthesis, both in the form of nanoislands self-forming on the surfaces, which can be used as single-photon emitters in electronics for storing information, and in the form of colloidal quantum dots for diagnostic and therapeutic purposes in living systems. The paper describes the main methods of quantum dots synthesis and summarizes medical and biological ways of their use. The main emphasis is laid on the ways of quantum dots surface modification. Influence of the size and form of nanoparticles, charge on the surfaces of quantum dots, and cover type on the efficiency of internalization by cells and cell compartments is shown. The main mechanisms of penetration are considered.

GeneDig: a web application for accessing genomic and bioinformatics knowledge.

Science.gov (United States)

Suciu, Radu M; Aydin, Emir; Chen, Brian E

2015-02-28

With the exponential increase and widespread availability of genomic, transcriptomic, and proteomic data, accessing these '-omics' data is becoming increasingly difficult. The current resources for accessing and analyzing these data have been created to perform highly specific functions intended for specialists, and thus typically emphasize functionality over user experience. We have developed a web-based application, GeneDig.org, that allows any general user access to genomic information with ease and efficiency. GeneDig allows for searching and browsing genes and genomes, while a dynamic navigator displays genomic, RNA, and protein information simultaneously for co-navigation. We demonstrate that our application allows more than five times faster and efficient access to genomic information than any currently available methods. We have developed GeneDig as a platform for bioinformatics integration focused on usability as its central design. This platform will introduce genomic navigation to broader audiences while aiding the bioinformatics analyses performed in everyday biology research.

Physico-chemical screening of accessions of Jatropha curcas for biodiesel production

International Nuclear Information System (INIS)

Naresh, B.; Reddy, M. Srikanth; Vijayalakshmi, P.; Reddy, Veena; Devi, Prathibha

2012-01-01

Biodiesel is an alternative environmentally friendly fuel made from renewable biological sources such as vegetable oils and animal fats. The present report deals with screening of 14 accessions of Jatropha curcas collected from all over India to find the most suitable ones for production of Biodiesel. From the 14 accessions of J. curcas located in the plantation at Osmania University, 4 accessions were initially selected on the basis of traits like general appearance, pest resistance, seed yield and seed-oil content. Further, the seed-oil of these 4 accessions was characterized by physico-chemical analysis to identify the elite accessions for production of biodiesel. Highest 1000-seed weight (640 g) and highest percentage seed-oil content (50.16) (extracted by Soxhlet method with hexane as the solvent) was recorded in the “KM” accession. The transesterification process is affected by the presence of high free fatty acids (recorded in “MB” accession) and high moisture content (recorded in “KM” accession) of the seed-oil which also interfere with the separation of fatty esters and glycerol during production of Biodiesel. Further, high phosphorus content and iodine number (recorded in “MB” accession) interfere with conversion of seed-oil to Biodiesel. In the above context, in spite of its yield being lower, the seed-oil of the “RSAD” accession was found to be most suitable for Biodiesel production followed by “KM”, “F.W.B” and “MB” accessions, since it contains lower free fatty acids, acid value, viscosity, diglycerides and iodine number. -- Highlights: ► We analyzed Indian Jatropha accessions for yield and quality. ► Elite accessions were selected for physico-chemical analysis of seed-oil. ► Four elite accessions identified as good candidates for Biodiesel production. ► The “RSAD” accession was found to be the best suited for biodiesel.

Sign Language Translation in State Administration in Germany: Barrier Free Web Accessibility

OpenAIRE

Lišková, Kateřina

2014-01-01

The aim of this thesis is to describe Web accessibility in state administration in the Federal Republic of Germany in relation to the socio-demographic group of deaf sign language users who did not have the opportunity to gain proper knowledge of a written form of the German language. The demand of the Deaf to information in an accessible form as based on legal documents is presented in relation to the theory of translation. How translating from written texts into sign language works in pract...

Uniform access to clinical data in a distributed environment. Radiology

International Nuclear Information System (INIS)

Adelhard, K.; Swoboda, N.; Nissen-Meyer, S.; Reiser, M.

1999-01-01

Purpose: Providing medical reports on wards and ambulatory settings in electronic form can improve the quality of health care delivery. Radiology was chosen as an example to demonstrate how to implement uniform access to clinical data in a hospital. Method: Medical professionals at the university hospital in Munich, Grosshadern, have access to all radiological reports of their patients. Web browsers are used as a front end. A centralized administration of users and patients is in place. Results: Centralized access control and patient selection guarantee uniform access to all applicable data via intranet and controls access rights. The high acceptance of this service is reflected by the high number of 150 requests per day. Discussion: Access to radiological reports within the Grosshadern University Clinics was enabled via web browsers in a short time. The high acceptance of the system also proves its easy use. Integration of the system in a centralized user and patient identification system supports the unified access to clinical data. (orig.) [de

42 CFR 51.41 - Access to records.

Science.gov (United States)

2010-10-01

... other than the facility or program as long as the system has obtained appropriate consent consistent... from service providers or other facilities on residents that they indicate in the release form the... access and authority to interview and examine all relevant records of any facility service recipient...

The contribution of neutron scattering to molecular biology

International Nuclear Information System (INIS)

Stuhrmann, H.B.

1983-01-01

About half of the atoms of living cells are hydrogens, and nearly all biological applications of neutron scattering rely on the well-known difference in the scattering lengths of the proton and the deuteron. This introduces us to a wide variety of biological problems, which are related with hydrogen in water, proteins, nucleic acids and lipids. Neutron scattering gives an answer to both structural and dynamical aspects of the system in question. With deuterium labelled samples unambiguous information about molecular structure and motion becomes accessible. The architecture of viruses, cell membranes and gene expressing molecules has become a lot clearer with neutron scattering. (author)

SBEToolbox: A Matlab Toolbox for Biological Network Analysis.

Science.gov (United States)

Konganti, Kranti; Wang, Gang; Yang, Ence; Cai, James J

2013-01-01

We present SBEToolbox (Systems Biology and Evolution Toolbox), an open-source Matlab toolbox for biological network analysis. It takes a network file as input, calculates a variety of centralities and topological metrics, clusters nodes into modules, and displays the network using different graph layout algorithms. Straightforward implementation and the inclusion of high-level functions allow the functionality to be easily extended or tailored through developing custom plugins. SBEGUI, a menu-driven graphical user interface (GUI) of SBEToolbox, enables easy access to various network and graph algorithms for programmers and non-programmers alike. All source code and sample data are freely available at https://github.com/biocoder/SBEToolbox/releases.

A dedicated database system for handling multi-level data in systems biology.

Science.gov (United States)

Pornputtapong, Natapol; Wanichthanarak, Kwanjeera; Nilsson, Avlant; Nookaew, Intawat; Nielsen, Jens

2014-01-01

Advances in high-throughput technologies have enabled extensive generation of multi-level omics data. These data are crucial for systems biology research, though they are complex, heterogeneous, highly dynamic, incomplete and distributed among public databases. This leads to difficulties in data accessibility and often results in errors when data are merged and integrated from varied resources. Therefore, integration and management of systems biological data remain very challenging. To overcome this, we designed and developed a dedicated database system that can serve and solve the vital issues in data management and hereby facilitate data integration, modeling and analysis in systems biology within a sole database. In addition, a yeast data repository was implemented as an integrated database environment which is operated by the database system. Two applications were implemented to demonstrate extensibility and utilization of the system. Both illustrate how the user can access the database via the web query function and implemented scripts. These scripts are specific for two sample cases: 1) Detecting the pheromone pathway in protein interaction networks; and 2) Finding metabolic reactions regulated by Snf1 kinase. In this study we present the design of database system which offers an extensible environment to efficiently capture the majority of biological entities and relations encountered in systems biology. Critical functions and control processes were designed and implemented to ensure consistent, efficient, secure and reliable transactions. The two sample cases on the yeast integrated data clearly demonstrate the value of a sole database environment for systems biology research.

Copper(I)-Catalyzed Asymmetric Desymmetrization through Inverse-Electron-Demand aza-Diels-Alder Reaction: Efficient Access to Tetrahydropyridazines Bearing a Unique α-Chiral Silane Moiety.

Science.gov (United States)

Wei, Liang; Zhou, Yu; Song, Zhi-Min; Tao, Hai-Yan; Lin, Zhenyang; Wang, Chun-Jiang

2017-04-11

An unprecedented copper(I)-catalyzed asymmetric desymmetrization of 5-silylcyclopentadienes with in situ formed azoalkene was realized through an inverse-electron-demand aza-Diels-Alder reaction (IEDDA) pathway, in which 5-silylcyclopentadienes served as efficient enophiles. This new protocol provides a facile access to the biologically important heterocyclic tetrahydropyridazines containing a unique α-chiral silane motif and three adjoining stereogenic centers in generally good yield (up to 92 %) with exclusive regioselectivity, high diastereoselectivity (>20:1 diastereomeric ratio), and excellent enantioselectivity (up to 98 % enantiomeric excess). DFT calculations and control experiments further confirmed the proposed reaction mechanism. © 2017 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

28 CFR 700.11 - Request for access to records.

Science.gov (United States)

2010-07-01

... more acceptable forms of identification (such as a driver's license or credit card) bearing his name... OR INFORMATION OF THE OFFICE OF INDEPENDENT COUNSEL Protection of Privacy and Access to Individual...

Molecular biology - Part II: Beneficial liaisons: Radiobiology meets cellular and molecular biology

International Nuclear Information System (INIS)

Stevenson, Mary Ann; Coleman, C. Norman

1997-01-01

Purpose: The purpose of this course is to familiarize radiation oncologists with the concepts and terminology of molecular and cellular biology that are especially relevant to radiation oncology. The ability of radiation oncologists to remain current with the new discoveries of modern biology is essential to the development of improved therapeutic strategies and, importantly, to the proper balance between investment in technology and biology. Objective: This year, this Refresher Course is part of a three-part ''series'' including Drs. McKenna and Dritschilo. The objective is to provide continuing education for the academic and practicing radiation oncologist, physicist and biologist in the modern biologic concepts of cancer and its treatment. An effort will be made to relate these general concepts to the clinic by providing a broad view as to potential new biological treatments which might enhance the efficacy of radiation therapy. The specific focus of this Course will vary from year to year. Some of the classic radiation biology models which form the basis of clinical practice and laboratory research will be examined and 'newer' models will be presented which take into account the emerging knowledge of cellular and molecular biology. A few techniques in molecular and cellular biology will be described to the extent necessary to understand their basic concepts and their applicability. Aspects of radiation biology which will be covered include cell cycle, radiation-induced changes in the cellular phenotype, and considerations of the effect of the tumor microenvironment. It is not the expectation that the attendees will become experts in the particular subjects presented. Rather, it is the intent to increase their curiosity as to the new knowledge that is emerging and to demonstrate that these seemingly complicated areas can be understood and appreciated with a modicum of the effort

Molecular biology - Part II: Beneficial liaisons: Radiobiology meets cellular and molecular biology

International Nuclear Information System (INIS)

Stevenson, Mary Ann; Coleman, C. Norman

1996-01-01

Purpose: The purpose of this course is to familiarize radiation oncologists with the concepts and terminology of molecular and cellular biology that are especially relevant to radiation oncology. The ability of radiation oncologists to remain current with the new discoveries of modern biology is essential to the development of improved therapeutic strategies and, importantly, to the proper balance between investment in technology and biology. Objective: This year, this Refresher Course is part of a three-part 'series' including Drs. Martin Brown and Amato Giaccia. The objective is to provide continuing education for the academic and practicing radiation oncologist, physicist and biologist in the modern biologic concepts of cancer and its treatment. An effort will be made to relate these general concepts to the clinic by providing a broad view as to potential new biological treatments which might enhance the efficacy of radiation therapy. The specific focus of this Course will vary from year to year. Some of the classic radiation biology models which form the basis of clinical practice and laboratory research will be examined and 'newer' models will be presented which take into account the emerging knowledge of cellular and molecular biology. A few techniques in molecular and cellular biology will be described to the extent necessary to understand their basic concepts and their applicability. Aspects of radiation biology which will be covered include cell cycle, radiation-induced changes in the cellular phenotype, and considerations of the effect of the tumor microenvironment. It is not the expectation that the attendees will become experts in the particular subjects presented. Rather, it is the intent to increase their curiosity as to the new knowledge that is emerging and to demonstrate that these seemingly complicated areas can be understood and appreciated with a modicum of the effort

The influence of flower morphology and nectar quality on the longevity of a parasitoid biological control agent

NARCIS (Netherlands)

Vattala, H.D.; Wratten, S.D.; Phillips, C.B.; Wäckers, F.L.

2006-01-01

Conservation biological control aims to enhance the efficacy of arthropod biological control agents, such as parasitoids, partly by providing them with access to floral nectar. However, the suitability of a flower species for providing nectar to a parasitoid is dependent on the morphologies of the

WATER TEMPERATURE and Other Data From Indian Ocean from 19760222 to 19910407 (NODC Accession 9400146)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — The primary productivity and biological data in this accession were collected in the Indian Ocean by the Indian Ocean Data Center. Data was collected between...

Data management strategies for multinational large-scale systems biology projects.

Science.gov (United States)

Wruck, Wasco; Peuker, Martin; Regenbrecht, Christian R A

2014-01-01

Good accessibility of publicly funded research data is essential to secure an open scientific system and eventually becomes mandatory [Wellcome Trust will Penalise Scientists Who Don't Embrace Open Access. The Guardian 2012]. By the use of high-throughput methods in many research areas from physics to systems biology, large data collections are increasingly important as raw material for research. Here, we present strategies worked out by international and national institutions targeting open access to publicly funded research data via incentives or obligations to share data. Funding organizations such as the British Wellcome Trust therefore have developed data sharing policies and request commitment to data management and sharing in grant applications. Increased citation rates are a profound argument for sharing publication data. Pre-publication sharing might be rewarded by a data citation credit system via digital object identifiers (DOIs) which have initially been in use for data objects. Besides policies and incentives, good practice in data management is indispensable. However, appropriate systems for data management of large-scale projects for example in systems biology are hard to find. Here, we give an overview of a selection of open-source data management systems proved to be employed successfully in large-scale projects.

iBiology: communicating the process of science.

Science.gov (United States)

Goodwin, Sarah S

2014-08-01

The Internet hosts an abundance of science video resources aimed at communicating scientific knowledge, including webinars, massive open online courses, and TED talks. Although these videos are efficient at disseminating information for diverse types of users, they often do not demonstrate the process of doing science, the excitement of scientific discovery, or how new scientific knowledge is developed. iBiology (www.ibiology.org), a project that creates open-access science videos about biology research and science-related topics, seeks to fill this need by producing videos by science leaders that make their ideas, stories, and experiences available to anyone with an Internet connection. © 2014 Goodwin. This article is distributed by The American Society for Cell Biology under license from the author(s). Two months after publication it is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

Data Management Rubric for Video Data in Organismal Biology.

Science.gov (United States)

Brainerd, Elizabeth L; Blob, Richard W; Hedrick, Tyson L; Creamer, Andrew T; Müller, Ulrike K

2017-07-01

Standards-based data management facilitates data preservation, discoverability, and access for effective data reuse within research groups and across communities of researchers. Data sharing requires community consensus on standards for data management, such as storage and formats for digital data preservation, metadata (i.e., contextual data about the data) that should be recorded and stored, and data access. Video imaging is a valuable tool for measuring time-varying phenotypes in organismal biology, with particular application for research in functional morphology, comparative biomechanics, and animal behavior. The raw data are the videos, but videos alone are not sufficient for scientific analysis. Nearly endless videos of animals can be found on YouTube and elsewhere on the web, but these videos have little value for scientific analysis because essential metadata such as true frame rate, spatial calibration, genus and species, weight, age, etc. of organisms, are generally unknown. We have embarked on a project to build community consensus on video data management and metadata standards for organismal biology research. We collected input from colleagues at early stages, organized an open workshop, "Establishing Standards for Video Data Management," at the Society for Integrative and Comparative Biology meeting in January 2017, and then collected two more rounds of input on revised versions of the standards. The result we present here is a rubric consisting of nine standards for video data management, with three levels within each standard: good, better, and best practices. The nine standards are: (1) data storage; (2) video file formats; (3) metadata linkage; (4) video data and metadata access; (5) contact information and acceptable use; (6) camera settings; (7) organism(s); (8) recording conditions; and (9) subject matter/topic. The first four standards address data preservation and interoperability for sharing, whereas standards 5-9 establish minimum metadata

Electrospun poly(ε-caprolactone) matrices containing silver sulfadiazine complexed with β-cyclodextrin as a new pharmaceutical dosage form to wound healing: preliminary physicochemical and biological evaluation.

Science.gov (United States)

Souza, Sarah Oliveira Lamas; Cotrim, Monique Alvarenga Pinto; Oréfice, Rodrigo Lambert; Carvalho, Suzana Gonçalves; Dutra, Jessyca Aparecida Paes; de Paula Careta, Francisco; Resende, Juliana Alves; Villanova, Janaina Cecília Oliveira

2018-05-10

Cooperation between researchers in the areas of medical, pharmaceutical and materials science has facilitated the development of pharmaceutical dosage forms that elicit therapeutic effects and protective action with a single product. In addition to optimizing pharmacologic action, such dosage forms provide greater patient comfort and increase success and treatment compliance. In the present work, we prepared semipermeable bioactive electrospun fibers for use as wound dressings containing silver sulfadiazine complexed with β-cyclodextrin in a poly(Ɛ-caprolactone) nanofiber matrix aiming to reduce the direct contact between silver and skin and to modulate the drug release. Wound dressings were prepared by electrospinning, and were subjected to ATR-FT-IR and TG/DTG assays to evaluate drug stability. The hydrophilicity of the fibrous nanostructure in water and PBS buffer was studied by goniometry. Electrospun fibers permeability and swelling capacity were assessed, and a dissolution test was performed. In vitro biological tests were realized to investigate the biological compatibility and antimicrobial activity. We obtained flexible matrices that were each approximately 1.0 g in weight. The electrospun fibers were shown to be semipermeable, with water vapor transmission and swelling indexes compatible with the proposed objective. The hydrophilicity was moderate. Matrices containing pure drug modulated drug release adequately during 24 h but presented a high hemolytic index. Complexation promoted a decrease in the hemolytic index and in the drug release but did not negatively impact antimicrobial activity. The drug was released predominantly by diffusion. These results indicate that electrospun PCL matrices containing β-cyclodextrin/silver sulfadiazine inclusion complexes are a promising pharmaceutical dosage form for wound healing.

Estimating monotonic rates from biological data using local linear regression.

Science.gov (United States)

Olito, Colin; White, Craig R; Marshall, Dustin J; Barneche, Diego R

2017-03-01

Accessing many fundamental questions in biology begins with empirical estimation of simple monotonic rates of underlying biological processes. Across a variety of disciplines, ranging from physiology to biogeochemistry, these rates are routinely estimated from non-linear and noisy time series data using linear regression and ad hoc manual truncation of non-linearities. Here, we introduce the R package LoLinR, a flexible toolkit to implement local linear regression techniques to objectively and reproducibly estimate monotonic biological rates from non-linear time series data, and demonstrate possible applications using metabolic rate data. LoLinR provides methods to easily and reliably estimate monotonic rates from time series data in a way that is statistically robust, facilitates reproducible research and is applicable to a wide variety of research disciplines in the biological sciences. © 2017. Published by The Company of Biologists Ltd.

Googling trends in conservation biology.

Science.gov (United States)

Proulx, Raphaël; Massicotte, Philippe; Pépino, Marc

2014-02-01

Web-crawling approaches, that is, automated programs data mining the internet to obtain information about a particular process, have recently been proposed for monitoring early signs of ecosystem degradation or for establishing crop calendars. However, lack of a clear conceptual and methodological framework has prevented the development of such approaches within the field of conservation biology. Our objective was to illustrate how Google Trends, a freely accessible web-crawling engine, can be used to track changes in timing of biological processes, spatial distribution of invasive species, and level of public awareness about key conservation issues. Google Trends returns the number of internet searches that were made for a keyword in a given region of the world over a defined period. Using data retrieved online for 13 countries, we exemplify how Google Trends can be used to study the timing of biological processes, such as the seasonal recurrence of pollen release or mosquito outbreaks across a latitudinal gradient. We mapped the spatial extent of results from Google Trends for 5 invasive species in the United States and found geographic patterns in invasions that are consistent with their coarse-grained distribution at state levels. From 2004 through 2012, Google Trends showed that the level of public interest and awareness about conservation issues related to ecosystem services, biodiversity, and climate change increased, decreased, and followed both trends, respectively. Finally, to further the development of research approaches at the interface of conservation biology, collective knowledge, and environmental management, we developed an algorithm that allows the rapid retrieval of Google Trends data. © 2013 Society for Conservation Biology.

A Conceptual Framework for Organizing Active Learning Experiences in Biology Instruction

Science.gov (United States)

Gardner, Joel; Belland, Brian R.

2012-01-01

Introductory biology courses form a cornerstone of undergraduate instruction. However, the predominantly used lecture approach fails to produce higher-order biology learning. Research shows that active learning strategies can increase student learning, yet few biology instructors use all identified active learning strategies. In this paper, we…

Barriers to Accessing Good Eye Care Services in Nigeria: A Focus ...

African Journals Online (AJOL)

Certain forms of blindness can be prevented if the right steps and treatments are applied at the right times, but this is not always possible due to the challenges patients face in accessing eye care services. The aim of this study was to explore and identify the barriers in accessing good eye care services in Anambra State ...

Importance of magnesium depletion with hypofunction of the biological clock in the pathophysiology of headhaches with photophobia, sudden infant death and some clinical forms of multiple sclerosis.

Science.gov (United States)

Durlach, J; Pagès, N; Bac, P; Bara, M; Guiet-Bara, A

2004-12-01

Mg depletion is a type of Mg deficit due to a dysregulation of the Mg status. It cannot be corrected through nutritional supplementation only, but requires the most specific correction of the dysregulating mechanism. Among those, Biological Clock (BC) dysrhythmias are to be considered. The aim of this study is to analyze the clinical forms of Mg depletion with hypofunction of the Biological Clock (hBC). hBC may be due to either Primary disorders of BC [Suprachiasmatic Nuclei (SCN) and pineal gland (PG)] or Secondary with homeostatic response [reactive Photophobia (Pphi] to light neurostimulating effects [Nervous Hyper Excitability (NHE)]. The symptomatology is mainly diurnal and observed during fair weather (Spring,Summer). The elective marker of hBC is represented by a decrease in melatonin and in its metabolites in various fluids. The clinical forms of NHE due to Mg depletion with hBC are central and peripheral. The central forms associate anxiety, headaches and dyssomnia. The peripheral manifestations are neuromuscular: photosensitive epilepsia mainly. Three chronopathological forms of Mg depletion with hBC have been highlighted: 1. Headaches with Pphi: mainly migraine; 2. Sudden Infant Death Syndrome (SIDS); 3. Multiple Sclerosis (MS).- Headaches with Pphi, migraine particularly. These cephalalgias are diurnal with Pphi and are aggravated during the fair seasons (particularly during midnight sun-summer). Migraine is their typical form with its dishabituation to visual stimuli and its occipital cortex hyperexcitability. Comorbidity with anxiety is frequent. In 2/3 of the cases, it appears first.- SIDS might be linked to an impaired maturation of both photoendocrine system and brown adipose tissue. MS may be associated with primary disorders of BC Clinical forms of Mg depletion with hBC in MS present diurnal exacerbations and relapses during fair seasons. They have been underestimated because they disagree with the dogma of the , presently questioned

Evolution, Entropy, & Biological Information

Science.gov (United States)

Peterson, Jacob

2014-01-01

A logical question to be expected from students: "How could life develop, that is, change, evolve from simple, primitive organisms into the complex forms existing today, while at the same time there is a generally observed decline and disorganization--the second law of thermodynamics?" The explanations in biology textbooks relied upon by…

Teaching information literacy skills to sophomore-level biology majors.

Science.gov (United States)

Thompson, Leigh; Blankinship, Lisa Ann

2015-05-01

Many undergraduate students lack a sound understanding of information literacy. The skills that comprise information literacy are particularly important when combined with scientific writing for biology majors as they are the foundation skills necessary to complete upper-division biology course assignments, better train students for research projects, and prepare students for graduate and professional education. To help undergraduate biology students develop and practice information literacy and scientific writing skills, a series of three one-hour hands-on library sessions, discussions, and homework assignments were developed for Biological Literature, a one-credit, one-hour-per-week, required sophomore-level course. The embedded course librarian developed a learning exercise that reviewed how to conduct database and web searches, the difference between primary and secondary sources, source credibility, and how to access articles through the university's databases. Students used the skills gained in the library training sessions for later writing assignments including a formal lab report and annotated bibliography. By focusing on improving information literacy skills as well as providing practice in scientific writing, Biological Literature students are better able to meet the rigors of upper-division biology courses and communicate research findings in a more professional manner.

Gender, International Law and Justice : Access to Gender Equality ...

International Development Research Centre (IDRC) Digital Library (Canada)

Gender, International Law and Justice : Access to Gender Equality. Countries that have ratified or acceded to the Convention on the Elimination of All Forms of Discrimination against ... Centre for International Sustainable Development Law.

In Situ Representations and Access Consciousness in Neural Blackboard or Workspace Architectures

OpenAIRE

Frank van der Velde

2018-01-01

Phenomenal theories of consciousness assert that consciousness is based on specific neural correlates in the brain, which can be separated from all cognitive functions we can perform. If so, the search for robot consciousness seems to be doomed. By contrast, theories of functional or access consciousness assert that consciousness can be studied only with forms of cognitive access, given by cognitive processes. Consequently, consciousness and cognitive access cannot be fully dissociated. Here,...

Making metabolism accessible and meaningful: is the definition of a central metabolic dogma within reach?

Science.gov (United States)

LaRossa, Robert A

2015-04-01

Intermediary metabolism, a dominant research area before the emergence of molecular biology, is attracting renewed interest for fundamental and applied reasons as documented here. Nonetheless, the field may appear to be a thicket precluding entry to all but the most determined. Here we present a metabolic overview that makes this important and fascinating area accessible to a broad range of the molecular biological and biotechnological communities that are being attracted to biological problems crying out for metabolic solutions. This is accomplished by identifying seven key concepts, a so-called metabolic central dogma, that provide a core understanding analogous to the "Central Dogma of Molecular Biology" which focused upon maintenance and flow of genetic information.

44 CFR 6.30 - Form of requests.

Science.gov (United States)

2010-10-01

... 44 Emergency Management and Assistance 1 2010-10-01 2010-10-01 false Form of requests. 6.30 Section 6.30 Emergency Management and Assistance FEDERAL EMERGENCY MANAGEMENT AGENCY, DEPARTMENT OF... manager, at his discretion, may accept oral requests for access subject to verification of identity. ...

Open Access Theses in Institutional Repositories: An Exploratory Study of the Perceptions of Doctoral Students

Science.gov (United States)

Stanton, Kate Valentine; Liew, Chern Li

2011-01-01

Introduction: We examine doctoral students' awareness of and attitudes to open access forms of publication. Levels of awareness of open access and the concept of institutional repositories, publishing behaviour and perceptions of benefits and risks of open access publishing were explored. Method: Qualitative and quantitative data were collected…

Adapting federated cyberinfrastructure for shared data collection facilities in structural biology

International Nuclear Information System (INIS)

Stokes-Rees, Ian; Levesque, Ian; Murphy, Frank V. IV; Yang, Wei; Deacon, Ashley; Sliz, Piotr

2012-01-01

It has been difficult, historically, to manage and maintain early-stage experimental data collected by structural biologists in synchrotron facilities. This work describes a prototype system that adapts existing federated cyberinfrastructure technology and techniques to manage collected data at synchrotrons and to facilitate the efficient and secure transfer of data to the owner's home institution. Early stage experimental data in structural biology is generally unmaintained and inaccessible to the public. It is increasingly believed that this data, which forms the basis for each macromolecular structure discovered by this field, must be archived and, in due course, published. Furthermore, the widespread use of shared scientific facilities such as synchrotron beamlines complicates the issue of data storage, access and movement, as does the increase of remote users. This work describes a prototype system that adapts existing federated cyberinfrastructure technology and techniques to significantly improve the operational environment for users and administrators of synchrotron data collection facilities used in structural biology. This is achieved through software from the Virtual Data Toolkit and Globus, bringing together federated users and facilities from the Stanford Synchrotron Radiation Lightsource, the Advanced Photon Source, the Open Science Grid, the SBGrid Consortium and Harvard Medical School. The performance and experience with the prototype provide a model for data management at shared scientific facilities

Adapting federated cyberinfrastructure for shared data collection facilities in structural biology

Energy Technology Data Exchange (ETDEWEB)

Stokes-Rees, Ian [Harvard Medical School, Boston, MA 02115 (United States); Levesque, Ian [Harvard Medical School, Boston, MA 02115 (United States); Harvard Medical School, Boston, MA 02115 (United States); Murphy, Frank V. IV [Argonne National Laboratory, Argonne, IL 60439 (United States); Yang, Wei; Deacon, Ashley [Stanford University, Menlo Park, CA 94025 (United States); Sliz, Piotr, E-mail: piotr-sliz@hms.harvard.edu [Harvard Medical School, Boston, MA 02115 (United States)

2012-05-01

It has been difficult, historically, to manage and maintain early-stage experimental data collected by structural biologists in synchrotron facilities. This work describes a prototype system that adapts existing federated cyberinfrastructure technology and techniques to manage collected data at synchrotrons and to facilitate the efficient and secure transfer of data to the owner's home institution. Early stage experimental data in structural biology is generally unmaintained and inaccessible to the public. It is increasingly believed that this data, which forms the basis for each macromolecular structure discovered by this field, must be archived and, in due course, published. Furthermore, the widespread use of shared scientific facilities such as synchrotron beamlines complicates the issue of data storage, access and movement, as does the increase of remote users. This work describes a prototype system that adapts existing federated cyberinfrastructure technology and techniques to significantly improve the operational environment for users and administrators of synchrotron data collection facilities used in structural biology. This is achieved through software from the Virtual Data Toolkit and Globus, bringing together federated users and facilities from the Stanford Synchrotron Radiation Lightsource, the Advanced Photon Source, the Open Science Grid, the SBGrid Consortium and Harvard Medical School. The performance and experience with the prototype provide a model for data management at shared scientific facilities.

Emergence of biological complexity: Criticality, renewal and memory

International Nuclear Information System (INIS)

Grigolini, Paolo

2015-01-01

The key purpose of this article is to establish a connection between two emerging fields of research in theoretical biology. The former focuses on the concept of criticality borrowed from physics that is expected to be extensible to biology through a robust theoretical approach that although not yet available shall eventually shed light into the origin of cognition. The latter, largely based on the tracking of single molecules diffusing in biological cells, is bringing to the general attention the need to go beyond the ergodic assumption currently done in the traditional statistical physics. We show that replacing critical slowing down with temporal complexity explains why biological systems at criticality are resilient and why long-range correlations are compatible with the free-will condition necessary for the emergence of cognition. Temporal complexity generates ergodicity breakdown and requires new forms of response of complex systems to external stimuli. We concisely illustrate these new forms of information transport and we also address the challenging issue of combining temporal complexity with coherence and renewal with infinite memory.

Inactivation of biological substances by local heating

Energy Technology Data Exchange (ETDEWEB)

Saito, Masahiro [Kyoto Univ., Kumatori, Osaka (Japan). Research Reactor Inst.

1982-09-01

Mechanism of inactivation of biological substances caused by local heating was investigated. The effect of hot-zone formation by local heating on reaction of radicals was previously evaluated. The thermal increase in a hot zone due to low energy LET x-rays had little effect on reactibility of the radicals, but, in a hot zone caused by high energy LET x-rays, formed radicals seemed immediately react to active biological molecules to inactivate them. Direct thermal effect on biological molecules was analysed. Thermal increase in a hot zone may induce degenaration of biological molecules which seems to occur in a short time judged from the extension of a hot zone and the duration of high temperature.

Use of biological indicators for evaluating environmental stress

International Nuclear Information System (INIS)

Letourneau, C.; Castonguay, J.

1988-09-01

This report examines the usefulness of biological analyses for evaluating environmental stress. All forms of stress are addressed; particular attention, however, is paid to the use of biological analyses to evaluate the impact on the environment from radioactive releases of the nuclear industry. First, we will review different biological analyses which are grouped into two approaches: the holistic approach (biotic and diversity indices) and the reductionist approach ('biological indicators' per se). Secondly, we will compare the usefulness of plants and animals as indicators based on the established criteria. This report ends with a compilation of letters received from different organizations which outline the present use in Canada of biological indicators for evaluating environmental stress

Use of biological indicators to evaluate environmental stress

International Nuclear Information System (INIS)

Letourneau, C.; Castonguay, J.

1987-09-01

This report examines the usefulness of biological analyses for evaluating environmental stress. All forms of stress are addressed; particular attention, however, is paid to the use of biological analyses to evaluate the impact on the environment from radioactive releases of the nuclear industry. First, we will review different biological analyses which are grouped into two approaches: the holistic approach (biotic and diversity indices) and the reductionist approach ('biological indicators' per se). Secondly, we will compare the usefulness of plants and animals as indicators based on the established criteria. This report ends with a compilation of letters received from different organizations which outline the present usage in Canada of biological indicators for evaluating environmental stress

Combining chemoinformatics with bioinformatics: in silico prediction of bacterial flavor-forming pathways by a chemical systems biology approach "reverse pathway engineering".

Science.gov (United States)

Liu, Mengjin; Bienfait, Bruno; Sacher, Oliver; Gasteiger, Johann; Siezen, Roland J; Nauta, Arjen; Geurts, Jan M W

2014-01-01

The incompleteness of genome-scale metabolic models is a major bottleneck for systems biology approaches, which are based on large numbers of metabolites as identified and quantified by metabolomics. Many of the revealed secondary metabolites and/or their derivatives, such as flavor compounds, are non-essential in metabolism, and many of their synthesis pathways are unknown. In this study, we describe a novel approach, Reverse Pathway Engineering (RPE), which combines chemoinformatics and bioinformatics analyses, to predict the "missing links" between compounds of interest and their possible metabolic precursors by providing plausible chemical and/or enzymatic reactions. We demonstrate the added-value of the approach by using flavor-forming pathways in lactic acid bacteria (LAB) as an example. Established metabolic routes leading to the formation of flavor compounds from leucine were successfully replicated. Novel reactions involved in flavor formation, i.e. the conversion of alpha-hydroxy-isocaproate to 3-methylbutanoic acid and the synthesis of dimethyl sulfide, as well as the involved enzymes were successfully predicted. These new insights into the flavor-formation mechanisms in LAB can have a significant impact on improving the control of aroma formation in fermented food products. Since the input reaction databases and compounds are highly flexible, the RPE approach can be easily extended to a broad spectrum of applications, amongst others health/disease biomarker discovery as well as synthetic biology.

VISUALIZATION OF BIOLOGICAL TISSUE IMPEDANCE PARAMETERS

Directory of Open Access Journals (Sweden)

V. I. Bankov

2016-01-01

Full Text Available Objective. Investigation the opportunity for measurement of biological tissue impedance to visualize its parameters.Materials and methods. Studies were undertook on the experimental facility, consists of registrating measuring cell, constructed from flat inductors system, formed in oscillatory circuit, herewith investigated biological tissue is the part of this oscillatory circuit. An excitation of oscillatory circuit fulfilled by means of exciter inductor which forms impulse complex modulated electromagnetic field (ICM EMF. The measurement process and visualizations provided by set of certificated instruments: a digital oscillograph AKTAKOM ADS-2221MV, a digital generator АКТАКОМ AWG-4150 (both with software and a gauge RLC E7-22. Comparative dynamic studies of fixed volume and weight pig’s blood, adipose tissue, muscular tissue impedance were conducted by contact versus contactless methods. Contactless method in contrast to contact method gives opportunity to obtain the real morphological visualization of biological tissue irrespective of their nature.Results. Comparison of contact and contactless methods of impedance measurement shows that the inductance to capacitance ratio X(L / X(C was equal: 17 – for muscular tissue, 4 – for blood, 1 – for adipose tissue. It demonstrates the technical correspondence of both impedance registration methods. If propose the base relevance of X (L and X (C parameters for biological tissue impedance so contactless measurement method for sure shows insulating properties of adipose tissue and high conductivity for blood and muscular tissue in fixed volume-weight parameters. Registration of biological tissue impedance complex parameters by contactless method with the help of induced ICM EMF in fixed volume of biological tissue uncovers the most important informative volumes to characterize morphofunctional condition of biological tissue namely X (L / X (C.Conclusion. Contactless method of biological

Open Access: there is something you can do…

CERN Multimedia

Jens Vigen

2014-01-01

Since the very beginning, CERN has put a lot of emphasis on the fact that its scientific output should be accessible to everyone. Today, on average, around 10% of articles are published Open Access worldwide. However, that figure is much lower when the proceedings of conferences, including those held at CERN, are taken into account.   The CERN Convention reads: “…and the results of its experimental and theoretical work shall be published or otherwise made generally available”. There is little doubt that if this had been written today, it would have explicitly mentioned that our results should be published Open Access. This is indeed what has happened as CERN has moved into the LHC era: a little known fact is that all LHC physics results have been published Open Access and can be read in their final form by anybody with an Internet connection. Most importantly, this information can be re-used thanks to Creative Commons licenses, which is not the case for conventional...

Computational biology for ageing

Science.gov (United States)

Wieser, Daniela; Papatheodorou, Irene; Ziehm, Matthias; Thornton, Janet M.

2011-01-01

High-throughput genomic and proteomic technologies have generated a wealth of publicly available data on ageing. Easy access to these data, and their computational analysis, is of great importance in order to pinpoint the causes and effects of ageing. Here, we provide a description of the existing databases and computational tools on ageing that are available for researchers. We also describe the computational approaches to data interpretation in the field of ageing including gene expression, comparative and pathway analyses, and highlight the challenges for future developments. We review recent biological insights gained from applying bioinformatics methods to analyse and interpret ageing data in different organisms, tissues and conditions. PMID:21115530

National Radiobiology Archives distributed access programmer's guide

Energy Technology Data Exchange (ETDEWEB)

Prather, J. C. [Linfield Coll., McMinnville, OR (United States); Smith, S. K.; Watson, C. R. [Pacific Northwest Lab., Richland, WA (United States)

1991-12-01

The National Radiobiology Archives is a comprehensive effort to gather, organize, and catalog original data, representative specimens, and supporting materials related to significant radiobiology studies. This provides researchers with information for analyses which compare or combine results of these and other studies and with materials for analysis by advanced molecular biology techniques. This Programmer's Guide document describes the database access software, NRADEMO, and the subset loading script NRADEMO/MAINT/MAINTAIN, which comprise the National Laboratory Archives Distributed Access Package. The guide is intended for use by an experienced database management specialist. It contains information about the physical and logical organization of the software and data files. It also contains printouts of all the scripts and associated batch processing files. It is part of a suite of documents published by the National Radiobiology Archives.

Accessible Knowledge - Knowledge on Accessibility

DEFF Research Database (Denmark)

Kirkeby, Inge Mette

2015-01-01

Although serious efforts are made internationally and nationally, it is a slow process to make our physical environment accessible. In the actual design process, architects play a major role. But what kinds of knowledge, including research-based knowledge, do practicing architects make use of when...... designing accessible environments? The answer to the question is crucially important since it affects how knowledge is distributed and how accessibility can be ensured. In order to get first-hand knowledge about the design process and the sources from which they gain knowledge, 11 qualitative interviews...... were conducted with architects with experience of designing for accessibility. The analysis draws on two theoretical distinctions. The first is research-based knowledge versus knowledge used by architects. The second is context-independent knowledge versus context-dependent knowledge. The practitioners...

Frontiers of NMR in Molecular Biology

Energy Technology Data Exchange (ETDEWEB)

NONE

1999-08-25

NMR spectroscopy is expanding the horizons of structural biology by determining the structures and describing the dynamics of blobular proteins in aqueous solution, as well as other classes of proteins including membrane proteins and the polypeptides that form the aggregates diagnostic of prion and amyloid diseases. Significant results are also emerging on DNA and RNA oligomers and their complexes with proteins. This meeting focused attention on key structural questions emanating from molecular biology and how NMR spectroscopy can be used to answer them.

Biological Remediation of Petroleum Contaminants

Science.gov (United States)

Kuhad, Ramesh Chander; Gupta, Rishi

Large volumes of hazardous wastes are generated in the form of oily sludges and contaminated soils during crude oil transportation and processing. Although many physical, chemical and biological treatment technologies are available for petroleum contaminants petroleum contaminants in soil, biological methods have been considered the most cost-effective. Practical biological remediation methods typically involve direct use of the microbes naturally occurring in the contaminated environment and/or cultured indigenous or modified microorganisms. Environmental and nutritional factors, including the properties of the soil, the chemical structure of the hydrocarbon(s), oxygen, water, nutrient availability, pH, temperature, and contaminant bioavailability, can significantly affect the rate and the extent of hydrocarbon biodegradation hydrocarbon biodegradation by microorganisms in contaminated soils. This chapter concisely discusses the major aspects of bioremediation of petroleum contaminants.

STRUCTURES AND BIOLOGICAL ACTIVITY OF CUPROPHYLLINS

Directory of Open Access Journals (Sweden)

Martynov A.V.

2017-06-01

Full Text Available Chlorophylls (a, b are the porphyrin compounds and most common chemical in the plant’s world. In fact, these compounds are an obligatory intermediate product both in energy metabolism and in plant catabolism. At the same time, currently there are few pharmaceutical preparations on the pharmaceutical market based on chlorophylls. Dyes based on hydrolyzed chlorophyll are successfully used in the food industry. Commercial chlorophylline is a copper complex of hydrolyzed chlorophylls. As shown earlier in TLC, the chlorophyllin mixture contains a large number of different compounds. It is like water-soluble saponified derivatives in the form of sodium-magnesium complexes, and similar structures in the form of a complex with copper. The latter are more brightly colored, soluble in water and widely used as coloring agents in cooking. In this case, if the initial chlorophyll was not found to have a pronounced biological activity, the substituted derivatives in the form of copper complexes possessed a number of new unique biological properties. Non-hydrolyzed hydrophobic cuprophylline obtained from eucalyptus leaves possessed high antimicrobial activity to most strains of staphylococci, inclusion resistant to antimicrobials and multiresistant strains. This drug is called Chlorophyllipt, it is allowed to be used as a medicinal product and is one of the oldest antibacterial drugs from plants on the market. It is marketed as ethanoic and oily solutions for topical use, and as an alcohol solution for intravenous injections. Its main purpose is the fight against staphylococcal infections. Recently, found that the oral administration of chlorophyllipt activates cellular immunity and indirectly exhibits antiviral activity. Another compound of cuprophyllin is water-soluble chlorophyllin. Some authors show the variability of the structure and biological activity of cuprophyllins. Different derivatives of chlorophyll have different biological activity

Forces, Growth and Form in Soft Condensed Matter: At the Interface between Physics and Biology NATO Advanced Study Institute, Geilo, Norway, 24 March - 3 April 2003

Energy Technology Data Exchange (ETDEWEB)

Helgesen, G. ed.

2003-05-01

The goal of this ASI was to bring together a group of disparate sciences to discuss areas of research related to competition between interactions of different ranges, for it is this that creates local structure on which complexity depends in soft condensed matter, biological systems and their synthetic models. The starting point, and the underlying theme throughout the ASI, was thus a thorough discussion of the relative role of the various fundamental interactions in such systems (electrostatic, hydrophobic, steric, conformational, van der Waals, etc.). The next focus was on how these competing interactions influence the form and topology of soft and biological matter, like polymers and proteins, leading to hierarchical structures in self-assembling systems and folding patterns sometimes described in terms of chirality, braids and knots. Finally, focus was on how the competing interactions influence various bio processes like genetic regulation and biological evolution taking place in systems like biopolymers, macromolecules and cell membranes. The report includes the abstracts of the posters presented, two of which are given in this database: (1) Precise characterisation of nano channels in track etched membranes by SAXS and SANS, and (2) Cisplatin binding to DNA: Structure, bonding and NMR properties from CarParrinello/Classical MD simulations.

Achieving Open Access to Conservation Science

Science.gov (United States)

Fuller, Richard A; Lee, Jasmine R; Watson, James E M

2014-01-01

Conservation science is a crisis discipline in which the results of scientific enquiry must be made available quickly to those implementing management. We assessed the extent to which scientific research published since the year 2000 in 20 conservation science journals is publicly available. Of the 19,207 papers published, 1,667 (8.68%) are freely downloadable from an official repository. Moreover, only 938 papers (4.88%) meet the standard definition of open access in which material can be freely reused providing attribution to the authors is given. This compares poorly with a comparable set of 20 evolutionary biology journals, where 31.93% of papers are freely downloadable and 7.49% are open access. Seventeen of the 20 conservation journals offer an open access option, but fewer than 5% of the papers are available through open access. The cost of accessing the full body of conservation science runs into tens of thousands of dollars per year for institutional subscribers, and many conservation practitioners cannot access pay-per-view science through their workplace. However, important initiatives such as Research4Life are making science available to organizations in developing countries. We urge authors of conservation science to pay for open access on a per-article basis or to choose publication in open access journals, taking care to ensure the license allows reuse for any purpose providing attribution is given. Currently, it would cost $51 million to make all conservation science published since 2000 freely available by paying the open access fees currently levied to authors. Publishers of conservation journals might consider more cost effective models for open access and conservation-oriented organizations running journals could consider a broader range of options for open access to nonmembers such as sponsorship of open access via membership fees. Obtención de Acceso Abierto a la Ciencia de la Conservación Resumen La ciencia de la conservación es una

CHOmine: an integrated data warehouse for CHO systems biology and modeling.

Science.gov (United States)

Gerstl, Matthias P; Hanscho, Michael; Ruckerbauer, David E; Zanghellini, Jürgen; Borth, Nicole

2017-01-01

The last decade has seen a surge in published genome-scale information for Chinese hamster ovary (CHO) cells, which are the main production vehicles for therapeutic proteins. While a single access point is available at www.CHOgenome.org, the primary data is distributed over several databases at different institutions. Currently research is frequently hampered by a plethora of gene names and IDs that vary between published draft genomes and databases making systems biology analyses cumbersome and elaborate. Here we present CHOmine, an integrative data warehouse connecting data from various databases and links to other ones. Furthermore, we introduce CHOmodel, a web based resource that provides access to recently published CHO cell line specific metabolic reconstructions. Both resources allow to query CHO relevant data, find interconnections between different types of data and thus provides a simple, standardized entry point to the world of CHO systems biology. http://www.chogenome.org. © The Author(s) 2017. Published by Oxford University Press.

Research on the Legal Regulation of Market Access for Agricultural Products in China

Institute of Scientific and Technical Information of China (English)

2011-01-01

On the basis of defining the concept of market access for agricultural products,this paper analyzes the necessity of establishing market access system of agricultural products,proposes the conception of establishing market access system of agricultural products in China;sets up the frame of market access system of agricultural products;analyzes the rationality of the frame of market access system of agricultural products;poses the consideration of economic law regarding setup of market access system of agricultural products.This paper also puts forward the legislative suggestions for establishing market access system of agricultural products as follows:establish the frame of market access system of agricultural products taking quality access as core;establish and perfect the compensation and relief system of guaranteeing benefit of manager and producers;establish the market access system of agricultural products with hierarchical structure;sort out existing laws and form the sound the legal frame of market access system of agricultural products.

Samples and data accessibility in research biobanks: an explorative survey

Directory of Open Access Journals (Sweden)

Marco Capocasa

2016-02-01

Full Text Available Biobanks, which contain human biological samples and/or data, provide a crucial contribution to the progress of biomedical research. However, the effective and efficient use of biobank resources depends on their accessibility. In fact, making bio-resources promptly accessible to everybody may increase the benefits for society. Furthermore, optimizing their use and ensuring their quality will promote scientific creativity and, in general, contribute to the progress of bio-medical research. Although this has become a rather common belief, several laboratories are still secretive and continue to withhold samples and data. In this study, we conducted a questionnaire-based survey in order to investigate sample and data accessibility in research biobanks operating all over the world. The survey involved a total of 46 biobanks. Most of them gave permission to access their samples (95.7% and data (85.4%, but free and unconditioned accessibility seemed not to be common practice. The analysis of the guidelines regarding the accessibility to resources of the biobanks that responded to the survey highlights three issues: (i the request for applicants to explain what they would like to do with the resources requested; (ii the role of funding, public or private, in the establishment of fruitful collaborations between biobanks and research labs; (iii the request of co-authorship in order to give access to their data. These results suggest that economic and academic aspects are involved in determining the extent of sample and data sharing stored in biobanks. As a second step of this study, we investigated the reasons behind the high diversity of requirements to access biobank resources. The analysis of informative answers suggested that the different modalities of resource accessibility seem to be largely influenced by both social context and legislation of the countries where the biobanks operate.

Using the Internet to access information inflates future use of the Internet to access other information.

Science.gov (United States)

Storm, Benjamin C; Stone, Sean M; Benjamin, Aaron S

2017-07-01

The ways in which people learn, remember, and solve problems have all been impacted by the Internet. The present research explored how people become primed to use the Internet as a form of cognitive offloading. In three experiments, we show that using the Internet to retrieve information alters a person's propensity to use the Internet to retrieve other information. Specifically, participants who used Google to answer an initial set of difficult trivia questions were more likely to decide to use Google when answering a new set of relatively easy trivia questions than were participants who answered the initial questions from memory. These results suggest that relying on the Internet to access information makes one more likely to rely on the Internet to access other information.

Topology in Molecular Biology

CERN Document Server

Monastyrsky, Michail Ilych

2007-01-01

The book presents a class of new results in molecular biology for which topological methods and ideas are important. These include: the large-scale conformation properties of DNA; computational methods (Monte Carlo) allowing the simulation of large-scale properties of DNA; the tangle model of DNA recombination and other applications of Knot theory; dynamics of supercoiled DNA and biocatalitic properties of DNA; the structure of proteins; and other very recent problems in molecular biology. The text also provides a short course of modern topology intended for the broad audience of biologists and physicists. The authors are renowned specialists in their fields and some of the new results presented here are documented for the first time in monographic form.

75 FR 24706 - Agency Forms Undergoing Paperwork Reduction Act Review

Science.gov (United States)

2010-05-05

... parent consent 214 1 10/60 form. Child Clinic Visit--Case 107 1 1.5 children packet. Parent Clinic Visit...] Agency Forms Undergoing Paperwork Reduction Act Review The Centers for Disease Control and Prevention...; (4) a telephone interview focusing on pregnancy-related events and early life history (biological...

Modeling of contact theories for the manipulation of biological micro/nanoparticles in the form of circular crowned rollers based on the atomic force microscope

International Nuclear Information System (INIS)

Korayem, M. H.; Khaksar, H.; Taheri, M.

2013-01-01

This article has dealt with the development and modeling of various contact theories for biological nanoparticles shaped as cylinders and circular crowned rollers for application in the manipulation of different biological micro/nanoparticles based on Atomic Force Microscope. First, the effective contact forces were simulated, and their impact on contact mechanics simulation was investigated. In the next step, the Hertz contact model was simulated and compared for gold and DNA nanoparticles with the three types of spherical, cylindrical, and circular crowned roller type contact geometries. Then by reducing the length of the cylindrical section in the circular crowned roller geometry, the geometry of the body was made to approach that of a sphere, and the results were compared for DNA nanoparticles. To anticipatory validate the developed theories, the results of the cylindrical and the circular crowned roller contacts were compared with the results of the existing spherical contact simulations. Following the development of these contact models for the manipulation of various biological micro/nanoparticles, the cylindrical and the circular crowned roller type contact theories were modeled based on the theories of Lundberg, Dowson, Nikpur, Heoprich, and Hertz for the manipulation of biological micro/nanoparticles. Then, for a more accurate validation, the results obtained from the simulations were compared with those obtained by the finite element method and with the experimental results available in previous articles. The previous research works on the simulation of nanomanipulation have mainly investigated the contact theories used in the manipulation of spherical micro/nanoparticles. However since in real biomanipulation situations, biological micro/nanoparticles of more complex shapes need to be displaced in biological environments, this article therefore has modeled and compared, for the first time, different contact theories for use in the biomanipulation of

Extraction and desorption of accessible uranium

International Nuclear Information System (INIS)

Payne, T.

1987-01-01

The proportion of the uranium in natural ore samples which is in isotopic equilibrium with the uranium in the groundwater may be designated accessible uranium, and can be regarded as being in short-term exchange with the aqueous phase. Some of the natural uranium is secured in resistant crystalline minerals, and is described as inaccessible, because it may not be brought into solution unless the mineral is subjected to extreme chemical attack. It is not available for groundwater transport in the short term. An estimate of the proportion of accessible uranium is therefore useful when modeling radionuclide migration. The amount of accessible natural uranium is some uranium ore samples from the Ranger deposit has been determined by combining a sequential extraction with isotopic measurements of the extracted phases. The solid samples were crushed drill core form Ranger S1/146 which had previously been used for uranium adsorption experiments and therefore contained 236 U as well as natural uranium. This Section discusses how the uranium partitioning found with the sequential extraction procedure predicts the leaching behavior of these samples

Biologically-transformed zinc and its availability for bioaccumulation by marine organisms

International Nuclear Information System (INIS)

Fowler, S.W.; Heyraud, M.

1980-01-01

Zinc which occurs in sea water as a trace element exists in several different stable or meta-stable forms in the aquatic environment. One of them is ''complexed'' form which is relatively stable. Radiotracer studies were carried out to investigate the mode of formation of the complexed zinc fraction and to find whether this fraction once formed by biological means is available for accumulation by marine biota. Sea water solutions used in the experiments were filtered through double 0.45 μm Millipore filters. Chelex-100 resin which quantitatively removes zinc from sea water was used to measure the relative degree of binding of different species of 65 Zn formed by association with marine organisms. 65 Zn in exometabolites from living animals represented in this case by shrimp (Lymata seticaudata), influence of organic detritus represented in this case by dead shrimp on the conversion of different forms of zinc and bioavailability of biologically processed 65 Zn were studied. It was observed that: (1) living and dead marine animals can produce a soluble species of complexed, possibly organically bound, zinc, (2) uptake of this species is reduced relative to that of the ionic form indicating that zinc which has passed through biological cycles may be less available for bioaccumulation than zinc which has been directly introduced into the marine environment in inorganic forms. (M.G.B.)

Highlights from e-EPS: Coordinated Access to Light sources

CERN Multimedia

e-EPS News

2014-01-01

The CALIPSO project, which runs until May 2015, will contribute to the effective exploitation of European synchrotrons and free electron lasers. CALIPSO (Coordinated Access to Light sources to Promote Standards and Optimisation) includes 20 partners forming one of the largest Research Networks in the world.   e-EPS interviewed M. Bertolo, CALIPSO project manager and his assistant C. Blasetti. Which challenges are addressed by CALIPSO? CALIPSO’s goal is to optimize the exploitation of the European synchrotrons and Free Electron Lasers. With respect to previous projects funded by the European Commission, it foresees significant improvements in integration, innovation and user-friendliness in all three areas of networking, transnational access and instrumentation. The Transnational Access program potentially benefits a community of 25,000 estimated users offering free open access to 12 synchrotrons and 5 free electron lasers solely based on scientific merit. In ad...

Cerberus, an Access Control Scheme for Enforcing Least Privilege in Patient Cohort Study Platforms : A Comprehensive Access Control Scheme Applied to the GENIDA Project - Study of Genetic Forms of Intellectual Disabilities and Autism Spectrum Disorders.

Science.gov (United States)

Parrend, Pierre; Mazzucotelli, Timothée; Colin, Florent; Collet, Pierre; Mandel, Jean-Louis

2017-11-16

Cohort Study Platforms (CSP) are emerging as a key tool for collecting patient information, providing new research data, and supporting family and patient associations. However they pose new ethics and regulatory challenges since they cross the gap between patients and medical practitioners. One of the critical issues for CSP is to enforce a strict control on access privileges whilst allowing the users to take advantage of the breadth of the available data. We propose Cerberus, a new access control scheme spanning the whole life-cycle of access right management: design, implementation, deployment and maintenance, operations. Cerberus enables switching from a dual world, where CSP data can be accessed either from the users who entered it or fully de-identified, to an access-when-required world, where patients, practitioners and researchers can access focused medical data through explicit authorisation by the data owner. Efficient access control requires application-specific access rights, as well as the ability to restrict these rights when they are not used. Cerberus is implemented and evaluated in the context of the GENIDA project, an international CSP for Genetically determined Intellectual Disabilities and Autism Spectrum Disorders. As a result of this study, the software is made available for the community, and validated specifications for CSPs are given.

Flow chemistry kinetic studies reveal reaction conditions for ready access to unsymmetrical trehalose analogues.

Science.gov (United States)

Patel, Mitul K; Davis, Benjamin G

2010-10-07

Monofunctionalization of trehalose, a widely-found symmetric plant disaccharide, was studied in a microreactor to give valuable kinetic insights that have allowed improvements in desymmetrization yields and the development of a reaction sequence for large scale monofunctionalizations that allow access to probes of trehalose's biological function.

Computation: A New Open Access Journal of Computational Chemistry, Computational Biology and Computational Engineering

OpenAIRE

Karlheinz Schwarz; Rainer Breitling; Christian Allen

2013-01-01

Computation (ISSN 2079-3197; http://www.mdpi.com/journal/computation) is an international scientific open access journal focusing on fundamental work in the field of computational science and engineering. Computational science has become essential in many research areas by contributing to solving complex problems in fundamental science all the way to engineering. The very broad range of application domains suggests structuring this journal into three sections, which are briefly characterized ...

Joint Hybrid Backhaul and Access Links Design in Cloud-Radio Access Networks

KAUST Repository

Dhifallah, Oussama Najeeb

2015-09-06

The cloud-radio access network (CRAN) is expected to be the core network architecture for next generation mobile radio systems. In this paper, we consider the downlink of a CRAN formed of one central processor (the cloud) and several base station (BS), where each BS is connected to the cloud via either a wireless or capacity-limited wireline backhaul link. The paper addresses the joint design of the hybrid backhaul links (i.e., designing the wireline and wireless backhaul connections from the cloud to the BSs) and the access links (i.e., determining the sparse beamforming solution from the BSs to the users). The paper formulates the hybrid backhaul and access link design problem by minimizing the total network power consumption. The paper solves the problem using a two-stage heuristic algorithm. At one stage, the sparse beamforming solution is found using a weighted mixed 11/12 norm minimization approach; the correlation matrix of the quantization noise of the wireline backhaul links is computed using the classical rate-distortion theory. At the second stage, the transmit powers of the wireless backhaul links are found by solving a power minimization problem subject to quality-of-service constraints, based on the principle of conservation of rate by utilizing the rates found in the first stage. Simulation results suggest that the performance of the proposed algorithm approaches the global optimum solution, especially at high signal-to-interference-plus-noise ratio (SINR).

NEW ACCESSIONS OF BRASSICA OLERACEA L. IN VIR PLANT COLLECTION

Directory of Open Access Journals (Sweden)

A. M. Artemieva

2017-01-01

Full Text Available Varieties of Brassica oleracea L. are widespread and favorite crops, where among them the head cabbage and cauliflower are the most economically important. Russia takes third place after India and Chine among countries with largest production areas and gross yield for the crop. In Russia, the area sown to cabbage is about 27 thousand hectares. 728 cultivars and hybrids of eight cabbage crops including 528 hybrids have been added in State Register of Breeding Achievements of Russian Federation in 2017. The collection of Brassica oleracea L. totally contains of 2421 accessions and takes first place at number of collected items among the world’s plant genbanks. The phenotyping, genotyping, passportization, development of core collection and trait collection as well as initial breeding accessions, covering all genetic diversity have been carried out at department of genetic resources of vegetables and melons at VIR. Selection of most promising accessions is performed to find genes and sources for economically valuable traits to develop proper lines and hybrids. There are the enrichment of the collection by means of ordering and gathering in expeditions, the improvement of methods of phenotyping and development of database for all biological accessions studied at the department. In 2007-2016, 255 accessions of Brassica oleracea L. have been included into collection to be used in different national breeding programs.

Biological Data Resources at the EMBL-EBI

Directory of Open Access Journals (Sweden)

Rodrigo Lopez

2008-07-01

Full Text Available The European Bioinformatics Institute (EBI is an Outstation of the European Molecular Biology Laboratory (EMBL. These are Europe’s flagships in bioinforma­tics and basic research in molecular biology. The EBI has been maintaining core data resources in molecular biology for 15 years and is notionally custodian to the largest collection of databases and services in Life Sciences in Europe. EBI provides access in a free and unrestricted fashion to these resources to the international research community. The data resources at the EBI are divided into thematic categories. Each represents a special knowledge domain where one or several databases are maintai­ned. The aims of this note are to introduce the reader to these resources and briefly outline training and education activities which may be of interest to students as well as academic staff in general. The web portal for the EBI can be found at http://www.ebi.ac.uk/ and represents a single entry point for all data resources and activities described below.

DATABASES DEVELOPED IN INDIA FOR BIOLOGICAL SCIENCES

Directory of Open Access Journals (Sweden)

Gitanjali Yadav

2017-09-01

Full Text Available The complexity of biological systems requires use of a variety of experimental methods with ever increasing sophistication to probe various cellular processes at molecular and atomic resolution. The availability of technologies for determining nucleic acid sequences of genes and atomic resolution structures of biomolecules prompted development of major biological databases like GenBank and PDB almost four decades ago. India was one of the few countries to realize early, the utility of such databases for progress in modern biology/biotechnology. Department of Biotechnology (DBT, India established Biotechnology Information System (BTIS network in late eighties. Starting with the genome sequencing revolution at the turn of the century, application of high-throughput sequencing technologies in biology and medicine for analysis of genomes, transcriptomes, epigenomes and microbiomes have generated massive volumes of sequence data. BTIS network has not only provided state of the art computational infrastructure to research institutes and universities for utilizing various biological databases developed abroad in their research, it has also actively promoted research and development (R&D projects in Bioinformatics to develop a variety of biological databases in diverse areas. It is encouraging to note that, a large number of biological databases or data driven software tools developed in India, have been published in leading peer reviewed international journals like Nucleic Acids Research, Bioinformatics, Database, BMC, PLoS and NPG series publication. Some of these databases are not only unique, they are also highly accessed as reflected in number of citations. Apart from databases developed by individual research groups, BTIS has initiated consortium projects to develop major India centric databases on Mycobacterium tuberculosis, Rice and Mango, which can potentially have practical applications in health and agriculture. Many of these biological

Method to detect biological particles

International Nuclear Information System (INIS)

Giaever, I.

1976-01-01

A medical-diagnostic method to detect immunological as well as other specific reactions is described. According to the invention, first reactive particles (e.g. antibodies) are adsorbed on the surface of a solid, non-reactive substrate. The coated substrate is subjected to a solution which one assumes to contain the second biological particles (e.g. antigens) which are specific to the first and form complexes with these. A preferential radioactive labelling (e.g. with iodine 125) of the second biological particle is then directly or indirectly carried out. Clearage follows labelling in order to separate the second biological particles from the first ones. A specific splitting agent can selectively break the bond of both types of particle. The splitting agent solution is finally separated off and its content is investigated for the presence of labelling. (VJ) [de

Plant pathology: a story about biology.

Science.gov (United States)

Gordon, Thomas R; Leveau, Johan H J

2010-01-01

Disease is a universal feature of life for multicellular organisms, and the study of disease has contributed to the establishment of key concepts in the biological sciences. This implies strong connections between plant pathology and basic biology, something that could perhaps be made more apparent to undergraduate students interested in the life sciences. To that end, we present an instructional narrative that begins with a simple question: Why are there diseases? Responses and follow-up questions can facilitate exploration of such topics as the evolution of parasitism, plant adaptations to parasitism, impacts of parasites on native plant communities, and ways in which human intervention can foster the emergence of aggressive plant pathogens. This approach may help to attract students who would not have found their way to plant pathology through traditional pathways. Packaging the narrative as a game may render it more interesting and accessible, particularly to a younger audience.

Open access monographs: a humanities research perspective

Directory of Open Access Journals (Sweden)

Dr Jim Cheshire

2014-04-01

Full Text Available This article discusses the thoughts of a humanities researcher in relation to open access (OA publishing. Digital media have dramatically improved access to historic texts but library e-books are frustrating due to software and loan arrangements. Authors of illustrated books risk losing control of book design, although new media offer opportunities to improve image quality and access. Alfred Tennyson's career shows that authors have been sensitive about the physical form of their work since the Victorian period and ignoring the material significance of the book could make us overlook the fundamental changes that the e-book represents. Monographs retain value as a way of evaluating substantive research projects and those published through the OA process will have great advantages over the commercial e-book. ‘Green’ OA publishing is impractical for humanities scholars and funded ‘gold’ OA publishing is likely to involve a labour-intensive application process.

Size-dependent variation in plant form.

Science.gov (United States)

Niklas, Karl J; Cobb, Edward D

2017-09-11

The study of organic form has a long and distinguished history going at least as far back as Aristotle's Historia Anima¯lium, wherein he identified five basic biological processes that define the forms of animals (metabolism, temperature regulation, information processing, embryo development, and inheritance). Unfortunately, all of Aristotle's writings about plant forms are lost. We know of them only indirectly from his student Theophrastus's companion books, collectively called Historia Plantarum, wherein plant forms are categorized into annual herbs, herbaceous perennials, shrubs, and trees. The study of plant forms did not truly begin until the romantic poet and naturalist Goethe proposed the concept of a hypothetical 'Plant Archetype', declared "Alles ist Blatt", and first coined the word morphologie, which inspired the French anatomist Cuvier (who established the field of comparative morphology), the English naturalist Darwin (who saw his theory of evolution reinforced by it), and the Scottish mathematician D'Arcy Thompson (who attempted to quantify it). Copyright © 2017 Elsevier Ltd. All rights reserved.

Ordinary differential equations with applications in molecular biology.

Science.gov (United States)

Ilea, M; Turnea, M; Rotariu, M

2012-01-01

Differential equations are of basic importance in molecular biology mathematics because many biological laws and relations appear mathematically in the form of a differential equation. In this article we presented some applications of mathematical models represented by ordinary differential equations in molecular biology. The vast majority of quantitative models in cell and molecular biology are formulated in terms of ordinary differential equations for the time evolution of concentrations of molecular species. Assuming that the diffusion in the cell is high enough to make the spatial distribution of molecules homogenous, these equations describe systems with many participating molecules of each kind. We propose an original mathematical model with small parameter for biological phospholipid pathway. All the equations system includes small parameter epsilon. The smallness of epsilon is relative to the size of the solution domain. If we reduce the size of the solution region the same small epsilon will result in a different condition number. It is clear that the solution for a smaller region is less difficult. We introduce the mathematical technique known as boundary function method for singular perturbation system. In this system, the small parameter is an asymptotic variable, different from the independent variable. In general, the solutions of such equations exhibit multiscale phenomena. Singularly perturbed problems form a special class of problems containing a small parameter which may tend to zero. Many molecular biology processes can be quantitatively characterized by ordinary differential equations. Mathematical cell biology is a very active and fast growing interdisciplinary area in which mathematical concepts, techniques, and models are applied to a variety of problems in developmental medicine and bioengineering. Among the different modeling approaches, ordinary differential equations (ODE) are particularly important and have led to significant advances

The AAS Working Group on Accessibility and Disability (WGAD)

Science.gov (United States)

Monkiewicz, Jacqueline A.; Shanahan, J.; Murphy, Nicholas Arnold; Gilbert, Lauren

2016-06-01

The Working Group on Accessibility and Disability (WGAD) was formed by the Council of the American Astronomical Society in late 2015 in order to monitor and addresses issues of inclusivity in the astronomical community related to disability. WGAD promotes of the principles of universal accessibility and disability justice in both professional astronomy and astronomy education. The short term goals of WGAD for the next two years include producing a set of guidelines for a wide range of activities including supporting improved access to journals, data, and conferences. We will provide information and training regarding universal design as a guiding principle. The longer term goals of WGAD include integrating universal design as primary design strategy across the board in our many aspects of daily work life.

Self-Access Learning in Medical English (ME

Directory of Open Access Journals (Sweden)

Pop Anişoara

2017-12-01

Full Text Available Individual learning is a pre-requisite of formal ME credit allocation in higher education (HE, albeit this may be hard to document and quantify. Edmodo-enhanced self-access learning can be customized to accommodate different learning styles, form basic learning skills and field-specific subskills, extend and expand the students’ medical language use, while also meeting the desiderata of independent curriculum-stipulated learning that can thus be exploited and demonstrated. The paper will reflect on the design of ME multimedia assignments as well as the quantitative and qualitative results, motivation and attitude of a group of medical students working on Edmodo self-access ME learning as part of a class research project for two years.

An introduction to biological NMR spectroscopy

International Nuclear Information System (INIS)

Marion, Dominique

2013-01-01

NMR spectroscopy is a powerful tool for biologists interested in the structure, dynamics, and interactions of biological macromolecules. This review aims at presenting in an accessible manner the requirements and limitations of this technique. As an introduction, the history of NMR will highlight how the method evolved from physics to chemistry and finally to biology over several decades. We then introduce the NMR spectral parameters used in structural biology, namely the chemical shift, the J-coupling, nuclear Overhauser effects, and residual dipolar couplings. Resonance assignment, the required step for any further NMR study, bears a resemblance to jigsaw puzzle strategy. The NMR spectral parameters are then converted into angle and distances and used as input using restrained molecular dynamics to compute a bundle of structures. When interpreting a NMR-derived structure, the biologist has to judge its quality on the basis of the statistics provided. When the 3D structure is a priori known by other means, the molecular interaction with a partner can be mapped by NMR: information on the binding interface as well as on kinetic and thermodynamic constants can be gathered. NMR is suitable to monitor, over a wide range of frequencies, protein fluctuations that play a crucial role in their biological function. In the last section of this review, intrinsically disordered proteins, which have escaped the attention of classical structural biology, are discussed in the perspective of NMR, one of the rare available techniques able to describe structural ensembles. This Tutorial is part of the International Proteomics Tutorial Programme (IPTP 16 MCP). (authors)

Developmental biology in marine invertebrate symbioses.

Science.gov (United States)

McFall-Ngai, M J; Ruby, E G

2000-12-01

Associations between marine invertebrates and their cooperative bacterial symbionts offer access to an understanding of the roots of host-microbe interaction; for example, several symbioses like the squid-vibrio light organ association serve as models for investigating how each partner affects the developmental biology of the other. Previous results have identified a program of specific developmental events that unfolds as the association is initiated. In the past year, published studies have focused primarily on describing the mechanisms underlying the signaling processes that occur between the juvenile squid and the luminous bacteria that colonize it.

Complexity, Analysis and Control of Singular Biological Systems

CERN Document Server

Zhang, Qingling; Zhang, Xue

2012-01-01

Complexity, Analysis and Control of Singular Biological Systems follows the control of real-world biological systems at both ecological and phyisological levels concentrating on the application of now-extensively-investigated singular system theory. Much effort has recently been dedicated to the modelling and analysis of developing bioeconomic systems and the text establishes singular examples of these, showing how proper control can help to maintain sustainable economic development of biological resources. The book begins from the essentials of singular systems theory and bifurcations before tackling  the use of various forms of control in singular biological systems using examples including predator-prey relationships and viral vaccination and quarantine control. Researchers and graduate students studying the control of complex biological systems are shown how a variety of methods can be brought to bear and practitioners working with the economics of biological systems and their control will also find the ...

Access Request Trustworthiness in Weighted Access Control Framework

Institute of Scientific and Technical Information of China (English)

WANG Lun-wei; LIAO Xiang-ke; WANG Huai-min

2005-01-01

Weighted factor is given to access control policies to express the importance of policy and its effect on access control decision. According to this weighted access control framework, a trustworthiness model for access request is also given. In this model, we give the measure of trustworthiness factor to access request, by using some idea of uncertainty reasoning of expert system, present and prove the parallel propagation formula of request trustworthiness factor among multiple policies, and get the final trustworthiness factor to decide whether authorizing. In this model, authorization decision is given according to the calculation of request trustworthiness factor, which is more understandable, more suitable for real requirement and more powerful for security enhancement than traditional methods. Meanwhile the finer access control granularity is another advantage.

Patient Access, Unmet Medical Need, Expected Benefits, and Concerns Related to the Utilisation of Biosimilars in Eastern European Countries: A Survey of Experts

Directory of Open Access Journals (Sweden)

Andras Inotai

2018-01-01

Full Text Available This policy research aims to map patient access barriers to biologic treatments, to explore how increased uptake of biosimilars may lower these hurdles and to identify factors limiting the increased utilisation of biosimilars. A policy survey was developed to review these questions in 10 Central and Eastern European (CEE and Commonwealth of Independent States (CIS countries. Two experts (one public and one private sector representative from each country completed the survey. Questions were related to patient access, purchasing, clinical practice, and real-world data collection on both original biologics and biosimilars. Restrictions on the number of patients that can be treated and related waiting lists were reported as key patient access barriers. According to respondents, for both clinicians and payers the primary benefit of switching patients to biosimilars would be to treat more patients. However, concerns with therapeutic equivalence and fear of immunogenicity may reduce utilisation of biosimilars. Similar limitations in patient access to both original biologics and biosimilars raise concerns about the appropriateness and success of current biosimilar policies in CEE and CIS countries. The conceptual framework for additional real-world data collection exists in all countries which may provide a basis for future risk-management activities including vigorous pharmacovigilance data collection.

Mobile access to the Internet: from personal bubble to satellites

Science.gov (United States)

Gerla, Mario

2001-10-01

Mobile, wireless access and networking has emerged in the last few years as one of the most important directions of Internet growth. The popularity of mobile, and, more generally, nomadic Internet access is due to many enabling factors including: (a) emergence of meaningful applications tailored to the individual on the move; (b) small form factor and long battery life; (c) efficient middleware designed to support mobility; and, (d) efficient wireless networking technologies. A key player in the mobile Internet access is the nomad, i.e. the individual equipped with various computing and I/O gadgets (cellular phone, earphones, GPS navigator, palm pilot, beeper, portable scanner, digital camera, etc.). These devices form his/her Personal Area Network or PAN or personal bubble. The connectivity within the bubble is wireless (using for example a low cost, low power wireless LAN such as Bluetooth). The bubble can expand and contract dynamically depending on needs. It may temporarily include sensors and actuators as the nomad walks into a new environment. In this paper, we identify the need for the interconnection of the PAN with other wireless networks in order to achieve costeffective mobile access to the Internet. We will overview some key networking technologies required to support the PAN (eg, Bluetooth). We will also discuss an emerging technology, Ad Hoc wireless networking which is the natural complement of the PAN in sparsely populated areas. Finally, we will identify the need for intelligent routers to assist the mobile user in the selection of the best Internet access strategy.

Dose estimation by biological methods

International Nuclear Information System (INIS)

Guerrero C, C.; David C, L.; Serment G, J.; Brena V, M.

1997-01-01

The human being is exposed to strong artificial radiation sources, mainly of two forms: the first is referred to the occupationally exposed personnel (POE) and the second, to the persons that require radiological treatment. A third form less common is by accidents. In all these conditions it is very important to estimate the absorbed dose. The classical biological dosimetry is based in the dicentric analysis. The present work is part of researches to the process to validate the In situ Fluorescent hybridation (FISH) technique which allows to analyse the aberrations on the chromosomes. (Author)

Comprehensive Dataset and Reports of the Mamala Bay Study during 1993-1995 on Oahu, Hawaii (NODC Accession 0000030)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This accession contains comprehensive dataset and reports collected in support of the Mamala Bay Study during 1993-1995. Physical, chemical, biological, and...

The molecular biology of prostate cancer: current understanding and clinical implications.

Science.gov (United States)

Gandhi, Jason; Afridi, Adil; Vatsia, Sohrab; Joshi, Gargi; Joshi, Gunjan; Kaplan, Steven A; Smith, Noel L; Khan, Sardar Ali

2018-04-01

With continuous progress over the past few decades in understanding diagnosis, treatment, and genetics, much has been learned about the prostate cancer-diagnosed genome. A comprehensive MEDLINE® and Google scholar literature search was conducted using keyword variations relating to the genetics of prostate cancer such as chromosomal alterations, androgen receptor, castration-resistant, inheritance, polymorphisms, oncogenes, metastasis, biomarkers, and immunotherapy. Traditionally, androgen receptors (AR) have been the focus of research. Recently, identification of recurrent chromosomal alterations that lead to either multiplication of regions (gain-of-function) or deletion of regions (loss-of-function) has opened the door to greater genetic accessibility. These chromosomal aberrations lead to variation in copy number and gene expression. Some of these chromosomal alterations are inherited, while others undergo somatic mutations during disease progression. Inherited gene mutations that make one susceptible to prostate cancer have been identified with familial-linked studies. Somatic genes that progress tumorigenesis have also been identified. Research on the molecular biology of prostate cancer has characterized these genes into tumor suppressor genes or oncogenes. Additionally, genome-wide assay studies have identified many high-risk single-nucleotide polymorphisms recurrent throughout the prostate cancer-diagnosed genome. Castration-resistant prostate cancer is the most aggressive form of prostate cancer, and its research has elucidated many types of mutations associated with AR itself, including enhanced expression and amplification, point mutations, and alternative splicing. Understanding the molecular biology of prostate cancer has permitted more accurate identification using advanced biomarkers and therapy for aggressive forms using immunotherapy. An age-related disease, prostate cancer commands profound attention. With increasing life expectancy and the

Slab edge insulating form system and methods

Science.gov (United States)

Lee, Brain E [Corral de Tierra, CA; Barsun, Stephan K [Davis, CA; Bourne, Richard C [Davis, CA; Hoeschele, Marc A [Davis, CA; Springer, David A [Winters, CA

2009-10-06

A method of forming an insulated concrete foundation is provided comprising constructing a foundation frame, the frame comprising an insulating form having an opening, inserting a pocket former into the opening; placing concrete inside the foundation frame; and removing the pocket former after the placed concrete has set, wherein the concrete forms a pocket in the placed concrete that is accessible through the opening. The method may further comprise sealing the opening by placing a sealing plug or sealing material in the opening. A system for forming an insulated concrete foundation is provided comprising a plurality of interconnected insulating forms, the insulating forms having a rigid outer member protecting and encasing an insulating material, and at least one gripping lip extending outwardly from the outer member to provide a pest barrier. At least one insulating form has an opening into which a removable pocket former is inserted. The system may also provide a tension anchor positioned in the pocket former and a tendon connected to the tension anchor.

GeneLab: NASA's Open Access, Collaborative Platform for Systems Biology and Space Medicine

Science.gov (United States)

Berrios, Daniel C.; Thompson, Terri G.; Fogle, Homer W.; Rask, Jon C.; Coughlan, Joseph C.

2015-01-01

NASA is investing in GeneLab1 (http:genelab.nasa.gov), a multi-year effort to maximize utilization of the limited resources to conduct biological and medical research in space, principally aboard the International Space Station (ISS). High-throughput genomic, transcriptomic, proteomic or other omics analyses from experiments conducted on the ISS will be stored in the GeneLab Data Systems (GLDS), an open-science information system that will also include a biocomputation platform with collaborative science capabilities, to enable the discovery and validation of molecular networks.

75 FR 6790 - Interagency Guidance on Response Programs for Unauthorized Access to Customer Information and...

Science.gov (United States)

2010-02-10

... for Unauthorized Access to Customer Information and Customer Notice AGENCY: Office of Thrift... for Unauthorized Access to Customer Information and Customer Notice. OMB Number: 1550-0110. Form...) Ensure the security and confidentiality of customer records and information; (2) protect against any...

Timeability in Extensive-Form Games

DEFF Research Database (Denmark)

Jakobsen, Sune K.; Sørensen, Troels Bjerre; Conitzer, Vincent

2016-01-01

Extensive-form games constitute the standard representation scheme for games with a temporal component. But do all extensive-form games correspond to protocols that we can implement in the real world? We often rule out games with imperfect recall, which prescribe that an agent forget something...... that she knew before. In this paper, we show that even some games with perfect recall can be problematic to implement. Specifically, we show that if the agents have a sense of time passing (say, access to a clock), then some extensive-form games can no longer be implemented; no matter how we attempt...... to time the game, some information will leak to the agents that they are not supposed to have. We say such a game is not exactly timeable. We provide easy-to-check necessary and sufficient conditions for a game to be exactly timeable. Most of the technical depth of the paper concerns how to approximately...

Induction interview form in EDH

CERN Multimedia

Information technology Department, AIS (Administrative Information Services) Group,

2007-01-01

As part of the efforts to rationalise administrative procedures, the IT and HR Departments have developed a new EDH form for induction interviews, which can be accessed using the link below. In accordance with Administrative Circular No. 2 ('Recruitment, Appointment and possible developments regarding the contractual position of Staff Members', Rev. 3), the work and training objectives to be achieved during the probation period shall be specified in writing to all new staff members during an induction interview. The interview shall take place between the new staff member and his supervisor within six weeks of him taking up his duties at the latest. https://edh.cern.ch/Document/MAPS/Induction (or from the EDH desktop, by clicking on 'Other Tasks' and going to the 'HR & Training' heading) Please note that this form is to be used exclusively for new staff members. A separate EDH form will be developed for fellows. Information technology Department, AIS (Administrative Information Services) Group Human...

Induction interview form in EDH

CERN Document Server

Information technology Department, AIS (Administrative Information Services) Group

2007-01-01

As part of the efforts to rationalise administrative procedures, the IT and HR Departments have developed a new EDH form for induction interviews, which can be accessed using the link below. In accordance with Administrative Circular No. 2 ('Recruitment, Appointment and possible developments regarding the contractual position of Staff Members', Rev. 3), the work and training objectives to be achieved during the probation period shall be specified in writing to all new staff members during an induction interview. The interview shall take place between the new staff member and his supervisor within six weeks of his taking up his duties at the latest. https://edh.cern.ch/Document/MAPS/Induction1) (or from the EDH desktop, by clicking on 'Other Tasks' and going to the 'HR & Training' heading) Please note that this form is to be used exclusively for new staff members. A separate EDH form will be developed for fellows.Information technology Department, AIS (Administrative Information Services) Group Human Re...

Perceptual consciousness overflows cognitive access.

Science.gov (United States)

Block, Ned

2011-12-01

One of the most important issues concerning the foundations of conscious perception centers on the question of whether perceptual consciousness is rich or sparse. The overflow argument uses a form of 'iconic memory' to argue that perceptual consciousness is richer (i.e., has a higher capacity) than cognitive access: when observing a complex scene we are conscious of more than we can report or think about. Recently, the overflow argument has been challenged both empirically and conceptually. This paper reviews the controversy, arguing that proponents of sparse perception are committed to the postulation of (i) a peculiar kind of generic conscious representation that has no independent rationale and (ii) an unmotivated form of unconscious representation that in some cases conflicts with what we know about unconscious representation. Copyright © 2011 Elsevier Ltd. All rights reserved.

The Effects of 3D Computer Simulation on Biology Students' Achievement and Memory Retention

Science.gov (United States)

Elangovan, Tavasuria; Ismail, Zurida

2014-01-01

A quasi experimental study was conducted for six weeks to determine the effectiveness of two different 3D computer simulation based teaching methods, that is, realistic simulation and non-realistic simulation on Form Four Biology students' achievement and memory retention in Perak, Malaysia. A sample of 136 Form Four Biology students in Perak,…

Metabolism of Zearalenone and Its Major Modified Forms in Pigs

Directory of Open Access Journals (Sweden)

Sabina B. Binder

2017-02-01

Full Text Available The Fusarium mycotoxin zearalenone (ZEN can be conjugated with polar molecules, like sugars or sulfates, by plants and fungi. To date, the fate of these modified forms of ZEN has not yet been elucidated in animals. In order to investigate whether ZEN conjugates contribute to the total ZEN exposure of an individual, ZEN (10 µg/kg b.w. and equimolar amounts of two of its plant metabolites (ZEN-14-O-β-glucoside, ZEN-16-O-β-glucoside and of one fungal metabolite (ZEN-14-sulfate were orally administered to four pigs as a single bolus using a repeated measures design. The concentrations of ZEN, its modified forms and its mammalian metabolites ZEN-14-glucuronide, α-zearalenol (α-ZEL and α-ZEL-14-glucuronide in excreta were analyzed by high-performance liquid chromatography tandem mass spectrometry (HPLC-MS/MS based methods. The biological recovery of ZEN in urine was 26% ± 10%, the total biological recovery in excreta was 40% ± 8%. Intact ZEN-14-sulfate, ZEN-14-O-β-glucoside and ZEN-16-O-β-glucoside were neither detected in urine nor in feces. After ZEN-14-sulfate application, 19% ± 5% of the administered dose was recovered in urine. In feces, no ZEN metabolites were detected. The total biological recoveries of ZEN-14-O-β-glucoside and ZEN-16-O-β-glucoside in the form of their metabolites in urine were 19% ± 11% and 13% ± 7%, respectively. The total biological recoveries in urine and feces amounted to 48% ± 7% and 34 ± 3%. An explanation for the low biological recoveries could be extensive metabolization by intestinal bacteria to yet unknown metabolites. In summary, ZEN-14-sulfate, ZEN-14-O-β-glucoside, and ZEN-16-O-β-glucoside were completely hydrolyzed in the gastrointestinal tract of swine, thus contributing to the overall toxicity of ZEN.

Biologic Constraints on Modelling Virus Assembly

Directory of Open Access Journals (Sweden)

Robert L. Garcea

2008-01-01

Full Text Available The mathematic modelling of icosahedral virus assembly has drawn increasing interest because of the symmetric geometry of the outer shell structures. Many models involve equilibrium expressions of subunit binding, with reversible subunit additions forming various intermediate structures. The underlying assumption is that a final lowest energy state drives the equilibrium toward assembly. In their simplest forms, these models have explained why high subunit protein concentrations and strong subunit association constants can result in kinetic traps forming off pathway partial and aberrant structures. However, the cell biology of virus assembly is exceedingly complex. The biochemistry and biology of polyoma and papillomavirus assembly described here illustrates many of these specific issues. Variables include the use of cellular ‘chaperone’ proteins as mediators of assembly fidelity, the coupling of assembly to encapsidation of a specific nucleic acid genome, the use of cellular structures as ‘workbenches’ upon which assembly occurs, and the underlying problem of making a capsid structure that is metastable and capable of rapid disassembly upon infection. Although formidable to model, incorporating these considerations could advance the relevance of mathematical models of virus assembly to the real world.

DNA fingerprinting of spore-forming bacterial isolates, using Bacillus ...

African Journals Online (AJOL)

Bc-repetitive extragenic palindromic polymerase chain reaction (Bc-Rep PCR) analysis was conducted on seven Bacillus thuringiensis isolates accessed from the Deutsche Sammlung von Mikroorganismen und Zellkulturen (DSMZ) culture collection and on five local isolates of entomopathogenic spore-forming bacteria.

Transpiring purging access probe for particulate laden or hazardous environments

Science.gov (United States)

VanOsdol, John G

2013-12-03

An access probe for remote-sensing access through a viewing port, viewing volume, and access port into a vessel. The physical boundary around the viewing volume is partially formed by a porous sleeve lying between the viewing volume and a fluid conduit. In a first mode of operation, a fluid supplied to the fluid conduit encounters the porous sleeve and flows through the porous material to maintain the viewing volume free of ash or other matter. When additional fluid force is needed to clear the viewing volume, the pressure of the fluid flow is increased sufficiently to slidably translate the porous sleeve, greatly increasing the flow into the viewing volume. The porous sleeve is returned to position by an actuating spring. The access probe thereby provides for alternate modes of operation based on the pressure of an actuating fluid.

Direct access: how is it working?

Science.gov (United States)

Turner, S; Ross, M

2017-02-10

Aim The aim of this study was to identify and survey dental hygienists and therapists working in direct access practices in the UK, obtain their views on its benefits and disadvantages, establish which treatments they provided, and what barriers they had encountered.Method The study used a purposive sample of GDC-registered hygienists and therapists working in practices offering direct access, identified through a 'Google' search. An online survey was set up through the University of Edinburgh, and non-responses followed up by post.Results The initial search identified 243 individuals working in direct access practices. Where a practice listed more than one hygienist/therapist, one was randomly selected. This gave a total of 179 potential respondents. Eighty-six responses were received, representing a response rate of 48%. A large majority of respondents (58, 73%) were favourable in their view of the GDC decision to allow direct access, and most thought advantages outnumbered disadvantages for patients, hygienists, therapists and dentists. There were no statistically significant differences in views between hygienists and therapists. Although direct access patients formed a small minority of their caseload for most respondents, it is estimated that on average respondents saw approximately 13 per month. Treatment was mainly restricted to periodontal work, irrespective of whether the respondent was singly or dually qualified. One third of respondents reported encountering barriers to successful practice, including issues relating to teamwork and dentists' unfavourable attitudes. However, almost two thirds (64%) felt that direct access had enhanced their job satisfaction, and 45% felt their clinical skills had increased.Discussion Comments were mainly positive, but sometimes raised worrying issues, for example in respect to training, lack of dental nurse support and the limited availability of periodontal treatment under NHS regulations.

Insight into Biological Apatite: Physiochemical Properties and Preparation Approaches

Directory of Open Access Journals (Sweden)

Quan Liu

2013-01-01

Full Text Available Biological apatite is an inorganic calcium phosphate salt in apatite form and nano size with a biological derivation. It is also the main inorganic component of biological hard tissues such as bones and teeth of vertebrates. Consequently, biological apatite has a wide application in dentistry and orthopedics by using as dental fillers and bone substitutes for bone reconstruction and regeneration. Given this, it is of great significance to obtain a comprehensive understanding of its physiochemical and biological properties. However, upon the previous studies, inconsistent and inadequate data of such basic properties as the morphology, crystal size, chemical compositions, and solubility of biological apatite were reported. This may be ascribed to the differences in the source of raw materials that biological apatite are made from, as well as the effect of the preparation approaches. Hence, this paper is to provide some insights rather than a thorough review of the physiochemical properties as well as the advantages and drawbacks of various preparation methods of biological apatite.

Heuristics Miner for E-Commerce Visitor Access Pattern Representation

OpenAIRE

Kartina Diah Kesuma Wardhani; Wawan Yunanto

2017-01-01

E-commerce click stream data can form a certain pattern that describe visitor behavior while surfing the e-commerce website. This pattern can be used to initiate a design to determine alternative access sequence on the website. This research use heuristic miner algorithm to determine the pattern. σ-Algorithm and Genetic Mining are methods used for pattern recognition with frequent sequence item set approach. Heuristic Miner is an evolved form of those methods. σ-Algorithm assume that an activ...

Keratin: Structure, mechanical properties, occurrence in biological organisms, and efforts at bioinspiration

OpenAIRE

Wang, B; Yang, W; McKittrick, J; Meyers, MA

2016-01-01

© 2015 Elsevier Ltd. A ubiquitous biological material, keratin represents a group of insoluble, usually high-sulfur content and filament-forming proteins, constituting the bulk of epidermal appendages such as hair, nails, claws, turtle scutes, horns, whale baleen, beaks, and feathers. These keratinous materials are formed by cells filled with keratin and are considered 'dead tissues'. Nevertheless, they are among the toughest biological materials, serving as a wide variety of interesting func...

PathJam: a new service for integrating biological pathway information

Directory of Open Access Journals (Sweden)

Glez-Peña Daniel

2010-03-01

Full Text Available Biological pathways are crucial to much of the scientific research today including the study of specific biological processes related with human diseases. PathJam is a new comprehensive and freely accessible web-server application integrating scattered human pathway annotation from several public sources. The tool has been designed for both (i being intuitive for wet-lab users providing statistical enrichment analysis of pathway annotations and (ii giving support to the development of new integrative pathway applications. PathJam’s unique features and advantages include interactive graphs linking pathways and genes of interest, downloadable results in fully compatible formats, GSEA compatible output files and a standardized RESTful API.

21 CFR 203.60 - Request and receipt forms, reports, and records.

Science.gov (United States)

2010-04-01

... SERVICES (CONTINUED) DRUGS: GENERAL PRESCRIPTION DRUG MARKETING Request and Receipt Forms, Reports, and...; (2) Preserved in accessible and retrievable fashion; and (3) Available to permit copying for purposes...

Research Collaboration Workshop for Women in Mathematical Biology

CERN Document Server

Miller, Laura

2017-01-01

Inspired by the Research Collaboration Workshop for Women in Mathematical Biology, this volume contains research and review articles that cover topics ranging from models of animal movement to the flow of blood cells in the embryonic heart. Hosted by the National Institute for Mathematics and Biological Synthesis (NIMBioS), the workshop brought together women working in biology and mathematics to form four research groups that encouraged multidisciplinary collaboration and lifetime connections in the STEM field. This volume introduces many of the topics from the workshop, including the aerodynamics of spider ballooning; sleep, circadian rhythms, and pain; blood flow regulation in the kidney; and the effects of antimicrobial therapy on gut microbiota and microbiota and Clostridium difficile. Perfect for students and researchers in mathematics and biology, the papers included in this volume offer an introductory glimpse at recent research in mathematical biology. .

Three molecular forms of atrial natriuretic peptides: quantitative analysis and biological characterization.

Science.gov (United States)

Nagai-Okatani, Chiaki; Kangawa, Kenji; Minamino, Naoto

2017-07-01

Atrial natriuretic peptide (ANP) is primarily produced in the heart tissue and plays a pivotal role in maintaining cardiovascular homeostasis in endocrine and autocrine/paracrine systems and has clinical applications as a biomarker and a therapeutic agent for cardiac diseases. ANP is synthesized by atrial cardiomyocytes as a preprohormone that is processed by a signal peptidase and stored in secretory granules as a prohormone. Subsequent proteolytic processing of ANP by corin during the secretion process results in a bioactive form consisting of 28 amino acid residues. Mechanical stretch of the atrial wall and multiple humoral factors directly stimulates the transcription and secretion of ANP. Secreted ANP elicits natriuretic and diuretic effects via cyclic guanosine monophosphate produced through binding to the guanylyl cyclase-A/natriuretic peptide receptor-A. Circulating ANP is subjected to rapid clearance by a natriuretic peptide receptor-C-mediated mechanism and proteolytic degradation by neutral endopeptidase. In humans, ANP is present as three endogenous molecular forms: bioactive α-ANP, a homodimer of α-ANP designated as β-ANP, and an ANP precursor designated as proANP (also referred to as γ-ANP). The proANP and especially β-ANP, as minor forms in circulation, are notably increased in patients with cardiac diseases, suggesting the utility of monitoring the pathophysiological conditions that result in abnormal proANP processing that cannot be monitored by inactive N-terminal proANP-related fragments. Emerging plate-based sandwich immunoassays for individual quantitation of the three ANP forms enables evaluation of diagnostic implications and net ANP bioactivity. This new tool may provide further understanding in the pathophysiology of cardiac diseases. Copyright © 2017 European Peptide Society and John Wiley & Sons, Ltd. Copyright © 2017 European Peptide Society and John Wiley & Sons, Ltd.

Biological Effects of Radiation

International Nuclear Information System (INIS)

Jatau, B.D.; Garba, N.N.; Yusuf, A.M.; Yamusa, Y. A.; Musa, Y.

2013-01-01

In earlier studies, researchers aimed a single particle at the nucleus of the cell where DNA is located. Eighty percent of the cells shot through the nucleus survived. This contradicts the belief that if radiation slams through the nucleus, the cell will die. But the bad news is that the surviving cells contained mutations. Cells have a great capacity to repair DNA, but they cannot do it perfectly. The damage left behind in these studies from a single particle of alpha radiation doubled the damage that is already there. This proved, beyond a shadow of doubt, those there biological effects occur as a result of exposure to radiation, Radiation is harmful to living tissue because of its ionizing power in matter. This ionization can damage living cells directly, by breaking the chemical bonds of important biological molecules (particularly DNA), or indirectly, by creating chemical radicals from water molecules in the cells, which can then attack the biological molecules chemically. At some extent these molecules are repaired by natural biological processes, however, the effectiveness of this repair depends on the extent of the damage. The interaction of ionizing with the human body, arising either from external sources outside the body or from internal contamination of the body by radioactive materials, leads to the biological effects which may later show up as a clinical symptoms. Basically, this formed the baseline of this research to serve as a yardstick for creating awareness about radiation and its resulting effects.

Facilitating the use of large-scale biological data and tools in the era of translational bioinformatics

DEFF Research Database (Denmark)

Kouskoumvekaki, Irene; Shublaq, Nour; Brunak, Søren

2014-01-01

As both the amount of generated biological data and the processing compute power increase, computational experimentation is no longer the exclusivity of bioinformaticians, but it is moving across all biomedical domains. For bioinformatics to realize its translational potential, domain experts need...... access to user-friendly solutions to navigate, integrate and extract information out of biological databases, as well as to combine tools and data resources in bioinformatics workflows. In this review, we present services that assist biomedical scientists in incorporating bioinformatics tools...... into their research.We review recent applications of Cytoscape, BioGPS and DAVID for data visualization, integration and functional enrichment. Moreover, we illustrate the use of Taverna, Kepler, GenePattern, and Galaxy as open-access workbenches for bioinformatics workflows. Finally, we mention services...

Creating biological nanomaterials using synthetic biology

International Nuclear Information System (INIS)

Rice, MaryJoe K; Ruder, Warren C

2014-01-01

Synthetic biology is a new discipline that combines science and engineering approaches to precisely control biological networks. These signaling networks are especially important in fields such as biomedicine and biochemical engineering. Additionally, biological networks can also be critical to the production of naturally occurring biological nanomaterials, and as a result, synthetic biology holds tremendous potential in creating new materials. This review introduces the field of synthetic biology, discusses how biological systems naturally produce materials, and then presents examples and strategies for incorporating synthetic biology approaches in the development of new materials. In particular, strategies for using synthetic biology to produce both organic and inorganic nanomaterials are discussed. Ultimately, synthetic biology holds the potential to dramatically impact biological materials science with significant potential applications in medical systems. (review)

Creating biological nanomaterials using synthetic biology.

Science.gov (United States)

Rice, MaryJoe K; Ruder, Warren C

2014-02-01

Synthetic biology is a new discipline that combines science and engineering approaches to precisely control biological networks. These signaling networks are especially important in fields such as biomedicine and biochemical engineering. Additionally, biological networks can also be critical to the production of naturally occurring biological nanomaterials, and as a result, synthetic biology holds tremendous potential in creating new materials. This review introduces the field of synthetic biology, discusses how biological systems naturally produce materials, and then presents examples and strategies for incorporating synthetic biology approaches in the development of new materials. In particular, strategies for using synthetic biology to produce both organic and inorganic nanomaterials are discussed. Ultimately, synthetic biology holds the potential to dramatically impact biological materials science with significant potential applications in medical systems.

On nonepistemic values in conservation biology.

Science.gov (United States)

Baumgaertner, Bert; Holthuijzen, Wieteke

2017-02-01

Conservation biology is a uniquely interdisciplinary science with strong roots in ecology, but it also embraces a value-laden and mission-oriented framework. This combination of science and values causes conservation biology to be at the center of critique regarding the discipline's scientific credibility-especially the division between the realms of theory and practice. We identify this dichotomy between seemingly objective (fact-based) and subjective (value-laden) practices as the measure-value dichotomy, whereby measure refers to methods and analyses used in conservation biology (i.e., measuring biodiversity) and value refers to nonepistemic values. We reviewed and evaluated several landmark articles central to the foundation of conservation biology and concepts of biodiversity with respect to their attempts to separate measures and values. We argue that the measure-value dichotomy is false and that conservation biology can make progress in ways unavailable to other disciplines because its practitioners are tasked with engaging in both the realm of theory and the realm of practice. The entanglement of measures and values is by no means a weakness of conservation biology. Because central concepts such as biodiversity contain both factual and evaluative aspects, conservation biologists can make theoretical progress by examining, reviewing, and forming the values that are an integral part of those concepts. We suggest that values should be included and analyzed with respect to the methods, results, and conclusions of scientific work in conservation biology. © 2016 Society for Conservation Biology.

Climate change and alpine stream biology

DEFF Research Database (Denmark)

Hotaling, Scott; Finn, Debra S.; Joseph Giersch, J.

2017-01-01

micro- to macroscopic organisms and genes to communities. Herein, we describe the current state of alpine stream biology from an organism-focused perspective. We begin by reviewing seven standard and emerging approaches that combine to form the current state of the discipline. We follow with a call...

Human IgE is efficiently produced in glycosylated and biologically active form in lepidopteran cells

DEFF Research Database (Denmark)

Bantleon, Frank; Wolf, Sara; Seismann, Henning

2016-01-01

the recombinant production of the highly complex IgE isotype in insect cells. Recombinant IgE (rIgE) was efficiently assembled and secreted into the supernatant in yields of >30 mg/L. Purification from serum free medium using different downstream processing methods provided large amounts of rIgE. This exhibited...... a highly specific interaction with its antigen, therapeutic anti-IgE and its high affinity receptor, the FcεRI. Lectins and glyco-proteomic analyses proved the presence of prototypic insect type N-glycans on the epsilon heavy chain. Mediator release assays demonstrated a biological activity of the r......IgE comparable to IgE derived from mammalian cells. In summary the expression in insect cells provides rIgE with variant glycosylation pattern, but retained characteristics and biological activity. Therefore our data contribute to the understanding of functional and structural aspects and potential use of the Ig...

Comparison of Radial Access, Guided Femoral Access, and Non-Guided Femoral Access Among Women Undergoing Percutaneous Coronary Intervention.

Science.gov (United States)

Koshy, Linda M; Aberle, Laura H; Krucoff, Mitchell W; Hess, Connie N; Mazzaferri, Ernest; Jolly, Sanjit S; Jacobs, Alice; Gibson, C Michael; Mehran, Roxana; Gilchrist, Ian C; Rao, Sunil V

2018-01-01

This study was conducted to determine the association between radial access, guided femoral access, and non-guided femoral access on postprocedural bleeding and vascular complications after percutaneous coronary intervention (PCI). Bleeding events and major vascular complications after PCI are associated with increased morbidity, mortality, and cost. While the radial approach has been shown to be superior to the femoral approach in reducing bleeding and vascular complications, whether the use of micropuncture, fluoroscopy, or ultrasound mitigates these differences is unknown. We conducted a post hoc analysis of women in the SAFE-PCI for Women trial who underwent PCI and had the access method identified (n = 643). The primary endpoint of postprocedure bleeding or vascular complications occurring within 72 hours or at discharge was adjudicated by an independent clinical events committee and was compared based on three categories of access technique: radial, guided femoral (fluoroscopy, micropuncture, ultrasound), or non-guided femoral (none of the aforementioned). Differences between the groups were determined using multivariate logistic regression using radial access as the reference. Of the PCI population, 330 underwent radial access, 228 underwent guided femoral access, and 85 underwent non-guided femoral access. There was a statistically significant lower incidence of the primary endpoint with radial access vs non-guided femoral access; however, there was no significant difference between radial approach and femoral access guided by fluoroscopy, micropuncture, or ultrasound. This post hoc analysis demonstrates that while radial access is safer than non-guided femoral access, guided femoral access appears to be associated with similar bleeding events or vascular complications as radial access.

ASAView: Database and tool for solvent accessibility representation in proteins

Directory of Open Access Journals (Sweden)

Fawareh Hamed

2004-05-01

Full Text Available Abstract Background Accessible surface area (ASA or solvent accessibility of amino acids in a protein has important implications. Knowledge of surface residues helps in locating potential candidates of active sites. Therefore, a method to quickly see the surface residues in a two dimensional model would help to immediately understand the population of amino acid residues on the surface and in the inner core of the proteins. Results ASAView is an algorithm, an application and a database of schematic representations of solvent accessibility of amino acid residues within proteins. A characteristic two-dimensional spiral plot of solvent accessibility provides a convenient graphical view of residues in terms of their exposed surface areas. In addition, sequential plots in the form of bar charts are also provided. Online plots of the proteins included in the entire Protein Data Bank (PDB, are provided for the entire protein as well as their chains separately. Conclusions These graphical plots of solvent accessibility are likely to provide a quick view of the overall topological distribution of residues in proteins. Chain-wise computation of solvent accessibility is also provided.

76 FR 2917 - Agency Information Collection Activities: Canadian Border Boat Landing Permit (CBP Form I-68)

Science.gov (United States)

2011-01-18

... 235.1(e) and Section 235 of Immigration and Nationality Act. CBP Form I-68 is accessible at http://forms.cbp.gov/pdf/CBP_Form_I68.pdf Current Actions: This submission is being made to extend the...

Identifying diffusion patterns of research articles on Twitter: A case study of online engagement with open access articles.

Science.gov (United States)

Alperin, Juan Pablo; Gomez, Charles J; Haustein, Stefanie

2018-03-01

The growing presence of research shared on social media, coupled with the increase in freely available research, invites us to ask whether scientific articles shared on platforms like Twitter diffuse beyond the academic community. We explore a new method for answering this question by identifying 11 articles from two open access biology journals that were shared on Twitter at least 50 times and by analyzing the follower network of users who tweeted each article. We find that diffusion patterns of scientific articles can take very different forms, even when the number of times they are tweeted is similar. Our small case study suggests that most articles are shared within single-connected communities with limited diffusion to the public. The proposed approach and indicators can serve those interested in the public understanding of science, science communication, or research evaluation to identify when research diffuses beyond insular communities.

Access Based Cost Estimation for Beddown Analysis

Science.gov (United States)

2006-03-23

logic. This research expands upon the existing research by using Visual Basic for Applications ( VBA ) to further customize and streamline the...methods with the use of VBA . Calculations are completed in either underlying Form VBA code or through global modules accessible throughout the...query and SQL referencing. Attempts were made where possible to align data structures with possible external sources to minimize import errors and

[THE FAILURE MODES AND EFFECTS ANALYSIS FACILITATES A SAFE, TIME AND MONEY SAVING OPEN ACCESS COLONOSCOPY SERVICE].

Science.gov (United States)

Gingold-Belfer, Rachel; Niv, Yaron; Horev, Nehama; Gross, Shuli; Sahar, Nadav; Dickman, Ram

2017-04-01

Failure modes and effects analysis (FMEA) is used for the identification of potential risks in health care processes. We used a specific FMEA - based form for direct referral for colonoscopy and assessed it for procedurerelated perforations. Ten experts in endoscopy evaluated and computed the entire referral process, modes of preparation for the endoscopic procedure, the endoscopic procedure itself and the discharge process. We used FMEA assessing for likelihood of occurrence, detection and severity and calculated the risk profile number (RPN) for each of the above points. According to the highest RPN results we designed a specific open access referral form and then compared the occurrence of colonic perforations (between 2010 and 2013) in patients who were referred through the open access arm (Group 1) to those who had a prior clinical consultation (non-open access, Group 2). Our experts in endoscopy (5 physicians and 5 nurses) identified 3 categories of failure modes that, on average, reached the highest RPNs. We identified 9,558 colonoscopies in group 1, and 12,567 in group 2. Perforations were identified in three patients from the open access group (1:3186, 0.03%) and in 10 from group 2 (1:1256, 0.07%) (p = 0.024). Direct referral for colonoscopy saved 9,558 pre-procedure consultations and the sum of $850,000. The FMEA tool-based specific referral form facilitates a safe, time and money saving open access colonoscopy service. Our form may be adopted by other gastroenterological clinics in Israel.

Synthesis and biological evaluation of isomeric methoxy substitutions on anti-cancer indolyl-pyridinyl-propenones: Effects on potency and mode of activity.

Science.gov (United States)

Trabbic, Christopher J; George, Sage M; Alexander, Evan M; Du, Shengnan; Offenbacher, Jennifer M; Crissman, Emily J; Overmeyer, Jean H; Maltese, William A; Erhardt, Paul W

2016-10-21

Certain indolyl-pyridinyl-propenone analogues kill glioblastoma cells that have become resistant to conventional therapeutic drugs. Some of these analogues induce a novel form of non-apoptotic cell death called methuosis, while others primarily cause microtubule disruption. Ready access to 5-indole substitution has allowed characterization of this position to be important for both types of mechanisms when a simple methoxy group is present. We now report the syntheses and biological effects of isomeric methoxy substitutions on the indole ring. Additionally, analogues containing a trimethoxyphenyl group in place of the pyridinyl moiety were evaluated for anticancer activity. The results demonstrate that the location of the methoxy group can alter both the potency and the mechanism of cell death. Remarkably, changing the methoxy from the 5-position to the 6-position switched the biological activity from induction of methuosis to disruption of microtubules. The latter may represent a prototype for a new class of mitotic inhibitors with potential therapeutic utility. Copyright © 2016 Elsevier Masson SAS. All rights reserved.

Polyploidy creates higher diversity among Cynodon accessions as assessed by molecular markers.

Science.gov (United States)

Gulsen, Osman; Sever-Mutlu, Songul; Mutlu, Nedim; Tuna, Metin; Karaguzel, Osman; Shearman, Robert C; Riordan, Terrance P; Heng-Moss, Tiffany M

2009-05-01

Developing a better understanding of associations among ploidy level, geographic distribution, and genetic diversity of Cynodon accessions could be beneficial to bermudagrass breeding programs, and would enhance our understanding of the evolutionary biology of this warm season grass species. This study was initiated to: (1) determine ploidy analysis of Cynodon accessions collected from Turkey, (2) investigate associations between ploidy level and diversity, (3) determine whether geographic and ploidy distribution are related to nuclear genome variation, and (4) correlate among four nuclear molecular marker systems for Cynodon accessions' genetic analyses. One hundred and eighty-two Cynodon accessions collected in Turkey from an area south of the Taurus Mountains along the Mediterranean cost and ten known genotypes were genotyped using sequence related amplified polymorphism (SRAP), peroxidase gene polymorphism (POGP), inter-simple sequence repeat (ISSR), and random amplified polymorphic DNA (RAPD). The diploids, triploids, tetraploids, pentaploids, and hexaploids revealed by flow cytometry had a linear present band frequency of 0.36, 0.47, 0.49, 0.52, and 0.54, respectively. Regression analysis explained that quadratic relationship between ploidy level and band frequency was the most explanatory (r = 0.62, P Cynodon accessions' genetic structure can aid to enhance breeding programs and broaden genetic base of commercial cultivars.

Updating biological bases of social behavior.

Science.gov (United States)

O'Connor, Thomas G

2014-09-01

This month's collation of papers deals with social behaviors that operationalize key constructs in fields covered by the journal, including attachment theory and parenting; emotional regulation; psychopathology of several forms; general and specific cognitive abilities. Notably, many examples are offered of how these social behaviors link with biology. That is an obvious and important direction for clinical research insofar as it helps to erase a perceptual chasm and artificial duality between 'behavior' and 'biology'. But, although it must be the case that social behavior has biological connections of one sort or other, identifying reliable connections with practical application has proved to be a non-trivial challenge. In particular, the challenge seems to be in measuring social behavior meaningfully enough that it could be expected to have a biological pulse, and in measuring biological markers systematically enough that emergent-downstream effects would surface. Associations are not especially uncommon, but it has been a frustrating task in constructing a practically broad model from a bricolage of scattered and disconnected parts and findings in the literature. Several reports in this issue offer contrasts that may help move along this line of study. © 2014 Association for Child and Adolescent Mental Health.

Demonstration of two-user, 10-Gbits/s optical code-division multiple-access system implemented by using cascaded longperiod fiber gratings formed in dispersion-compensating fiber with inner-cladding structure

DEFF Research Database (Denmark)

Kim, Sun-Jong; Eom, T.J.; Kim, T.Y.

2005-01-01

A two-user, 10-Gbits/s optical code-division multiple-access system implemented by using cascaded long-period fiber gratings formed in a dispersion-compensating fiber (DCF) is demonstrated. Our results show that the sensitivity of cladding modes to the refractive index change on the cladding...... surface is greatly reduced by utilizing the inner-cladding mode of the DCF. Two pairs of encoder/decoder are constructed and the performance is evaluated by measuring bit error rate (BER). With an interferer, a BER of 1.5 X 10(-12) is measured at a received optical power of -6 dBm....

Annual Report to Parliament Access to Information Act - 2016-2017

International Development Research Centre (IDRC) Digital Library (Canada)

Isabelle

... the economic and social advancement of those regions.” ... Technology Division staff to ensure that access to Centre information in all forms respects the ... one came from a business, one came from academia and six came from the public. 4 ...

Access to genetic resources in indigenous peoples and the Convention on Biological Diversity

Directory of Open Access Journals (Sweden)

Diana Rocío Bernal Camargo

2013-06-01

Full Text Available After the Convention on Biological Diversity a deepening debate is taking place concerning the protection of genetic resources and traditional knowledge of indigenous peoples, which involves a discussion about the application of biotechnology and its impact on the protection of life and environment, and an analysis of the participation of these in the process of developing strategies to protect their resources and traditional knowledge, which gives rise to legal pluralism from the development of the different Conferences of the Parties, which today allows for a more comprehensive regulatory framework and a possibility of its strengthening.

A generic method for assignment of reliability scores applied to solvent accessibility predictions

Directory of Open Access Journals (Sweden)

Nielsen Morten

2009-07-01

Full Text Available Abstract Background Estimation of the reliability of specific real value predictions is nontrivial and the efficacy of this is often questionable. It is important to know if you can trust a given prediction and therefore the best methods associate a prediction with a reliability score or index. For discrete qualitative predictions, the reliability is conventionally estimated as the difference between output scores of selected classes. Such an approach is not feasible for methods that predict a biological feature as a single real value rather than a classification. As a solution to this challenge, we have implemented a method that predicts the relative surface accessibility of an amino acid and simultaneously predicts the reliability for each prediction, in the form of a Z-score. Results An ensemble of artificial neural networks has been trained on a set of experimentally solved protein structures to predict the relative exposure of the amino acids. The method assigns a reliability score to each surface accessibility prediction as an inherent part of the training process. This is in contrast to the most commonly used procedures where reliabilities are obtained by post-processing the output. Conclusion The performance of the neural networks was evaluated on a commonly used set of sequences known as the CB513 set. An overall Pearson's correlation coefficient of 0.72 was obtained, which is comparable to the performance of the currently best public available method, Real-SPINE. Both methods associate a reliability score with the individual predictions. However, our implementation of reliability scores in the form of a Z-score is shown to be the more informative measure for discriminating good predictions from bad ones in the entire range from completely buried to fully exposed amino acids. This is evident when comparing the Pearson's correlation coefficient for the upper 20% of predictions sorted according to reliability. For this subset, values of 0

Broadband Access

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. Broadband Access. Worldwide market for broadband access $30 Billion! Over 200 million broadband subscribers worldwide! Various Competing Broadband access. Digital Subscriber line; Wireless; Optical Fiber.

76 FR 40454 - Proposed Information Collection (VSO Access to VHA Electronic Health Records) Activity; Comment...

Science.gov (United States)

2011-07-08

... Access to VHA Electronic Health Records) Activity; Comment Request AGENCY: Veterans Health Administration... Access to VHA Electronic Health Records, VA Form 10- 0400. OMB Control Number: 2900-0710. Type of Review... were granted power of attorney by veterans who have medical information recorded in VHA electronic...

Other relevant biological papers

International Nuclear Information System (INIS)

Shimizu, M.

1989-01-01

A considerable number of CRESP-relevant papers concerning deep-sea biology and radioecology have been published. It is the purpose of this study to call attention to them. They fall into three general categories. The first is papers of general interest. They are mentioned only briefly, and include text references to the global bibliography at the end of the volume. The second are papers that are not only mentioned and referenced, but for various reasons are described in abstract form. The last is a list of papers compiled by H.S.J. Roe specifically for this volume. They are listed in bibliographic form, and are also included in the global bibliography at the end of the volume

On the performance of shared access control strategy for femtocells

KAUST Repository

Magableh, Amer M.

2013-02-18

Femtocells can be employed in cellular systems to enhance the indoor coverage, especially in the areas with high capacity growing demands and high traffic rates. In this paper, we propose an efficient resource utilization protocol, named as shared access protocol (SAP), to enable the unauthorized macrocell user equipment to communicate with partially closed-access femtocell base station to improve and enhance the system performance. The system model considers a femtocell that is equipped with a total of N separated antennas or channels to multiplex independent traffic. Then, a set of N1 channels is used for closed access only by the authorized users, and the remaining set of channel resources can be used for open access by either authorized or unauthorized users upon their demands and spatial locations. For this system model, we obtain the signal-to-interference ratio characteristics, such as the distribution and the moment generating function, in closed forms for two fading models of indoor and outdoor environments. The signal-tointerference ratio statistics are then used to derive some important performance measures of the proposed SAP in closed form, such as the average bit error rate, outage probability, and average channel capacity for the two fading models under consideration. Numerical results for the obtained expressions are provided and supported by Monte Carlo simulations to validate the analytical development and study the effectiveness of the proposed SAP under different conditions. Copyright © 2012 John Wiley and Sons, Ltd.

Biological indicators of radiation quality

International Nuclear Information System (INIS)

Bender, M.A.; Wong, R.M.A.

1982-01-01

The induction of many biological effects by high linear energy transfer (LET) radiation is strikingly different in one or two respects from the induction by acute low-LET radiation. If the acute low-LET dose-effect curve is of the usual quadratic form, it becomes linear as LET increases. In any case the linear slope increases as LET increases; that is, the relative biological effectiveness (RBE) increases. Both changes might be exploited as biological indicators of whether or not the recent recalculations of dose and of neutron contribution to dose at Hiroshima and Nagasaki seem consistent with the epidemiological observations. The biological end points that have been extensively studied in survivors include acute effects, growth and development after in utero or childhood exposure, genetic and cytogenetic effects in offspring, somatic chromosomal aberrations in survivors, and, of course, cancers, including leukemia. No significant indication among offspring of genetic or cytogenetic effects attributable to parental exposure has been found. Among the remaining end points, only the data on somatic chromosomal aberrations and on cancers appear robust enough to allow one to draw definite inferences by comparing experiences at the two cities

Analysis of Urban Households' Preference for Informal Access to ...

African Journals Online (AJOL)

2016-10-02

Oct 2, 2016 ... Keywords: Urban Households, Informal Access, Residential Land, Insecure Tenure Factors. Introduction. Informal ..... its complex system. In Minna, this central control has led to certain ill-practices by land officials who accords some form of preferential treatment to some applicants. This act on one hand is ...

Manual for Accessibility: [Conference, Meeting, and Lodging Facilities]. Revised.

Science.gov (United States)

National Rehabilitation Association, Alexandria, VA.

This illustrated manual and survey forms are designed to be used by organizations, hotel and restaurant associations, interested individuals and others as a guide for selecting accessible conference, meeting, and lodging facilities. The guidelines can also be used with existing facilities to identify specific modifications and accommodations. The…

Quantifying the conservation gains from shared access to linear infrastructure.

Science.gov (United States)

Runge, Claire A; Tulloch, Ayesha I T; Gordon, Ascelin; Rhodes, Jonathan R

2017-12-01

The proliferation of linear infrastructure such as roads and railways is a major global driver of cumulative biodiversity loss. One strategy for reducing habitat loss associated with development is to encourage linear infrastructure providers and users to share infrastructure networks. We quantified the reductions in biodiversity impact and capital costs under linear infrastructure sharing of a range of potential mine to port transportation links for 47 mine locations operated by 28 separate companies in the Upper Spencer Gulf Region of South Australia. We mapped transport links based on least-cost pathways for different levels of linear-infrastructure sharing and used expert-elicited impacts of linear infrastructure to estimate the consequences for biodiversity. Capital costs were calculated based on estimates of construction costs, compensation payments, and transaction costs. We evaluated proposed mine-port links by comparing biodiversity impacts and capital costs across 3 scenarios: an independent scenario, where no infrastructure is shared; a restricted-access scenario, where the largest mining companies share infrastructure but exclude smaller mining companies from sharing; and a shared scenario where all mining companies share linear infrastructure. Fully shared development of linear infrastructure reduced overall biodiversity impacts by 76% and reduced capital costs by 64% compared with the independent scenario. However, there was considerable variation among companies. Our restricted-access scenario showed only modest biodiversity benefits relative to the independent scenario, indicating that reductions are likely to be limited if the dominant mining companies restrict access to infrastructure, which often occurs without policies that promote sharing of infrastructure. Our research helps illuminate the circumstances under which infrastructure sharing can minimize the biodiversity impacts of development. © 2017 The Authors. Conservation Biology published

Early access to lexical-level phonological representations of Mandarin word-forms : evidence from auditory N1 habituation

NARCIS (Netherlands)

Yue, Jinxing; Alter, Kai; Howard, David; Bastiaanse, Roelien

2017-01-01

An auditory habituation design was used to investigate whether lexical-level phonological representations in the brain can be rapidly accessed after the onset of a spoken word. We studied the N1 component of the auditory event-related electrical potential, and measured the amplitude decrements of N1

Three forms of assessment of prior knowledge, and improved performance following an enrichment programme, of English second language biology students within the context of a marine theme

Science.gov (United States)

Feltham, Nicola F.; Downs, Colleen T.

2002-02-01

The Science Foundation Programme (SFP) was launched in 1991 at the University of Natal, Pietermaritzburg, South Africa in an attempt to equip a selected number of matriculants from historically disadvantaged schools with the skills, resources and self-confidence needed to embark on their tertiary studies. Previous research within the SFP biology component suggests that a major contributor to poor achievement and low retention rates among English second language (ESL) students in the Life Sciences is the inadequate background knowledge in natural history. In this study, SFP student background knowledge was assessed along a continuum of language dependency using a set of three probes. Improved student performance in each of the respective assessments examined the extent to which a sound natural history background facilitated meaningful learning relative to ESL proficiency. Student profiles and attitudes to biology were also examined. Results indicated that students did not perceive language to be a problem in biology. However, analysis of the student performance in the assessment probes indicated that, although the marine course provided the students with the background knowledge that they were initially lacking, they continued to perform better in the drawing and MCQ tools in the post-tests, suggesting that it is their inability to express themselves in the written form that hampers their development. These results have implications for curriculum development within the constructivist framework of the SFP.

Biological Systems Thinking for Control Engineering Design

Directory of Open Access Journals (Sweden)

D. J. Murray-Smith

2004-01-01

Full Text Available Artificial neural networks and genetic algorithms are often quoted in discussions about the contribution of biological systems thinking to engineering design. This paper reviews work on the neuromuscular system, a field in which biological systems thinking could make specific contributions to the development and design of automatic control systems for mechatronics and robotics applications. The paper suggests some specific areas in which a better understanding of this biological control system could be expected to contribute to control engineering design methods in the future. Particular emphasis is given to the nonlinear nature of elements within the neuromuscular system and to processes of neural signal processing, sensing and system adaptivity. Aspects of the biological system that are of particular significance for engineering control systems include sensor fusion, sensor redundancy and parallelism, together with advanced forms of signal processing for adaptive and learning control. 

Open access and the future of scholarly communication

CERN Document Server

Dickson, Katherine A

It is impossible to imagine the future of academic libraries without an extensive consideration of open access the removal of price and permission barriers from scholarly research online. As textbook and journal subscription prices continue to rise, improvements in technology make online dissemination of scholarship less expensive, and faculty recognize the practical and philosophical appeal of making their work available to wider audiences. As a consequences, libraries have begun to consider a wide variety of open access flavors and business models. These new possibilities have significant impact on both library services and collection policies, and the call for new skills within library staffing. Volume 9 of the series Creating the 21st-Century Academic Library is the first of two addressing the topic of open access in academic libraries and focuses on policy and infrastructure for libraries that wish to provide leadership on their campus in the transition to more open forms of scholarship. Chapters in the ...

Analysis of the biological spectrum of vascular flora of Ravni Srem flood forests

Directory of Open Access Journals (Sweden)

Jurišić Branislav

2011-01-01

Full Text Available One of the essential analyses performed during the floristic study of a region is the analysis of the biological spectrum. The analysis of the biological spectrum of the flora includes the determination of the type of life form for each taxon described in the flora of the study region. If it is considered that life form is a specific structural-functional response to the environmental effects and the result of the adaptation during the species evolution, it is clear that the basic characteristics of the site are more or less reflected in any life form. This fact is confirmed by the analysis of the biological spectrum of the flora of Ravni Srem. The analysis of the Ravni Srem flora shows the domination of the hemicryptophytes and the subdomination of the phanerophytes with a considerable participation of the therophytes.

Experiences of mobility for people living with rheumatoid arthritis who are receiving biologic drug therapy: implications for podiatry services.

Science.gov (United States)

Sanders, Lucy; Donovan-Hall, Margaret; Borthwick, Alan; Bowen, Catherine J

2017-01-01

Despite significant advancements in new treatment modalities for rheumatoid arthritis with biological therapies, foot complications remain a disabling and common feature of the disease . In this study the aim was to explore and describe the personal experiences of people with rheumatoid arthritis in receipt of biologic treatments in a bid to understand the impact of this form of medication on their mobility. An interpretative phenomenological analysis (IPA) was undertaken to explore in depth the individual experience of rheumatoid disease through personal accounts of the patient journey spanning both 'before' and 'after' the instigation of biologic therapy. A purposive sampling strategy was adopted and in-depth semi structured interviews used to facilitate rich, detailed interview data exploring the lived experiences of individuals undertaking biological therapy and the changes to mobility experienced as a result. Thematic analysis was employed with an IPA framework to identify key meanings, and report patterns within the data. Five people with rheumatoid arthritis participated in the study. The mean disease duration was 20.2 years (range: 6 -32) and all were being treated with biologic therapies. Four key themes emerged from the data: 1) Life before biologic treatment, depicted in accounts as a negative experience characterised by painful and disabling symptoms and feelings of hopelessness. 2) Life with biologic treatment, often experienced as a life changing transition, restoring function and mobility and offering renewed hope. 3) Sense of self, in which the impact of rheumatoid disease and the subsequent changes arising from biologic therapy reveal a profound impact on feelings of personal identity both pre and post biologic therapy; an effect of footwear on self-image emerges as a dominant sub theme; 4) Unmet footcare needs were evident in the patient narrative, where the unrelenting if diminished impact of foot pain on mobility was viewed in the context of

Preparing Synthetic Biology for the World

Directory of Open Access Journals (Sweden)

Gerd H.G. Moe-Behrens

2013-01-01

Full Text Available Synthetic Biology promises low-cost, exponentially scalable products and global health solutions in the form of self-replicating organisms, or living devices. As these promises are realized, proof-of-concept systems will gradually migrate from tightly regulated laboratory or industrial environments into private spaces as, for instance, probiotic health products, food, and even do-it-yourself bioengineered systems. What additional steps, if any, should be taken before releasing engineered self-replicating organisms into a broader user space? In this review, we explain how studies of genetically modified organisms lay groundwork for the future landscape of biosafety. Early in the design process, biological engineers are anticipating potential hazards and developing innovative tools to mitigate risk. Here, we survey lessons learned, ongoing efforts to engineer intrinsic biocontainment, and how different stakeholders in synthetic biology can act to accomplish best practices for biosafety.

A Problem-Solving Environment for Biological Network Informatics: Bio-Spice

Science.gov (United States)

2007-06-01

user an environment to access software tools. The Dashboard is built upon the NetBeans Integrated Development Environment (IDE), an open source Java...based integration platform was demonstrated. During the subsequent six month development cycle, the first version of the NetBeans based Bio-SPICE...frameworks (OAA, NetBeans , and Systems Biology Workbench (SBW)[15]), it becomes possible for Bio-SPICE tools to truly interoperate. This interoperation

Discovery of a diazo-forming enzyme in cremeomycin biosynthesis.

Science.gov (United States)

Waldman, Abraham J; Balskus, Emily P

2018-05-17

The molecular architectures and potent bioactivities of diazo-containing natural products have attracted the interest of synthetic and biological chemists. Despite this attention, the biosynthetic enzymes involved in diazo group construction have not been identified. Here, we show the ATP-dependent enzyme CreM installs the diazo group in cremeomycin via late-stage N-N bond formation using nitrite. This finding should inspire efforts to use diazo-forming enzymes in biocatalysis and synthetic biology and enable genome-based discovery of new diazo-containing metabolites.

A Magnetic Sensor System for Biological Detection

KAUST Repository

Li, Fuquan

2015-05-01

Magnetic biosensors detect biological targets through sensing the stray field of magnetic beads which label the targets. Commonly, magnetic biosensors employ the “sandwich” method to immobilize biological targets, i.e., the targets are sandwiched between a bio-functionalized sensor surface and bio-functionalized magnetic beads. This method has been used very successfully in different application, but its execution requires a rather elaborate procedure including several washing and incubation steps. This dissertation investigates a new magnetic biosensor concept, which enables a simple and effective detection of biological targets. The biosensor takes advantage of the size difference between bare magnetic beads and compounds of magnetic beads and biological targets. First, the detection of super-paramagnetic beads via magnetic tunnel junction (MTJ) sensors is implemented. Frequency modulation is used to enhance the signal-to-noise ratio, enabling the detection of a single magnetic bead. Second, the concept of the magnetic biosensor is investigated theoretically. The biosensor consists of an MTJ sensor, which detects the stray field of magnetic beads inside of a trap on top of the MTJ. A microwire between the trap and the MTJ is used to attract magnetic beads to the trapping well by applying a current to it. The MTJ sensor’s output depends on the number of beads inside the trap. If biological targets are in the sample solution, the beads will form bead compounds consisting of beads linked to the biological targets. Since bead compounds are larger than bare beads, the number of beads inside the trapping well will depend on the presence of biological targets. Hence, the output of the MTJ sensor will depend on the biological targets. The dependences of sensor signals on the sizes of the MTJ sensor, magnetic beads and biological targets are studied to find the optimum constellations for the detection of specific biological targets. The optimization is demonstrated

Forms of organic phosphorus in wetland soils

Science.gov (United States)

Cheesman, A. W.; Turner, B. L.; Reddy, K. R.

2014-12-01

Phosphorus (P) cycling in freshwater wetlands is dominated by biological mechanisms, yet there has been no comprehensive examination of the forms of biogenic P (i.e., forms derived from biological activity) in wetland soils. We used solution 31P NMR spectroscopy to identify and quantify P forms in surface soils of 28 palustrine wetlands spanning a range of climatic, hydrogeomorphic, and vegetation types. Total P concentrations ranged between 51 and 3516 μg P g-1, of which an average of 58% was extracted in a single-step NaOH-EDTA procedure. The extracts contained a broad range of P forms, including phosphomonoesters (averaging 24% of the total soil P), phosphodiesters (averaging 10% of total P), phosphonates (up to 4% of total P), and both pyrophosphate and long-chain polyphosphates (together averaging 6% of total P). Soil P composition was found to be dependant upon two key biogeochemical properties: organic matter content and pH. For example, stereoisomers of inositol hexakisphosphate were detected exclusively in acidic soils with high mineral content, while phosphonates were detected in soils from a broad range of vegetation and hydrogeomorphic types but only under acidic conditions. Conversely inorganic polyphosphates occurred in a broad range of wetland soils, and their abundance appears to reflect more broadly that of a "substantial" and presumably active microbial community with a significant relationship between total inorganic polyphosphates and microbial biomass P. We conclude that soil P composition varies markedly among freshwater wetlands but can be predicted by fundamental soil properties.

Ad-Hoc Numbers Forming Provision and Policy: Round and Round of Universal Access in an Australian Preschool

Science.gov (United States)

Millei, Zsuzsa; Gallagher, Jannelle

2017-01-01

Australian early childhood education still labours with the achievement of universal access and the production of comprehensive and consistent data to underpin a national evidence base. In this article, we attend to the processes led by numbers whereby new practices of quantification, rationalization and reporting are introduced and mastered in a…

Thiosemicarbazones: preparation methods, synthetic applications and biological importance

International Nuclear Information System (INIS)

Tenorio, Romulo P.; Goes, Alexandre J.S.; Lima, Jose G. de; Faria, Antonio R. de; Alves, Antonio J.; Aquino, Thiago M. de

2005-01-01

Thiosemicarbazones are a class of compounds known by their chemical and biological properties, such as antitumor, antibacterial, antiviral and antiprotozoal activity. Their ability to form chelates with metals has great importance in their biological activities. Their synthesis is very simple, versatile and clean, usually giving high yields. They are largely employed as intermediates, in the synthesis of others compounds. This article is a survey of some of these characteristics showing their great importance to organic and medicinal chemistry. (author)

News: Synthetic biology leading to specialty chemicals ...

Science.gov (United States)

Synthetic biology can combine the disciplines of biology, engineering, and chemistry productively to form molecules of great scientific and commercial value. Recent advances in the new field are explored for their connection to new tools that have been used to elucidate production pathways to a wide variety of chemicals generated by microorganisms. The selection and enhancement of microbiological strains through the practice of strain engineering enables targets of design, construction, and optimization. This news column aspires to cover recent literature relating to the development and understanding of clean technology.

Synthesis, crystal structure and biological activity of 2-hydroxyethylammonium salt of p-aminobenzoic acid.

Directory of Open Access Journals (Sweden)

Manuela E Crisan

Full Text Available p-Aminobenzoic acid (pABA plays important roles in a wide variety of metabolic processes. Herein we report the synthesis, theoretical calculations, crystallographic investigation, and in vitro determination of the biological activity and phytotoxicity of the pABA salt, 2-hydroxyethylammonium p-aminobenzoate (HEA-pABA. The ability of neutral and anionic forms of pABA to interact with TIR1 pocket was investigated by calculation of molecular electrostatic potential maps on the accessible surface area, docking experiments, Molecular Dynamics and Quantum Mechanics/Molecular Mechanics calculations. The docking study of the folate precursor pABA, its anionic form and natural auxin (indole-3-acetic acid, IAA with the auxin receptor TIR1 revealed a similar binding mode in the active site. The phytotoxic evaluation of HEA-pABA, pABA and 2-hydroxyethylamine (HEA was performed on the model plant Arabidopsis thaliana ecotype Col 0 at five different concentrations. HEA-pABA and pABA acted as potential auxin-like regulators of root development in Arabidopsis thaliana (0.1 and 0.2 mM and displayed an agravitropic root response at high concentration (2 mM. This study suggests that HEA-pABA and pABA might be considered as potential new regulators of plant growth.

Calculating life? Duelling discourses in interdisciplinary systems biology.

Science.gov (United States)

Calvert, Jane; Fujimura, Joan H

2011-06-01

A high profile context in which physics and biology meet today is in the new field of systems biology. Systems biology is a fascinating subject for sociological investigation because the demands of interdisciplinary collaboration have brought epistemological issues and debates front and centre in discussions amongst systems biologists in conference settings, in publications, and in laboratory coffee rooms. One could argue that systems biologists are conducting their own philosophy of science. This paper explores the epistemic aspirations of the field by drawing on interviews with scientists working in systems biology, attendance at systems biology conferences and workshops, and visits to systems biology laboratories. It examines the discourses of systems biologists, looking at how they position their work in relation to previous types of biological inquiry, particularly molecular biology. For example, they raise the issue of reductionism to distinguish systems biology from molecular biology. This comparison with molecular biology leads to discussions about the goals and aspirations of systems biology, including epistemic commitments to quantification, rigor and predictability. Some systems biologists aspire to make biology more similar to physics and engineering by making living systems calculable, modelable and ultimately predictable-a research programme that is perhaps taken to its most extreme form in systems biology's sister discipline: synthetic biology. Other systems biologists, however, do not think that the standards of the physical sciences are the standards by which we should measure the achievements of systems biology, and doubt whether such standards will ever be applicable to 'dirty, unruly living systems'. This paper explores these epistemic tensions and reflects on their sociological dimensions and their consequences for future work in the life sciences. Copyright © 2010 Elsevier Ltd. All rights reserved.

Biological availability of energy related effluent material in the coastal ecosystem

International Nuclear Information System (INIS)

Gibson, C.I.; Abel, K.H.; Ahlstrom, S.W.; Crecelius, E.A.; Schmidt, R.L.; Thatcher, T.O.; Wildung, R.E.

1977-01-01

In order to make the predictions necessary to forecast the ecological consequences of an energy-related technology, there must be an understanding of: the biogeochemical processes involved in the natural system; the manner in which an energy technology affects these processes and how, in turn, this affects the ecosystem as a whole. Direct biological effects such as lethality, behavioral changes, and physiological changes, are being studied under the program previously discussed. The biological availability and impact studies are investigating: the chemical, physical, and biological processes that occur in the natural marine ecosystem; how energy effluents affect these processes; and the factors involved in regulating the bioavailability of effluent material. This past year's effort has centered on defining the quantities and forms of metals and radioisotopes in nuclear power plant effluent streams, the chemical forms present in bioassay systems, the chemical and microbial processes controlling the forms of metals available from the sediments, and the uptake and control of copper in shrimp. In addition, several sites in Sequim Bay have been monitored for potential use in field verification studies

Two-port access versus four-port access laparoscopic ovarian cystectomy.

Science.gov (United States)

Choi, Won-Kyu; Kim, Jang-Kew; Yang, Jung-Bo; Ko, Young-Bok; Nam, Sang-Lyun; Lee, Ki-Hwan

2014-09-01

This study was conducted to compare the surgical outcomes between two-port access and four-port access laparoscopic ovarian cystectomy. Four hundred and eighty nine patients who had received two-port access laparoscopic ovarian cystectomy (n=175) and four-port access laparoscopic ovarian cystectomy (n=314) in Chungnam National University Hospital from January 2009 to August 2012 were analyzed retrospectively. The data were compared between the bilaterality of the cysts and cyst diameter of less than 6 cm and 6 cm or more. There were no significant differences in patient's age, parity, body weight, body mass index and history of previous surgery between the two-port and four-port access laparoscopy group. Bilaterality of ovarian cysts was more in fourport access laparoscopy group (13.7% vs. 32.5%, P=0.000). There were no significant differences in operation time, hemoglobin change, hospital stay, adhesiolysis, transfusion, and insertion of hemo-vac between the two-port and four-port access laparoscopy group for size matched compare. However additional analgesics were more in four-port access laparoscopy group for unilateral ovarian cystectomy. Two-port access laparoscopic surgery was feasible and safe for unilateral and bilateral ovarian cystectomy compare with four-port access laparoscopic surgery.

EntrezAJAX: direct web browser access to the Entrez Programming Utilities

Directory of Open Access Journals (Sweden)

Pallen Mark J

2010-06-01

Full Text Available Abstract Web applications for biology and medicine often need to integrate data from Entrez services provided by the National Center for Biotechnology Information. However, direct access to Entrez from a web browser is not possible due to 'same-origin' security restrictions. The use of "Asynchronous JavaScript and XML" (AJAX to create rich, interactive web applications is now commonplace. The ability to access Entrez via AJAX would be advantageous in the creation of integrated biomedical web resources. We describe EntrezAJAX, which provides access to Entrez eUtils and is able to circumvent same-origin browser restrictions. EntrezAJAX is easily implemented by JavaScript developers and provides identical functionality as Entrez eUtils as well as enhanced functionality to ease development. We provide easy-to-understand developer examples written in JavaScript to illustrate potential uses of this service. For the purposes of speed, reliability and scalability, EntrezAJAX has been deployed on Google App Engine, a freely available cloud service. The EntrezAJAX webpage is located at http://entrezajax.appspot.com/

Analytical evaluation of atomic form factors: Application to Rayleigh scattering

Energy Technology Data Exchange (ETDEWEB)

Safari, L., E-mail: laleh.safari@ist.ac.at [IST Austria (Institute of Science and Technology Austria), Am Campus 1, 3400 Klosterneuburg (Austria); Department of Physics, University of Oulu, Box 3000, FI-90014 Oulu (Finland); Santos, J. P. [Laboratório de Instrumentação, Engenharia Biomédica e Física da Radiação (LIBPhys-UNL), Departamento de Física, Faculdade de Ciências e Tecnologia, FCT, Universidade Nova de Lisboa, 2829-516 Caparica (Portugal); Amaro, P. [Laboratório de Instrumentação, Engenharia Biomédica e Física da Radiação (LIBPhys-UNL), Departamento de Física, Faculdade de Ciências e Tecnologia, FCT, Universidade Nova de Lisboa, 2829-516 Caparica (Portugal); Physikalisches Institut, Universität Heidelberg, D-69120 Heidelberg (Germany); Jänkälä, K. [Department of Physics, University of Oulu, Box 3000, FI-90014 Oulu (Finland); Fratini, F. [Department of Physics, University of Oulu, Box 3000, FI-90014 Oulu (Finland); Institute of Atomic and Subatomic Physics, TU Wien, Stadionallee 2, 1020 Wien (Austria); Departamento de Física, Instituto de Ciências Exatas, Universidade Federal de Minas Gerais, 31270-901 Belo Horizonte, MG (Brazil)

2015-05-15

Atomic form factors are widely used for the characterization of targets and specimens, from crystallography to biology. By using recent mathematical results, here we derive an analytical expression for the atomic form factor within the independent particle model constructed from nonrelativistic screened hydrogenic wave functions. The range of validity of this analytical expression is checked by comparing the analytically obtained form factors with the ones obtained within the Hartee-Fock method. As an example, we apply our analytical expression for the atomic form factor to evaluate the differential cross section for Rayleigh scattering off neutral atoms.

Electrodynamics, Differential Forms and the Method of Images

Science.gov (United States)

Low, Robert J.

2011-01-01

This paper gives a brief description of how Maxwell's equations are expressed in the language of differential forms and use this to provide an elegant demonstration of how the method of images (well known in electrostatics) also works for electrodynamics in the presence of an infinite plane conducting boundary. The paper should be accessible to an…

An Intervention to Improve Academic Literacies in a First Year University Biology Course

Directory of Open Access Journals (Sweden)

Roisin Kelly-Laubscher

2015-02-01

Full Text Available In South Africa there are many students, especially those from previously underrepresented groups at university, who successfully gain access to university but do not succeed in completing their degree either within the prescribed time or at all.  One of the barriers to student success at university is the difficulty these students have in accessing the literacy practices of the disciplines.  Therefore, within a first year biology course at a South African University, an intervention that focused on the academic literacy practices in biology was introduced. The intervention was designed around the assignment of writing a lab report. This paper describes this intervention and how it impacted on one student’s journey from learning science at school to learning science at university.  A literacy history interview and ‘talk around text’ interviews were used to assess the student’s experience of the intervention. Comparison of the student’s first and final drafts of the report revealed changes in the style and format of his writing. These changes in his report writing as well as in his attitude and motivation for writing the report were facilitated by a better understanding of the expectations of writing in university biology. This understanding was mediated largely through the modelling and deconstruction of the expected genre. This highlights not only the importance of providing first year students with examples of the genres they are  expected to be writing but also the facilitation of their engagement with these new genres. Without these kinds of intervention many students are unlikely to gain access to disciplinary ways of learning and writing, which ultimately may lead to their exclusion from university.

Developing an Application to Increase the Accessibility of Planetary Geologic Maps

Science.gov (United States)

Jacobsen, R. E.; Fay, C.

2018-06-01

USGS planetary geologic maps are widely used digital products with text, raster, vector, and temporal data, within a highly standardized design. This tool will augment the user experience by improving accessibility among the various forms of data.

Energy access: Revelations from energy consumption patterns in rural India

International Nuclear Information System (INIS)

Srivastava, Leena; Goswami, Anandajit; Diljun, Gaurang Meher; Chaudhury, Saswata

2012-01-01

After decades of research on the subject of energy poverty and access and its impact on human development, the issue has finally gained global attention and commitment through the UN Secretary General's initiative on Sustainable Energy for All. However, the issue of what constitutes energy access and how such access can be supported by efficient subsidies remains a key question that does not have simple answers. At what point along the energy consumption and income spectrum does the energy access problem cease to be one of public policy, thereby letting the market take over? Using data from an extensive survey carried out by the Government of India, this paper highlights the complexities and inadequacies of using a normative consumption based approach to determine the scope and scale of interventions required. Factoring in the environmental and social pillars of sustainable development when defining access to modern energy forms would also significantly inform the level of effort involved in meeting the goal of energy access to all. - Highlights: ► Simple head count measures are inadequate to estimate the energy access challenge. ► The income and energy poor populations in a country need not completely overlap. ► Modern energy service delivery mechanisms, ensuring quality, essential for outcomes. ► Need to create enabling environment that empowers making of desired energy choices.

The biology of gall-inducing arthropods.

Science.gov (United States)

Gyuri Csoka; William J. Mattson; Graham N. Stone; Peter W. Price

1998-01-01

This proceedings explores many facets of the ever intriguing and enigmatic relationships between plants and their gall-forming herbivores. The research reported herein ranges from studies on classical biology and systematics of galling to molecular phylogeny, population genetics, and ecological and evolutionary theory. Human kind has much to learn and gain from...

Morphology, production, and chemical content performance of black rice Matesih accession with several comparisons

Science.gov (United States)

Nandariyah; Purwanto, E.; Meidini, A. N.

2018-03-01

Rice (Oryza sativa L.) is an important food crop in Indonesia. In Matesih area, Karanganyar, recently found new varieties of black rice cultured by local farmers which morphology and chemical content have not yet identified. The purpose of this research was to obtain information of morphology, production, and chemical content of black rice matesih accession and to compare the appearance in order to detect the superiority of black rice matesih accession with the comparison of other accession of black rice. There were four accessions of black rice tested, namely Matesih Accession, Klaten Accession, Toraja, and Cempo. Research data were divided into qualitative data which processed by scoring, and quantitative data are processed with simple descriptive statistic. The kinship test was done by using NTSYSpc program with SIMQual and SIMInt function. The observation of qualitative properties indicates that accession matesih has a form that is relatively similar to other accessions. Qualitatively, accession matesih superior at leaf length, leaf width, plant height and culm diameter. Klaten accession has higher production than accession matesih. Matesih accession has the advantage of having shorter period on heading time and harvest time than other accessions. Matesih accession has the highest amylose content, lower protein content than klaten accession and lower content of anthocyanin than toraja accession. The kinship analysis showed that matesih accession and klaten accession has close kinship.

Improving open access to the results of USGS research (Invited)

Science.gov (United States)

Bristol, S.

2013-12-01

Since its establishment under the Organic Act of March 3, 1879, the U.S. Geological Survey (USGS) has been committed to classifying and characterizing 'the geological structure, mineral resources, and products of the national domain.' Over time, the pursuit of this mission and understanding the products of the national domain has involved a broad scientific pursuit to understand complex Earth system processes and includes topographic, geologic, biogeographic, and other types of mapping; chemical, physical, hydrological, and biological research; and the application of computer and data science. As science and technology have evolved, classification and characterization of the Nation's natural resources has come to be embodied in digital data of various structure and form. Fundamentally, scientific publications and data produced through research and monitoring form the core of the USGS mission. They are an organizational and national treasure held and provided in trust for the American people and for the global scientific community. The recent memo from the Office of Science and Technology Policy (OSTP) on 'Increasing Access to the Results of Federally Funded Scientific Research' is part of an overall initiative toward open digital government that dovetails well with the USGS mission. The objectives outlined in the memo correspond directly to goals and objectives of the 2007 USGS Science Strategy ('Facing Tomorrow's Challenges--U.S. Geological Survey Science in the Decade 2007-2017') and the recently released Science Strategy Plans across all USGS Mission Areas. The USGS response to the OSTP memo involves reinforcing aspects of the USGS commitment to open and free access to scholarly publications and data along with improvements to some of the underlying technological systems that facilitate search and discovery. These actions also align with the USGS response to the Executive Order on May 9, 2013, entitled 'Making Open and Machine Readable the New Default for

The role of ontologies in biological and biomedical research: a functional perspective

KAUST Repository

Hoehndorf, Robert

2015-04-10

Ontologies are widely used in biological and biomedical research. Their success lies in their combination of four main features present in almost all ontologies: provision of standard identifiers for classes and relations that represent the phenomena within a domain; provision of a vocabulary for a domain; provision of metadata that describes the intended meaning of the classes and relations in ontologies; and the provision of machine-readable axioms and definitions that enable computational access to some aspects of the meaning of classes and relations. While each of these features enables applications that facilitate data integration, data access and analysis, a great potential lies in the possibility of combining these four features to support integrative analysis and interpretation of multimodal data. Here, we provide a functional perspective on ontologies in biology and biomedicine, focusing on what ontologies can do and describing how they can be used in support of integrative research. We also outline perspectives for using ontologies in data-driven science, in particular their application in structured data mining and machine learning applications.

BioMart Central Portal: an open database network for the biological community

Science.gov (United States)

Guberman, Jonathan M.; Ai, J.; Arnaiz, O.; Baran, Joachim; Blake, Andrew; Baldock, Richard; Chelala, Claude; Croft, David; Cros, Anthony; Cutts, Rosalind J.; Di Génova, A.; Forbes, Simon; Fujisawa, T.; Gadaleta, E.; Goodstein, D. M.; Gundem, Gunes; Haggarty, Bernard; Haider, Syed; Hall, Matthew; Harris, Todd; Haw, Robin; Hu, S.; Hubbard, Simon; Hsu, Jack; Iyer, Vivek; Jones, Philip; Katayama, Toshiaki; Kinsella, R.; Kong, Lei; Lawson, Daniel; Liang, Yong; Lopez-Bigas, Nuria; Luo, J.; Lush, Michael; Mason, Jeremy; Moreews, Francois; Ndegwa, Nelson; Oakley, Darren; Perez-Llamas, Christian; Primig, Michael; Rivkin, Elena; Rosanoff, S.; Shepherd, Rebecca; Simon, Reinhard; Skarnes, B.; Smedley, Damian; Sperling, Linda; Spooner, William; Stevenson, Peter; Stone, Kevin; Teague, J.; Wang, Jun; Wang, Jianxin; Whitty, Brett; Wong, D. T.; Wong-Erasmus, Marie; Yao, L.; Youens-Clark, Ken; Yung, Christina; Zhang, Junjun; Kasprzyk, Arek

2011-01-01

BioMart Central Portal is a first of its kind, community-driven effort to provide unified access to dozens of biological databases spanning genomics, proteomics, model organisms, cancer data, ontology information and more. Anybody can contribute an independently maintained resource to the Central Portal, allowing it to be exposed to and shared with the research community, and linking it with the other resources in the portal. Users can take advantage of the common interface to quickly utilize different sources without learning a new system for each. The system also simplifies cross-database searches that might otherwise require several complicated steps. Several integrated tools streamline common tasks, such as converting between ID formats and retrieving sequences. The combination of a wide variety of databases, an easy-to-use interface, robust programmatic access and the array of tools make Central Portal a one-stop shop for biological data querying. Here, we describe the structure of Central Portal and show example queries to demonstrate its capabilities. Database URL: http://central.biomart.org. PMID:21930507

The role of ontologies in biological and biomedical research: a functional perspective

KAUST Repository

Hoehndorf, Robert; Schofield, P. N.; Gkoutos, G. V.

2015-01-01

Ontologies are widely used in biological and biomedical research. Their success lies in their combination of four main features present in almost all ontologies: provision of standard identifiers for classes and relations that represent the phenomena within a domain; provision of a vocabulary for a domain; provision of metadata that describes the intended meaning of the classes and relations in ontologies; and the provision of machine-readable axioms and definitions that enable computational access to some aspects of the meaning of classes and relations. While each of these features enables applications that facilitate data integration, data access and analysis, a great potential lies in the possibility of combining these four features to support integrative analysis and interpretation of multimodal data. Here, we provide a functional perspective on ontologies in biology and biomedicine, focusing on what ontologies can do and describing how they can be used in support of integrative research. We also outline perspectives for using ontologies in data-driven science, in particular their application in structured data mining and machine learning applications.

Buccal Dosage Forms: General Considerations for Pediatric Patients.

Science.gov (United States)

Montero-Padilla, Soledad; Velaga, Sitaram; Morales, Javier O

2017-02-01

The development of an appropriate dosage form for pediatric patients needs to take into account several aspects, since adult drug biodistribution differs from that of pediatrics. In recent years, buccal administration has become an attractive route, having different dosage forms under development including tablets, lozenges, films, and solutions among others. Furthermore, the buccal epithelium can allow quick access to systemic circulation, which could be used for a rapid onset of action. For pediatric patients, dosage forms to be placed in the oral cavity have higher requirements for palatability to increase acceptance and therapy compliance. Therefore, an understanding of the excipients required and their functions and properties needs to be particularly addressed. This review is focused on the differences and requirements relevant to buccal administration for pediatric patients (compared to adults) and how novel dosage forms can be less invasive and more acceptable alternatives.

Partial Interference and Its Performance Impact on Wireless Multiple Access Networks

Directory of Open Access Journals (Sweden)

Lau WingCheong

2010-01-01

Full Text Available To determine the capacity of wireless multiple access networks, the interference among the wireless links must be accurately modeled. In this paper, we formalize the notion of the partial interference phenomenon observed in many recent wireless measurement studies and establish analytical models with tractable solutions for various types of wireless multiple access networks. In particular, we characterize the stability region of IEEE 802.11 networks under partial interference with two potentially unsaturated links numerically. We also provide a closed-form solution for the stability region of slotted ALOHA networks under partial interference with two potentially unsaturated links and obtain a partial characterization of the boundary of the stability region for the general M-link case. Finally, we derive a closed-form approximated solution for the stability region for general M-link slotted ALOHA system under partial interference effects. Based on our results, we demonstrate that it is important to model the partial interference effects while analyzing wireless multiple access networks. This is because such considerations can result in not only significant quantitative differences in the predicted system capacity but also fundamental qualitative changes in the shape of the stability region of the systems.

Environmental and biological applications of microplasmas

International Nuclear Information System (INIS)

Becker, K; Koutsospyros, A; Yin, S-M; Christodoulatos, C; Abramzon, N; Joaquin, J C; Brelles-Marino, G

2005-01-01

Stable glow-type discharge plasmas at elevated pressures can be generated and maintained easily when the plasma is spatially confined to cavities with critical dimensions below 1 mm ('microplasmas'). We studied the properties of several atmospheric-pressure microplasmas and their use in the remediation of volatile organic compounds (VOCs) and biological decontamination. The VOCs studied include individual prototypcal aliphatic and aromatic compounds as well as mixtures such as BTEX (benzene, toluene, ethylbenzene and xylene). The biological systems under study included individual bacteria as well as bacterial biofilms, which are highly structured communities of bacteria that are very resistant to antibiotics, germicides, and other conventional forms of destruction

Nuclear Receptor Signaling Atlas: Opening Access to the Biology of Nuclear Receptor Signaling Pathways.

Science.gov (United States)

Becnel, Lauren B; Darlington, Yolanda F; Ochsner, Scott A; Easton-Marks, Jeremy R; Watkins, Christopher M; McOwiti, Apollo; Kankanamge, Wasula H; Wise, Michael W; DeHart, Michael; Margolis, Ronald N; McKenna, Neil J

2015-01-01

Signaling pathways involving nuclear receptors (NRs), their ligands and coregulators, regulate tissue-specific transcriptomes in diverse processes, including development, metabolism, reproduction, the immune response and neuronal function, as well as in their associated pathologies. The Nuclear Receptor Signaling Atlas (NURSA) is a Consortium focused around a Hub website (www.nursa.org) that annotates and integrates diverse 'omics datasets originating from the published literature and NURSA-funded Data Source Projects (NDSPs). These datasets are then exposed to the scientific community on an Open Access basis through user-friendly data browsing and search interfaces. Here, we describe the redesign of the Hub, version 3.0, to deploy "Web 2.0" technologies and add richer, more diverse content. The Molecule Pages, which aggregate information relevant to NR signaling pathways from myriad external databases, have been enhanced to include resources for basic scientists, such as post-translational modification sites and targeting miRNAs, and for clinicians, such as clinical trials. A portal to NURSA's Open Access, PubMed-indexed journal Nuclear Receptor Signaling has been added to facilitate manuscript submissions. Datasets and information on reagents generated by NDSPs are available, as is information concerning periodic new NDSP funding solicitations. Finally, the new website integrates the Transcriptomine analysis tool, which allows for mining of millions of richly annotated public transcriptomic data points in the field, providing an environment for dataset re-use and citation, bench data validation and hypothesis generation. We anticipate that this new release of the NURSA database will have tangible, long term benefits for both basic and clinical research in this field.

Nuclear Receptor Signaling Atlas: Opening Access to the Biology of Nuclear Receptor Signaling Pathways.

Directory of Open Access Journals (Sweden)

Lauren B Becnel

Full Text Available Signaling pathways involving nuclear receptors (NRs, their ligands and coregulators, regulate tissue-specific transcriptomes in diverse processes, including development, metabolism, reproduction, the immune response and neuronal function, as well as in their associated pathologies. The Nuclear Receptor Signaling Atlas (NURSA is a Consortium focused around a Hub website (www.nursa.org that annotates and integrates diverse 'omics datasets originating from the published literature and NURSA-funded Data Source Projects (NDSPs. These datasets are then exposed to the scientific community on an Open Access basis through user-friendly data browsing and search interfaces. Here, we describe the redesign of the Hub, version 3.0, to deploy "Web 2.0" technologies and add richer, more diverse content. The Molecule Pages, which aggregate information relevant to NR signaling pathways from myriad external databases, have been enhanced to include resources for basic scientists, such as post-translational modification sites and targeting miRNAs, and for clinicians, such as clinical trials. A portal to NURSA's Open Access, PubMed-indexed journal Nuclear Receptor Signaling has been added to facilitate manuscript submissions. Datasets and information on reagents generated by NDSPs are available, as is information concerning periodic new NDSP funding solicitations. Finally, the new website integrates the Transcriptomine analysis tool, which allows for mining of millions of richly annotated public transcriptomic data points in the field, providing an environment for dataset re-use and citation, bench data validation and hypothesis generation. We anticipate that this new release of the NURSA database will have tangible, long term benefits for both basic and clinical research in this field.

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

DEFF Research Database (Denmark)

Xu, Xun; Liu, Xin; Ge, Song

2012-01-01

Rice is a staple crop that has undergone substantial phenotypic and physiological changes during domestication. Here we resequenced the genomes of 40 cultivated accessions selected from the major groups of rice and 10 accessions of their wild progenitors (Oryza rufipogon and Oryza nivara) to >15 x...... diversity in cultivated but not wild rice, which represent candidate regions selected during domestication. Some of these variants are associated with important biological features, whereas others have yet to be functionally characterized. The molecular markers we have identified should be valuable...... raw data coverage. We investigated genome-wide variation patterns in rice and obtained 6.5 million high-quality single nucleotide polymorphisms (SNPs) after excluding sites with missing data in any accession. Using these population SNP data, we identified thousands of genes with significantly lower...

48 CFR 1852.227-11 - Patent Rights-Retention by the Contractor (Short Form).

Science.gov (United States)

2010-10-01

... subparagraph (c)(1). NASA prefers that the contractor use either the electronic or paper version of NASA Form.... Both the electronic and paper versions of NASA Form 1679 may be accessed at the electronic New... copies of the patent application file, by the Government, when a Federal Government employee is a...

Synthetic biology platform technologies for antimicrobial applications.

Science.gov (United States)

Braff, Dana; Shis, David; Collins, James J

2016-10-01

The growing prevalence of antibiotic resistance calls for new approaches in the development of antimicrobial therapeutics. Likewise, improved diagnostic measures are essential in guiding the application of targeted therapies and preventing the evolution of therapeutic resistance. Discovery platforms are also needed to form new treatment strategies and identify novel antimicrobial agents. By applying engineering principles to molecular biology, synthetic biologists have developed platforms that improve upon, supplement, and will perhaps supplant traditional broad-spectrum antibiotics. Efforts in engineering bacteriophages and synthetic probiotics demonstrate targeted antimicrobial approaches that can be fine-tuned using synthetic biology-derived principles. Further, the development of paper-based, cell-free expression systems holds promise in promoting the clinical translation of molecular biology tools for diagnostic purposes. In this review, we highlight emerging synthetic biology platform technologies that are geared toward the generation of new antimicrobial therapies, diagnostics, and discovery channels. Copyright © 2016 Elsevier B.V. All rights reserved.

78 FR 19726 - Agency Information Collection Activities: Visa Waiver Program Carrier Agreement (CBP Form I-775)

Science.gov (United States)

2013-04-02

...: 1651-0110. Form Number: CBP Form I-775. Abstract: 8 U.S.C. 1223(a) of the Immigration and Nationality... promulgated at 8 CFR Part 233. A copy of CBP Form I-775 is accessible at: http://forms.cbp.gov/pdf/CBP_Form_I775.pdf . Current Actions: This submission is being made to extend the expiration date with no change...

GeneLab: A Systems Biology Platform for Spaceflight Omics Data

Science.gov (United States)

Reinsch, Sigrid S.; Lai, San-Huei; Chen, Rick; Thompson, Terri; Berrios, Daniel; Fogle, Homer; Marcu, Oana; Timucin, Linda; Chakravarty, Kaushik; Coughlan, Joseph

2015-01-01

NASA's mission includes expanding our understanding of biological systems to improve life on Earth and to enable long-duration human exploration of space. Resources to support large numbers of spaceflight investigations are limited. NASA's GeneLab project is maximizing the science output from these experiments by: (1) developing a unique public bioinformatics database that includes space bioscience relevant "omics" data (genomics, transcriptomics, proteomics, and metabolomics) and experimental metadata; (2) partnering with NASA-funded flight experiments through bio-sample sharing or sample augmentation to expedite omics data input to the GeneLab database; and (3) developing community-driven reference flight experiments. The first database, GeneLab Data System Version 1.0, went online in April 2015. V1.0 contains numerous flight datasets and has search and download capabilities. Version 2.0 will be released in 2016 and will link to analytic tools. In 2015 Genelab partnered with two Biological Research in Canisters experiments (BBRIC-19 and BRIC-20) which examine responses of Arabidopsis thaliana to spaceflight. GeneLab also partnered with Rodent Research-1 (RR1), the maiden flight to test the newly developed rodent habitat. GeneLab developed protocols for maxiumum yield of RNA, DNA and protein from precious RR-1 tissues harvested and preserved during the SpaceX-4 mission, as well as from tissues from mice that were frozen intact during spaceflight and later dissected. GeneLab is establishing partnerships with at least three planned flights for 2016. Organism-specific nationwide Science Definition Teams (SDTs) will define future GeneLab dedicated missions and ensure the broader scientific impact of the GeneLab missions. GeneLab ensures prompt release and open access to all high-throughput omics data from spaceflight and ground-based simulations of microgravity and radiation. Overall, GeneLab will facilitate the generation and query of parallel multi-omics data, and

Mobile based optical form evaluation system

Directory of Open Access Journals (Sweden)

Asım Sinan YÜKSEL

2016-05-01

Full Text Available Optical forms that contain multiple-choice answers are widely used both for electing students and evaluating student achievements in education systems in our country and worldwide. Optical forms are evaluated by employing optical mark recognition techniques through optical readers. High cost of these machines, limited access to them, long waiting time for evaluation results make the process hard for educationists working in cities or countries. In this study, a mobile application was developed for the educationists who own mobile phones or tablets for the purpose of evaluating students' answer sheets quickly and independent of location and optical readers. Optical form recognition, reading and evaluation processes are done on the image of student's answer sheet that is taken with the mobile phone or tablet of educationist. The Android based mobile application that we developed has a user-friendly interface, high success rate and is the first of our knowledge application that operates on mobile platforms in this field.

Genetics of monegenic forms of diabetes mellitus

Directory of Open Access Journals (Sweden)

Tamara Leonidovna Kuraeva

2011-03-01

Full Text Available It is universally recognized that autoimmune type 1 diabetes mellitus (DM is not the only form of this disease in children. Increasingly more children and adolescents present with DM2, MODY, and rarer syndromal forms of DM. The actual prevalence of DM other than DM1 in children and adolescents is unknown but may be estimated at 10%. Despite rare occurrence of genetic syndromes, they collectively account for almost 5% of DM cases among children. The rapid upgrowth of molecular biology opens up a wide range of possibilities for designating various symptom complexes as nosologically selfconsistent forms. New genetic syndromes associated with DM are annually described. It is important both to adequately identify and treat manifestations and complications of these syndromes in children and to provide relevant medico-genetic counseling and recommendations to the parents. Key words: non-immune diabetes mellitus, MODY, Wolfram syndrome, neonatal, syndromal forms

Demonstration of two-user, 10-Gbits/s optical code-division multiple-access system implemented by using cascaded long-period fiber gratings formed in dispersion-compensating fiber with inner-cladding structure

Science.gov (United States)

Kim, Sun-Jong; Eom, Tae-Jung; Kim, Tae-Young; Lee, Byeong Ha; Park, Chang-Soo

2005-09-01

A two-user, 10-Gbits/s optical code-division multiple-access system implemented by using cascaded long-period fiber gratings formed in a dispersion-compensating fiber (DCF) is demonstrated. Our results show that the sensitivity of cladding modes to the refractive index change on the cladding surface is greatly reduced by utilizing the inner-cladding mode of the DCF. Two pairs of encoder/decoder are constructed and the performance is evaluated by measuring bit error rate (BER). With an interferer, a BER of 1.5×10-12 is measured at a received optical power of -6 dBm.

Systems Biology — the Broader Perspective

Directory of Open Access Journals (Sweden)

Jonathan Bard

2013-06-01

Full Text Available Systems biology has two general aims: a narrow one, which is to discover how complex networks of proteins work, and a broader one, which is to integrate the molecular and network data with the generation and function of organism phenotypes. Doing all this involves complex methodologies, but underpinning the subject are more general conceptual problems about upwards and downwards causality, complexity and information storage, and their solutions provide the constraints within which these methodologies can be used. This essay considers these general aspects and the particular role of protein networks; their functional outputs are often the processes driving phenotypic change and physiological function—networks are, in a sense, the units of systems biology much as proteins are for molecular biology. It goes on to argue that the natural language for systems-biological descriptions of biological phenomena is the mathematical graph (a set of connected facts of the general form [process] (e.g., [activates] . Such graphs not only integrate events at different levels but emphasize the distributed nature of control as well as displaying a great deal of data. The implications and successes of these ideas for physiology, pharmacology, development and evolution are briefly considered. The paper concludes with some challenges for the future.

Restricting access to publications from funded research: ethical issues and solutions.

Science.gov (United States)

Manikandan, S; Vani, N Isai

2010-01-01

India is becoming one of the hubs of clinical research. Commensurate with these advances, the government funding for biomedical research in thrust areas is also increasing. The Indian Council of Medical Research (ICMR), Department of Biotechnology (DBT), Department of Science and Technology (DST) are some of the government organizations which provide financial support for various research projects. The results of the funded research projects are published in various international journals. Most of these journals have an access to paid subscribers only. Hence it is unethical to use the research grants from government (people's money) and not allow the scientific community free access to the results of the study. To tackle such issues, these agencies should sign the Berlin declaration and create open access repositories. A public access policy should be formulated and listed in JULIET. The funding bodies in India should also join Pubmed Central (PMC) to form PMC India so that every investigator who has received grants would submit the full text of the paper published from his study and these can be made freely accessible to everyone. Universities and research institutions should also develop institutional open access repositories. The public access policy has definitive advantages and should be implemented.

Restricting access to publications from funded research: Ethical issues and solutions

Directory of Open Access Journals (Sweden)

Manikandan S

2010-01-01

Full Text Available India is becoming one of the hubs of clinical research. Commensurate with these advances, the government funding for biomedical research in thrust areas is also increasing. The Indian Council of Medical Research (ICMR, Department of Biotechnology (DBT, Department of Science and Technology (DST are some of the government organizations which provide financial support for various research projects. The results of the funded research projects are published in various international journals. Most of these journals have an access to paid subscribers only. Hence it is unethical to use the research grants from government (people′s money and not allow the scientific community free access to the results of the study. To tackle such issues, these agencies should sign the Berlin declaration and create open access repositories. A public access policy should be formulated and listed in JULIET. The funding bodies in India should also join Pubmed Central (PMC to form PMC India so that every investigator who has received grants would submit the full text of the paper published from his study and these can be made freely accessible to everyone. Universities and research institutions should also develop institutional open access repositories. The public access policy has definitive advantages and should be implemented.

Open access

NARCIS (Netherlands)

Valkenburg, P.M.

2015-01-01

Open access week Van 19 tot en met 25 oktober 2015 vond wereldwijd de Open Access Week plaats. Tijdens deze week werden er over de hele wereld evenementen georganiseerd waar open access een rol speelt. Ook in Nederland zijn er diverse symposia, workshops en debatten georganiseerd zoals het debat in

[Value of preserved saphenous vein graft for the creation of access ports in hemodialyzed patients: report of 309 cases].

Science.gov (United States)

Schneider, Marc; Barrou, Benoît; Cluzel, Philippe; Hamani, Aziz; Bitker, Marc-Olivier; Richard, François

2003-09-01

Biological grafts are rarely used for the creation of vascular access, despite their many advantages. Our group prefers to use distal vascular accesses with interposition of a biological graft when direct access cannot be achieved. The objective of this study was to determine the long-term patency and the complication rate of a series of 309 vascular access procedures using a preserved saphenous (PS) vein homograft. 410 (27%) of the 1,500 vascular access procedures performed by our group required the use of a graft, including 376 PS vein homografts (25%). This retrospective study comprised complete data collection for 309 arteriovenous fistulas (AVF) using preserved saphenous (PS) vein graft in the forearm performed in 267 patients between 1985 and 2000. Primary patency was defined as the interval between creation of the vascular access and the first complication requiring surgical or radiological correction; secondary patency was defined as the interval between creation and loss of the graft, with or without revision of the fistula. Survival rates were calculated according to the Kaplan-Meier method. Inter-group comparison was performed by the Logrank test and analysis of variance was performed by logistic regression. Primary patency rates were 77%, 40% and 27% at 1,2 and 5 years, respectively. Secondary patency rates were 79% and 47% at 1 year and 5 years, respectively. The thrombosis rate was 42%. Two episodes of thrombosis occurred in 25% of grafts and 3 episodes were observed in 10% of cases. Infection rates were 1.9% postoperatively and 5% after dialysis, respectively. An aneurysm occurred on 10% of grafts. The operator's experience (RR = 1.58; p creation of vascular accesses with similar patency rates to those of prosthetic grafts. Vein grafts present a number of advantages, particularly a greater ease of use facilitating distal implantation of the graft and a low infection rate.

Open Access @ DTU

DEFF Research Database (Denmark)

Ekstrøm, Jeannette

Open Access is high on the agenda in Denmark and internationally. Denmark has announced a national strategy for Open Access that aims to achieve Open Access to 80% in 2017 and 100% in 2022 to peer review research articles. All public Danish funders as well as H2020 requires that all peer review...... articles that is an outcome of their funding will be Open Access. Uploading your full texts (your final author manuscript after review ) to DTU Orbit is a fundamental part of providing Open Access to your research. We are here to answer all your questions with regards to Open Access and related topics...... such as copyright, DTU Orbit, Open Access journals, APCs, Vouchers etc....

A practical workflow for making anatomical atlases for biological research.

Science.gov (United States)

Wan, Yong; Lewis, A Kelsey; Colasanto, Mary; van Langeveld, Mark; Kardon, Gabrielle; Hansen, Charles

2012-01-01

The anatomical atlas has been at the intersection of science and art for centuries. These atlases are essential to biological research, but high-quality atlases are often scarce. Recent advances in imaging technology have made high-quality 3D atlases possible. However, until now there has been a lack of practical workflows using standard tools to generate atlases from images of biological samples. With certain adaptations, CG artists' workflow and tools, traditionally used in the film industry, are practical for building high-quality biological atlases. Researchers have developed a workflow for generating a 3D anatomical atlas using accessible artists' tools. They used this workflow to build a mouse limb atlas for studying the musculoskeletal system's development. This research aims to raise the awareness of using artists' tools in scientific research and promote interdisciplinary collaborations between artists and scientists. This video (http://youtu.be/g61C-nia9ms) demonstrates a workflow for creating an anatomical atlas.

Biologics in Paediatric Crohn's Disease

Directory of Open Access Journals (Sweden)

Oliver Gouldthorpe

2011-01-01

Full Text Available Crohn's disease affects increasing numbers of children worldwide. Generally, childhood-onset disease runs a more severe course than in adults and has a greater impact on quality of life. Therapy in children must take account of a different set of risks for toxicity compared to adults, but also to their longevity. Biologic drugs present remarkable advantages in terms of disease control for children, especially in those whose disease cannot be controlled with conventional therapies, but their long-term risks are still being assessed. Data regarding biologic use in children is limited and mostly amounts to case series, but results have been promising, both in terms of controlling disease activity and improving growth parameters. Adverse reactions are infrequent in the short term, but loss of response is a long-term problem, particularly in children. More information is needed about very long term risks. Infliximab and adalimumab are the most studied agents in children, while there is relatively limited data on certolizumab and natalizumab. Further collection of data on these agents is still needed, but this should not restrict access to these agents for children in whom no other agent is effective.

Training Database Technology in DBMS MS Access

OpenAIRE

Nataliya Evgenievna Surkova

2015-01-01

The article describes the methodological issues of learning relational database technology and management systems relational databases. DBMS Microsoft Access is the primer for learning of DBMS. This methodology allows to generate some general cultural competence, such as the possession of the main methods, ways and means of production, storage and processing of information, computer skills as a means of managing information. Also must formed professional competence such as the ability to coll...

Monographs and Open Access

Directory of Open Access Journals (Sweden)

Geoffrey Crossick

2016-03-01

Full Text Available This article presents the project that I led for HEFCE on the implications of OA (open access for monographs and other long-form research publications. The likely requirement that books should be OA if submitted to the REF (Research Excellence Framework after next means that OA development must be based on an understanding of the importance of the monograph in the AHSS (arts, humanities and social sciences as well as the challenges involved in making the transition to online OA. The project focused on three issues and each is summarized in turn in the article: What is the place of the monograph and other long-form publications in AHSS disciplines that makes it so important? What is happening to the monograph and is there a crisis as some suggest? What are the issues involved in moving monographs into a digital and OA environment – not just the challenge of effective business models but also many other aspects of sustaining and enhancing the qualities of the monograph? These include third-party rights, technical challenges, licences and the need for international collaboration.