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Sample records for brn-2 pou domain

  1. Crystal Structure of the Dimeric Oct6 (Pou3fl) POU Domain Bound to Palindromic MORE DNA

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    R Jauch; S Choo; C Ng; P Kolatkar

    2011-12-31

    POU domains (named after their identification in Pit1, Oct1 unc86) are found in around 15 transcription factors encoded in mammalian genomes many of which feature prominently as key regulators at development bifurcations. For example, the POU III class Octamer binding protein 6 (Oct6) is expressed in embryonic stem cells and during neural development and drives the differentia5tion of myelinated cells in the central and peripheral nervous system. Defects in oct6 expression levels are linked to neurological disorders such as schizophrenia. POU proteins contain a bi-partite DNA binding domain that assembles on various DNA motifs with differentially configured subdomains. Intriguingly, alternative configurations of POU domains on different DNA sites were shown to affect the subsequent recruitment of transcriptional coactivators. Namely, binding of Oct1 to a Palindromic Oct-factor Recognition Element (PORE) was shown to facilitate the recruitment of the OBF1 coactivator whereas More of PORE (MORE) bound Oct1 does not. Moreover, Pit1 was shown to recruit the corepressor N-CoR only when bound to a variant MORE motif with a 2 bp half-site spacing. Therefore, POU proteins are seen as a paradigm for DNA induced allosteric effects on transcription factors modulating their regulatory potential. However, a big unresolved conundrum for the POU class and for most if not all other transcription factor classes is how highly similar proteins regulate different sets of genes causing fundamentally different biological responses. Ultimately, there must be subtle features enabling those factors to engage in contrasting molecular interactions in the cell. Thus, the dissection of the molecular details of the transcription-DNA recognition in general, and the formation of multimeric regulatory complexes, in particular, is highly desirable. To contribute to these efforts they solved the 2.05 {angstrom} crystal structure of Oct6 bound as a symmetrical homodimer to palindromic MORE DNA.

  2. The Master Neural Transcription Factor BRN2 Is an Androgen Receptor-Suppressed Driver of Neuroendocrine Differentiation in Prostate Cancer.

    Science.gov (United States)

    Bishop, Jennifer L; Thaper, Daksh; Vahid, Sepideh; Davies, Alastair; Ketola, Kirsi; Kuruma, Hidetoshi; Jama, Randy; Nip, Ka Mun; Angeles, Arkhjamil; Johnson, Fraser; Wyatt, Alexander W; Fazli, Ladan; Gleave, Martin E; Lin, Dong; Rubin, Mark A; Collins, Colin C; Wang, Yuzhuo; Beltran, Himisha; Zoubeidi, Amina

    2017-01-01

    Mechanisms controlling the emergence of lethal neuroendocrine prostate cancer (NEPC), especially those that are consequences of treatment-induced suppression of the androgen receptor (AR), remain elusive. Using a unique model of AR pathway inhibitor-resistant prostate cancer, we identified AR-dependent control of the neural transcription factor BRN2 (encoded by POU3F2) as a major driver of NEPC and aggressive tumor growth, both in vitro and in vivo Mechanistic studies showed that AR directly suppresses BRN2 transcription, which is required for NEPC, and BRN2-dependent regulation of the NEPC marker SOX2. Underscoring its inverse correlation with classic AR activity in clinical samples, BRN2 expression was highest in NEPC tumors and was significantly increased in castration-resistant prostate cancer compared with adenocarcinoma, especially in patients with low serum PSA. These data reveal a novel mechanism of AR-dependent control of NEPC and suggest that targeting BRN2 is a strategy to treat or prevent neuroendocrine differentiation in prostate tumors.

  3. Missense Mutation of POU Domain Class 3 Transcription Factor 3 in Pou3f3L423P Mice Causes Reduced Nephron Number and Impaired Development of the Thick Ascending Limb of the Loop of Henle.

    Directory of Open Access Journals (Sweden)

    Alexandra Rieger

    Full Text Available During nephrogenesis, POU domain class 3 transcription factor 3 (POU3F3 aka BRN1 is critically involved in development of distinct nephron segments, including the thick ascending limb of the loop of Henle (TAL. Deficiency of POU3F3 in knock-out mice leads to underdevelopment of the TAL, lack of differentiation of TAL cells, and perinatal death due to renal failure. Pou3f3L423P mutant mice, which were established in the Munich ENU Mouse Mutagenesis Project, carry a recessive point mutation in the homeobox domain of POU3F3. Homozygous Pou3f3L423P mutants are viable and fertile. The present study used functional, as well as qualitative and quantitative morphological analyses to characterize the renal phenotype of juvenile (12 days and aged (60 weeks homo- and heterozygous Pou3f3L423P mutant mice and age-matched wild-type controls. In both age groups, homozygous mutants vs. control mice displayed significantly smaller kidney volumes, decreased nephron numbers and mean glomerular volumes, smaller TAL volumes, as well as lower volume densities of the TAL in the kidney. No histological or ultrastructural lesions of TAL cells or glomerular cells were observed in homozygous mutant mice. Aged homozygous mutants displayed increased serum urea concentrations and reduced specific urine gravity, but no evidence of glomerular dysfunction. These results confirm the role of POU3F3 in development and function of the TAL and provide new evidence for its involvement in regulation of the nephron number in the kidney. Therefore, Pou3f3L423P mutant mice represent a valuable research model for further analyses of POU3F3 functions, or for nephrological studies examining the role of congenital low nephron numbers.

  4. Missense Mutation of POU Domain Class 3 Transcription Factor 3 in Pou3f3L423P Mice Causes Reduced Nephron Number and Impaired Development of the Thick Ascending Limb of the Loop of Henle

    Science.gov (United States)

    Rieger, Alexandra; Kemter, Elisabeth; Kumar, Sudhir; Popper, Bastian; Aigner, Bernhard; Wolf, Eckhard; Wanke, Rüdiger; Blutke, Andreas

    2016-01-01

    During nephrogenesis, POU domain class 3 transcription factor 3 (POU3F3 aka BRN1) is critically involved in development of distinct nephron segments, including the thick ascending limb of the loop of Henle (TAL). Deficiency of POU3F3 in knock-out mice leads to underdevelopment of the TAL, lack of differentiation of TAL cells, and perinatal death due to renal failure. Pou3f3L423P mutant mice, which were established in the Munich ENU Mouse Mutagenesis Project, carry a recessive point mutation in the homeobox domain of POU3F3. Homozygous Pou3f3L423P mutants are viable and fertile. The present study used functional, as well as qualitative and quantitative morphological analyses to characterize the renal phenotype of juvenile (12 days) and aged (60 weeks) homo- and heterozygous Pou3f3L423P mutant mice and age-matched wild-type controls. In both age groups, homozygous mutants vs. control mice displayed significantly smaller kidney volumes, decreased nephron numbers and mean glomerular volumes, smaller TAL volumes, as well as lower volume densities of the TAL in the kidney. No histological or ultrastructural lesions of TAL cells or glomerular cells were observed in homozygous mutant mice. Aged homozygous mutants displayed increased serum urea concentrations and reduced specific urine gravity, but no evidence of glomerular dysfunction. These results confirm the role of POU3F3 in development and function of the TAL and provide new evidence for its involvement in regulation of the nephron number in the kidney. Therefore, Pou3f3L423P mutant mice represent a valuable research model for further analyses of POU3F3 functions, or for nephrological studies examining the role of congenital low nephron numbers. PMID:27420727

  5. Epoc-1: a POU-domain gene expressed in murine epidermal basal cells and thymic stromal cells.

    Science.gov (United States)

    Yukawa, K; Yasui, T; Yamamoto, A; Shiku, H; Kishimoto, T; Kikutani, H

    1993-11-15

    POU-domain transcription factors are known as developmental regulators which control organ development and cell phenotypes. In order to clarify the roles of POU-domain transcription factors in cell differentiation, we cloned a novel POU family gene, Epoc-1, from a murine thymus cDNA library. The amino acid (aa) sequence of the POU-specific domain of Epoc-1 is almost identical to those of Oct-1 and Oct-2. However, within the POU-homeodomain, 13 out of 60 aa differ between Epoc-1 and Oct-2. Recombinant Epoc-1 products were found to bind specifically to the octamer sequence. Epoc-1 was found to be expressed in skin, thymus, stomach and testis. In situ hybridization experiments and RNase protection assays indicated that Epoc-1 is expressed in the epidermal basal cells of the skin, which contain stem cells unipotent for keratinocyte differentiation and in thymic stromal elements. These results suggest that Epoc-1 might be one of the developmental regulators which controls epidermal development and thymic organogenesis.

  6. Characterization of the regulatory domains of the human skn-1a/Epoc-1/Oct-11 POU transcription factor.

    Science.gov (United States)

    Hildesheim, J; Foster, R A; Chamberlin, M E; Vogel, J C

    1999-09-10

    The Skn-1a POU transcription factor is primarily expressed in keratinocytes of murine embryonic and adult epidermis. Although some POU factors expressed in a tissue-specific manner are important for normal differentiation, the biological function of Skn-1a remains unknown. Previous in vitro studies indicate that Skn-1a has the ability to transactivate markers of keratinocyte differentiation. In this study, we have characterized Skn-1a's transactivation domain(s) and engineered a dominant negative protein that lacked this transactivation domain. Deletional analysis of the human homologue of Skn-1a with three target promoters revealed the presence of two functional domains: a primary C-terminal transactivation domain and a combined N-terminal inhibitory domain and transactivation domain. Skn-1a lacking the C-terminal region completely lost transactivation ability, irrespective of the promoter tested, and was able to block transactivation by normal Skn-1a in competition assays. Compared with full-length, Skn-1a lacking the N-terminal region demonstrated either increased transactivation (bovine cytokeratin 6 promoter), comparable transactivation (human papillomavirus type 1a long control region), or loss of transactivation (human papillomavirus type 18 long control region). The identification of a primary C-terminal transactivation domain enabled us to generate a dominant negative Skn-1a factor, which will be useful in the quest for a better understanding of this keratinocyte-specific gene regulator.

  7. Selective influence of Sox2 on POU transcription factor binding in embryonic and neural stem cells.

    Science.gov (United States)

    Mistri, Tapan Kumar; Devasia, Arun George; Chu, Lee Thean; Ng, Wei Ping; Halbritter, Florian; Colby, Douglas; Martynoga, Ben; Tomlinson, Simon R; Chambers, Ian; Robson, Paul; Wohland, Thorsten

    2015-09-01

    Embryonic stem cell (ESC) identity is orchestrated by co-operativity between the transcription factors (TFs) Sox2 and the class V POU-TF Oct4 at composite Sox/Oct motifs. Neural stem cells (NSCs) lack Oct4 but express Sox2 and class III POU-TFs Oct6, Brn1 and Brn2. This raises the question of how Sox2 interacts with POU-TFs to transcriptionally specify ESCs versus NSCs. Here, we show that Oct4 alone binds the Sox/Oct motif and the octamer-containing palindromic MORE equally well. Sox2 binding selectively increases the affinity of Oct4 for the Sox/Oct motif. In contrast, Oct6 binds preferentially to MORE and is unaffected by Sox2. ChIP-Seq in NSCs shows the MORE to be the most enriched motif for class III POU-TFs, including MORE subtypes, and that the Sox/Oct motif is not enriched. These results suggest that in NSCs, co-operativity between Sox2 and class III POU-TFs may not occur and that POU-TF-driven transcription uses predominantly the MORE cis architecture. Thus, distinct interactions between Sox2 and POU-TF subclasses distinguish pluripotent ESCs from multipotent NSCs, providing molecular insight into how Oct4 alone can convert NSCs to pluripotency.

  8. SOX2 co-occupies distal enhancer elements with distinct POU factors in ESCs and NPCs to specify cell state.

    Directory of Open Access Journals (Sweden)

    Michael A Lodato

    Full Text Available SOX2 is a master regulator of both pluripotent embryonic stem cells (ESCs and multipotent neural progenitor cells (NPCs; however, we currently lack a detailed understanding of how SOX2 controls these distinct stem cell populations. Here we show by genome-wide analysis that, while SOX2 bound to a distinct set of gene promoters in ESCs and NPCs, the majority of regions coincided with unique distal enhancer elements, important cis-acting regulators of tissue-specific gene expression programs. Notably, SOX2 bound the same consensus DNA motif in both cell types, suggesting that additional factors contribute to target specificity. We found that, similar to its association with OCT4 (Pou5f1 in ESCs, the related POU family member BRN2 (Pou3f2 co-occupied a large set of putative distal enhancers with SOX2 in NPCs. Forced expression of BRN2 in ESCs led to functional recruitment of SOX2 to a subset of NPC-specific targets and to precocious differentiation toward a neural-like state. Further analysis of the bound sequences revealed differences in the distances of SOX and POU peaks in the two cell types and identified motifs for additional transcription factors. Together, these data suggest that SOX2 controls a larger network of genes than previously anticipated through binding of distal enhancers and that transitions in POU partner factors may control tissue-specific transcriptional programs. Our findings have important implications for understanding lineage specification and somatic cell reprogramming, where SOX2, OCT4, and BRN2 have been shown to be key factors.

  9. NFIB Mediates BRN2 Driven Melanoma Cell Migration and Invasion Through Regulation of EZH2 and MITF

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    Mitchell E. Fane

    2017-02-01

    Full Text Available While invasion and metastasis of tumour cells are the principle factor responsible for cancer related deaths, the mechanisms governing the process remain poorly defined. Moreover, phenotypic divergence of sub-populations of tumour cells is known to underpin alternative behaviors linked to tumour progression such as proliferation, survival and invasion. In the context of melanoma, heterogeneity between two transcription factors, BRN2 and MITF, has been associated with phenotypic switching between predominantly invasive and proliferative behaviors respectively. Epigenetic changes, in response to external cues, have been proposed to underpin this process, however the mechanism by which the phenotypic switch occurs is unclear. Here we report the identification of the NFIB transcription factor as a novel downstream effector of BRN2 function in melanoma cells linked to the migratory and invasive characteristics of these cells. Furthermore, the function of NFIB appears to drive an invasive phenotype through an epigenetic mechanism achieved via the upregulation of the polycomb group protein EZH2. A notable target of NFIB mediated up-regulation of EZH2 is decreased MITF expression, which further promotes a less proliferative, more invasive phenotype. Together our data reveal that NFIB has the ability to promote dynamic changes in the chromatin state of melanoma cells to facilitate migration, invasion and metastasis.

  10. Characterization and expression pattern ofpouII1,a novel class Ⅱ POU gene in zebrafish

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    POU domain transcription factors that share a conserved DNA-binding domain, POU domain, are important regulators for the development of embryos in various animal species. A novel zebrafish POU domain gene, pouII1has been cloned. The pouII1 cDNA is 2080 kb in length and encodes a putative polypeptide of 596 amino acids. It is placed into class Ⅱ POU family since it shares a high degree of homology with the known members of this family.Northern hybridization identifies a major transcript of approximately 2.1 kb that was present in embryos at the single-cell stage throughout 24 h postfertilizafion. The whole mountin situ hybridization shows thatpouII1 transcripts are present in the single-cell embryos, strongly suggesting that these transcripts are of maternal origin. During early development of the embryos, pouII1 mRNA was ubiquitously distributed in all cells and tissues. The transcripts are gradually limited to brains and become completely undetectable by day 3. To our knowledge, pouII1 is the first class Ⅱ POU gene identified in zebrafish.``

  11. Characterization of chicken octamer-binding proteins demonstrates that POU domain-containing homeobox transcription factors have been highly conserved during vertebrate evolution

    Energy Technology Data Exchange (ETDEWEB)

    Petryniak, B.; Postema, C.E.; McCormack, W.T.; Thompson, C.B. (Univ. of Michigan Medical Center, Ann Arbor (USA)); Staudt, L.M. (National Cancer Institute, Bethesda, MD (USA))

    1990-02-01

    The DNA sequence motif ATTTGCAT (octamer) or its inverse complement has been identified as an evolutionarily conserved element in the promoter region of immunoglobulin genes. Two major DNA-binding proteins that bind in a sequence-specific manner to the octamer DNA sequence have been identified in mammalian species--a ubiquitously expressed protein (Oct-1) and a lymphoid-specific protein (Oct-2). During characterization of the promoter region of the chicken immunoglobulin light chain gene, the authors identified two homologous octamer-binding proteins in chicken B cells. when the cloning of the human gene for Oct-2 revealed it to be a member of a distinct family of homeobox genes, they sought to determine if the human Oct-2 cDNA could be used to identify homologous chicken homeobox genes. Using a human Oct-2 homeobox-specific DNA probe, they were able to identify 6-10 homeobox-containing genes in the chicken genome, demonstrating that the Oct-2-related subfamily of homeobox genes exists in avian species. DNA sequence analysis revealed it to be the chicken homologue of the human Oct-1 gene. Together, the data show that the POU-containing subfamily of homeobox genes have been highly conserved during vertebrate evolution, apparently as a result of selection for their DNA-binding and transcriptional regulatory properties.

  12. The POU-er of gene nomenclature

    DEFF Research Database (Denmark)

    Frankenberg, Stephen R; Frank, Dale; Harland, Richard

    2014-01-01

    this family provides insight into the evolution of early embryonic potency. Here, we seek to clarify the relationship between POU5F1 homologues in the vertebrate lineage, both phylogenetically and functionally. We resolve the confusion over the identity of the zebrafish gene, which was originally named pou2...

  13. Analysis list: Pou3f1 [Chip-atlas[Archive

    Lifescience Database Archive (English)

    Full Text Available Pou3f1 Pluripotent stem cell + mm9 http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/target/Pou3f1....1.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/target/Pou3f1.5.tsv http://dbarchive.biosc...iencedbc.jp/kyushu-u/mm9/target/Pou3f1.10.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/colo/Pou3f1.Plu

  14. Analysis list: Pou5f1 [Chip-atlas[Archive

    Lifescience Database Archive (English)

    Full Text Available Pou5f1 Embryonic fibroblast,Pluripotent stem cell + mm9 http://dbarchive.bioscience...dbc.jp/kyushu-u/mm9/target/Pou5f1.1.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/target/Pou5f1.5.tsv h...ttp://dbarchive.biosciencedbc.jp/kyushu-u/mm9/target/Pou5f1.10.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/colo/Pou5f1....Embryonic_fibroblast.tsv,http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/colo/Pou5f1

  15. Pou3f4-mediated regulation of ephrin-b2 controls temporal bone development in the mouse.

    Directory of Open Access Journals (Sweden)

    Steven Raft

    Full Text Available The temporal bone encases conductive and sensorineural elements of the ear. Mutations of POU3F4 are associated with unique temporal bone abnormalities and X-linked mixed deafness (DFNX2/DFN3. However, the target genes and developmental processes controlled by POU3F4 transcription factor activity have remained largely uncharacterized. Ephrin-B2 (Efnb2 is a signaling molecule with well-documented effects on cell adhesion, proliferation, and migration. Our analyses of targeted mouse mutants revealed that Efnb2 loss-of-function phenocopies temporal bone abnormalities of Pou3f4 hemizygous null neonates: qualitatively identical malformations of the stapes, styloid process, internal auditory canal, and cochlear capsule were present in both mutants. Using failed/insufficient separation of the stapes and styloid process as a quantitative trait, we found that single gene Efnb2 loss-of-function and compound Pou3f4/Efnb2 loss-of-function caused a more severe phenotype than single gene Pou3f4 loss-of-function. Pou3f4 and Efnb2 gene expression domains overlapped at the site of impending stapes-styloid process separation and at subcapsular mesenchyme surrounding the cochlea; at both these sites, Efnb2 expression was attenuated in Pou3f4 hemizygous null mutants relative to control. Results of immunoprecipitation experiments using chromatin isolated from nascent middle ear mesenchyme supported the hypothesis of a physical association between Pou3f4 and specific non-coding sequence of Efnb2. We propose that Efnb2 is a target of Pou3f4 transcription factor activity and an effector of mesenchymal patterning during temporal bone development.

  16. Promoter analysis of the rabbit POU5F1 gene and its expression in preimplantation stage embryos

    Directory of Open Access Journals (Sweden)

    Bock Istvan

    2009-09-01

    Full Text Available Abstract Background The POU5F1 gene encodes the octamer-binding transcription factor-4 (Oct4. It is crucial in the regulation of pluripotency during embryonic development and widely used as molecular marker of embryonic stem cells (ESCs. The objective of this study was to identify and to analyse the promoter region of rabbit POU5F1 gene; furthermore to examine its expression pattern in preimplantation stage rabbit embryos. Results The upstream region of rabbit POU5F1 was subcloned sequenced and four highly conserved promoter regions (CR1-4 were identified. The highest degree of similarity on sequence level was found among the conserved domains between rabbit and human. Among the enhancers the proximal enhancer region (PE-1A exhibited the highest degree of homology (96.4%. Furthermore, the CR4 regulator domain containing the distal enhancer (DE-2A was responsible for stem cell-specific expression. Also, BAC library screen revealed the existence of a processed pseudogene of rabbit POU5F1. The results of quantitative real-time PCR experiments showed that POU5F1 mRNA was abundantly present in oocytes and zygotes, but it was gradually reduced until the activation of the embryonic genome, thereafter a continuous increase in POU5F1 mRNA level was observed until blastocyst stage. By using the XYClone laser system the inner cell mass (ICM and trophoblast portions of embryos were microdissected and examined separately and POU5F1 mRNA was detected in both cell types. Conclusion In this study we provide a comparative sequence analysis of the regulatory region of rabbit POU5F1 gene. Our data suggest that the POU5F1 gene is strictly regulated during early mammalian development. We proposed that the well conserved CR4 region containing the DE-2A enhancer is responsible for the highly conserved ESC specific gene expression. Notably, we are the first to report that the rabbit POU5F1 is not restricted to ICM cells only, but it is expressed in trophoblast cells as

  17. Analysis list: Pou2f1 [Chip-atlas[Archive

    Lifescience Database Archive (English)

    Full Text Available Pou2f1 Blood + mm9 http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/target/Pou2f1.1.t...sv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/target/Pou2f1.5.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/target/Pou2f1....10.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/colo/Pou2f1.Blood.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/colo/Blood.gml ...

  18. Analysis list: Pou2af1 [Chip-atlas[Archive

    Lifescience Database Archive (English)

    Full Text Available Pou2af1 Blood + mm9 http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/target/Pou2af1.1....tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/target/Pou2af1.5.tsv http://dbarchive.biosciencedbc.jp/k...yushu-u/mm9/target/Pou2af1.10.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/colo/Pou2af1.Blood.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/colo/Blood.gml ...

  19. Analysis list: Pou3f2 [Chip-atlas[Archive

    Lifescience Database Archive (English)

    Full Text Available Pou3f2 Embryonic fibroblast,Neural,Pluripotent stem cell + mm9 http://dbarchive.bio...jp/kyushu-u/mm9/colo/Pou3f2.Neural.tsv,http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/colo/Pou3f2.Pluripoten...e.biosciencedbc.jp/kyushu-u/mm9/colo/Neural.gml,http://dbarchive.biosciencedbc.jp/kyushu-u/mm9/colo/Pluripotent_stem_cell.gml ...

  20. A novel frameshift mutation of POU4F3 gene associated with autosomal dominant non-syndromic hearing loss

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Hee Keun [Department of Biology, College of Natural Sciences, Kyungpook National University, Daegu (Korea, Republic of); Park, Hong-Joon [Soree Ear Clinic, Seoul (Korea, Republic of); Lee, Kyu-Yup [Vestibulocochlear Research Center, College of Medicine, Wonkwang University, Iksan (Korea, Republic of); Park, Rekil, E-mail: rkpark@wku.ac.kr [Department of Otorhinolaryngology-Head and Neck Surgery, College of Medicine, Kyungpook National University, Daegu (Korea, Republic of); Kim, Un-Kyung, E-mail: kimuk@knu.ac.kr [Department of Biology, College of Natural Sciences, Kyungpook National University, Daegu (Korea, Republic of)

    2010-06-04

    Autosomal dominant mutations in the transcription factor POU4F3 gene are associated with non-syndromic hearing loss in humans; however, there have been few reports of mutations in this gene worldwide. We performed a mutation analysis of the POU4F3 gene in 42 unrelated Koreans with autosomal dominant non-syndromic hearing loss, identifying a novel 14-bp deletion mutation in exon 2 (c.662del14) in one patient. Audiometric examination revealed severe bilateral sensorineural hearing loss in this patient. The novel mutation led to a truncated protein that lacked both functional POU domains. We further investigated the functional distinction between wild-type and mutant POU4F3 proteins using in vitro assays. The wild-type protein was completely localized in the nucleus, while the truncation of protein seriously affected its nuclear localization. In addition, the mutant failed to activate reporter gene expression. This is the first report of a POU4F3 mutation in Asia, and moreover our data suggest that further investigation will need to delineate ethnicity-specific genetic background for autosomal dominant non-syndromic hearing loss within Asian populations.

  1. Analysis list: POU5F1 [Chip-atlas[Archive

    Lifescience Database Archive (English)

    Full Text Available POU5F1 Epidermis,Pluripotent stem cell + hg19 http://dbarchive.biosciencedbc.jp/kyu...archive.biosciencedbc.jp/kyushu-u/hg19/target/POU5F1.10.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/colo/POU5F1.Epidermis...U5F1.Pluripotent_stem_cell.tsv http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/colo/Epidermis.gml,http://dbarchive.biosciencedbc.jp/kyushu-u/hg19/colo/Pluripotent_stem_cell.gml ...

  2. Clinical and molecular characterizations of novel POU3F4 mutations reveal that DFN3 is due to null function of POU3F4 protein.

    NARCIS (Netherlands)

    Lee, H.K.; Song, M.H.; Kang, M.; Lee, J.T.; Kong, K.A.; Choi, S.J.; Lee, K.Y.; Venselaar, H.; Vriend, G.; Lee, W.S.; Park, H.J.; Kwon, T.K.; Bok, J.; Kim, U.K.

    2009-01-01

    X-linked deafness type 3 (DFN3), the most prevalent X-linked form of hereditary deafness, is caused by mutations in the POU3F4 locus, which encodes a member of the POU family of transcription factors. Despite numerous reports on clinical evaluations and genetic analyses describing novel POU3F4 mutat

  3. POU/POE TREATMENT OF ARSENIC IN GROUND WATER

    Science.gov (United States)

    Point-of-use/Point-of-entry (POU/POE) arsenic removal systems were installed in seventeen homes that were found to have high levels of arsenic (50-480ug/L) in their well water. This presetation will describe the process and the problems encountered in selecting the treatment syst...

  4. Generation of feeder-free pig induced pluripotent stem cells without Pou5f1.

    Science.gov (United States)

    Montserrat, Nuria; de Oñate, Lorena; Garreta, Elena; González, Federico; Adamo, Antonio; Eguizábal, Cristina; Häfner, Sophia; Vassena, Rita; Izpisua Belmonte, Juan Carlos

    2012-01-01

    The pig represents an ideal large-animal model, intermediate between rodents and humans, for the preclinical assessment of emerging cell therapies. As no validated pig embryonic stem (pES) cell lines have been derived so far, pig induced pluripotent stem cells (piPSCs) should offer an alternative source of undifferentiated cells to advance regenerative medicine research from bench to clinical trial. We report here for the first time the derivation of piPSCs from adult fibroblast with only three transcription factors: Sox2 (sex determining region Y-box 2), Klf4 (Krüppel-like factor 4), and c-Myc (avian myelocytomatosis viral oncogene homolog). We have been able to demonstrate that exogenous Pou5f1 (POU domain class 5 transcription factor 1; abbreviated as Octamer-4: Oct4) is dispensable to achieve and maintain pluripotency in the generation of piPSCs. To the best of our knowledge, this is also the first report of somatic reprogramming in any species without the overexpression, either directly or indirectly, of Oct4. Moreover, we were able to generate piPSCs without the use of feeder cells, approaching thus xeno-free conditions. Our work paves the way for the derivation of clinical grade piPSCs for regenerative medicine.

  5. The Oct4 homologue PouV and Nanog regulate pluripotency in chicken embryonic stem cells.

    Science.gov (United States)

    Lavial, Fabrice; Acloque, Hervé; Bertocchini, Federica; Macleod, David J; Boast, Sharon; Bachelard, Elodie; Montillet, Guillaume; Thenot, Sandrine; Sang, Helen M; Stern, Claudio D; Samarut, Jacques; Pain, Bertrand

    2007-10-01

    Embryonic stem cells (ESC) have been isolated from pregastrulation mammalian embryos. The maintenance of their pluripotency and ability to self-renew has been shown to be governed by the transcription factors Oct4 (Pou5f1) and Nanog. Oct4 appears to control cell-fate decisions of ESC in vitro and the choice between embryonic and trophectoderm cell fates in vivo. In non-mammalian vertebrates, the existence and functions of these factors are still under debate, although the identification of the zebrafish pou2 (spg; pou5f1) and Xenopus Pou91 (XlPou91) genes, which have important roles in maintaining uncommitted putative stem cell populations during early development, has suggested that these factors have common functions in all vertebrates. Using chicken ESC (cESC), which display similar properties of pluripotency and long-term self-renewal to mammalian ESC, we demonstrated the existence of an avian homologue of Oct4 that we call chicken PouV (cPouV). We established that cPouV and the chicken Nanog gene are required for the maintenance of pluripotency and self-renewal of cESC. These findings show that the mechanisms by which Oct4 and Nanog regulate pluripotency and self-renewal are not exclusive to mammals.

  6. 牛、羊POU1F1基因的研究进展%The Advanced Progress of POU1F1 Gene in Bovine and Caprine

    Institute of Scientific and Technical Information of China (English)

    胡志焕

    2008-01-01

    POU1F1基因是 POU 基因家族的重要成员.POU1F1蛋白在哺乳动物胚胎分化和生长发育过程中起着关键作用.本文综述POU1F1基因的结构特征与功能,POU1F1蛋白的结构特征与作用方式,POU1F1蛋白的调控机制以及近年来对牛、羊POUlFl基因遗传变异及其与经济性状关系研究的最新进展.

  7. Molecular analysis and its expression of a pou homeobox protein gene during development and in response to salinity stress from brine shrimp, Artemia sinica.

    Science.gov (United States)

    Wang, Jia-Qing; Hou, Lin; Yi, Nan; Zhang, Riu-Feng; Zou, Xiang-Yang

    2012-01-01

    Brine shrimps of the genus Artemia are aquatic species of economic importance because of their important significance to aquaculture and are used as a model species in physiology and developmental biology. Research on Artemia POU homeobox gene function will enhance our understanding of the physiological and developmental processes of POU homeobox gene in animals. Herein, a full-length cDNA encoding an Artemia POU homeobox protein gene 1 (APH-1) from Artemia sinica (designated as As-APH-1) was cloned and characterized by a reverse-transcription polymerase chain reaction (RT-PCR) and rapid amplification of cDNA end (RACE) method. The As-APH-1 gene encoded a protein of 388 amino acid polypeptide with a calculated molecular mass of 42.85kDa and an isoelectric point of 6.90 and the protein belongs to the POU III family. Multiple sequence alignments revealed that A. sinica As-APH-1 protein sequence shared a conserved POU homeobox domain with other species. The early and persistent expression of As-APH-1 in the naupliar stages by semi-quantitative RT-PCR and whole-mount embryonic immunohistochemistry suggest that As-APH-1 functions very early in the salt gland and may be required continuously in this organ. Later in development, expression of As-APH-1 begins to dramatically decrease and disappear in salt gland of the sub-adult Artemia. In addition, we also discovered that As-APH-1 increased obviously as the salinity increased, indicating that As-APH-1 might be used as a good indicator of salinity stress. In summary, we are the first to identify the As-APH-1 gene and to determine its gene expression patterns in early embryogenesis stages and in different salinity stress in brine shrimp, A. sinica. The result of expression of As-APH-1 affected by salinity changes will provide us further understanding of the underlying mechanisms of osmoregulation in Artemia early embryonic development.

  8. Class III/IV POU transcription factors expressed in small cell lung cancer cells are involved in proneural/neuroendocrine differentiation.

    Science.gov (United States)

    Ishii, Jun; Sato, Hanako; Yazawa, Takuya; Shishido-Hara, Yukiko; Hiramatsu, Chie; Nakatani, Yukio; Kamma, Hiroshi

    2014-09-01

    One-third of lung malignancies demonstrate a proneural/neuroendocrine phenotype or type of differentiation. However, it has not been clearly elucidated how proneural/neuroendocrine differentiation is controlled in lung cancers. We recently demonstrated that the POU3F2 gene plays a significant role in proneural/neuroendocrine differentiation of lung cancers. Because class III POU genes (POU3F1, POU3F2, POU3F3, and POU3F4) and class IV POU genes (POU4F1, POU4F2, and POU4F3) share similar properties in neural development, we analyzed the association between class III/IV POU genes and a proneural/neuroendocrine phenotype in lung cancers using seven small cell lung cancer (SCLC) cell lines and twelve non-SCLC (NSCLC) cell lines. Class III/IV POU gene expression was generally restricted to SCLC cells. However, the forced expression of class III/IV POU genes in the NSCLC cell lines induced the expression of neuroendocrine-specific markers (neural call adhesion molecule 1, synaptophysin, and chromogranin A) and proneural transcription factors (achaete-scute homolog-like 1, NeuroD1, and thyroid transcription factor 1) in various degrees. Furthermore, each class III/IV POU gene induced other class III/IV POU genes, suggesting the mutual induction of class III/IV POU genes. These findings suggest that the expression of class III/IV POU genes is important for the proneural/neuroendocrine differentiation of lung cancer cells.

  9. Regional repression of a Drosophila POU box gene in the endoderm involves inductive interactions between germ layers.

    Science.gov (United States)

    Affolter, M; Walldorf, U; Kloter, U; Schier, A F; Gehring, W J

    1993-04-01

    An induction process occurring between the mesodermal and the endodermal germ layers has recently been described in the regulation of the Drosophila homeotic gene labial (lab). We report here that proper spatial regulation of the Drosophila POU box gene pdm-1 products also involves interaction between these two germ layers. pdm-1 transcripts are initially present in both the anterior and the posterior endodermal midgut primordia. Upon fusion of the two primordia, transcripts disappear from two regions in the endoderm, a central domain and an anterior domain. The anterior repression domain of pdm-1 is independent of the expression of known homeotic genes and genes encoding secreted signalling molecules in the visceral mesoderm, both for its positioning and its repression. Repression in the central domain requires both the homeotic gene Ultrabithorax (Ubx) and the decapentaplegic (dpp) gene, which encodes a secreted protein. Both of these genes are also required for lab induction. However, the analysis of pdm-1 expression in various mutant backgrounds indicates that the regulation of lab and pdm-1 across germ layers is controlled by different genetic cascades. Our study indicates that dpp is not the signal that dictates central pdm-1 repression across germ layers and suggests that in the same midgut region, different signalling pathways result in the differential activation or repression of potential transcription factors.

  10. The POU factor ventral veins lacking/Drifter directs the timing of metamorphosis through ecdysteroid and juvenile hormone signaling.

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    CeCe Cheng

    2014-06-01

    Full Text Available Although endocrine changes are known to modulate the timing of major developmental transitions, the genetic mechanisms underlying these changes remain poorly understood. In insects, two developmental hormones, juvenile hormone (JH and ecdysteroids, are coordinated with each other to induce developmental changes associated with metamorphosis. However, the regulation underlying the coordination of JH and ecdysteroid synthesis remains elusive. Here, we examined the function of a homolog of the vertebrate POU domain protein, Ventral veins lacking (Vvl/Drifter, in regulating both of these hormonal pathways in the red flour beetle, Tribolium castaneum (Tenebrionidae. RNA interference-mediated silencing of vvl expression led to both precocious metamorphosis and inhibition of molting in the larva. Ectopic application of a JH analog on vvl knockdown larvae delayed the onset of metamorphosis and led to a prolonged larval stage, indicating that Vvl acts upstream of JH signaling. Accordingly, vvl knockdown also reduced the expression of a JH biosynthesis gene, JH acid methyltransferase 3 (jhamt3. In addition, ecdysone titer and the expression of the ecdysone response gene, hormone receptor 3 (HR3, were reduced in vvl knockdown larvae. The expression of the ecdysone biosynthesis gene phantom (phm and spook (spo were reduced in vvl knockdown larvae in the anterior and posterior halves, respectively, indicating that Vvl might influence ecdysone biosynthesis in both the prothoracic gland and additional endocrine sources. Injection of 20-hydroxyecdysone (20E into vvl knockdown larvae could restore the expression of HR3 although molting was never restored. These findings suggest that Vvl coordinates both JH and ecdysteroid biosynthesis as well as molting behavior to influence molting and the timing of metamorphosis. Thus, in both vertebrates and insects, POU factors modulate the production of major neuroendocrine regulators during sexual maturation.

  11. Reduction of Microbial and Chemical Contaminants in Water Using POU/POE & Mobile Treatment Technologies

    Science.gov (United States)

    POU/POE may be a cost-effective option for reductions of a particular chemical to achieve water quality compliance under certain situations and given restrictions. Proactive consumers seeking to reduce exposure to potential pathogens, trace chemicals, and nanoparticles not curre...

  12. Quantitative imaging reveals real-time Pou5f3–Nanog complexes driving dorsoventral mesendoderm patterning in zebrafish

    Science.gov (United States)

    Perez-Camps, Mireia; Tian, Jing; Chng, Serene C; Sem, Kai Pin; Sudhaharan, Thankiah; Teh, Cathleen; Wachsmuth, Malte; Korzh, Vladimir; Ahmed, Sohail; Reversade, Bruno

    2016-01-01

    Formation of the three embryonic germ layers is a fundamental developmental process that initiates differentiation. How the zebrafish pluripotency factor Pou5f3 (homologous to mammalian Oct4) drives lineage commitment is unclear. Here, we introduce fluorescence lifetime imaging microscopy and fluorescence correlation spectroscopy to assess the formation of Pou5f3 complexes with other transcription factors in real-time in gastrulating zebrafish embryos. We show, at single-cell resolution in vivo, that Pou5f3 complexes with Nanog to pattern mesendoderm differentiation at the blastula stage. Later, during gastrulation, Sox32 restricts Pou5f3–Nanog complexes to the ventrolateral mesendoderm by binding Pou5f3 or Nanog in prospective dorsal endoderm. In the ventrolateral endoderm, the Elabela / Aplnr pathway limits Sox32 levels, allowing the formation of Pou5f3–Nanog complexes and the activation of downstream BMP signaling. This quantitative model shows that a balance in the spatiotemporal distribution of Pou5f3–Nanog complexes, modulated by Sox32, regulates mesendoderm specification along the dorsoventral axis. DOI: http://dx.doi.org/10.7554/eLife.11475.001 PMID:27684073

  13. Study on the polymorphism of POU1F1 gene in sheep

    Directory of Open Access Journals (Sweden)

    Jun Yan Bai

    Full Text Available ABSTRACT In this study, POU1F1 gene polymorphism was detected in five sheep populations (large-tailed Han, small-tailed Han, Yuxi fat-tailed, Lanzhou large-tailed, and Mongolian sheep, using DNA pooling and sequencing, to provide theoretical basis for the breeding of excellent sheep varieties. Three single-nucleotide polymorphism (SNP loci of POU1F1 gene were detected in five sheep populations, namely C355T (C/T, C71G (C/G, and C330G (C/G. C and T frequencies of C355T were 0.67/0.33, 0.81/0.19, 0.67/0.33, 1.00/0.00, and 0.93/0.07, respectively, in large-tailed Han, small-tailed Han, Yuxi fat-tailed, Mongolian, and Lanzhou large-tailed sheep. C of C355T locus was the dominant allele in five sheep populations. C and G allele frequencies of C330G locus were detected in Yuxi fat-tailed sheep; their frequencies were 0.75 and 0.25, respectively. C and G allele of C71G locus were only detected in Yuxi fat-tailed and large-tailed Han sheep; their frequencies were 0.87/0.13 and 0.87/0.13, respectively. The cluster analysis based on POU1F1 gene sequence showed that bactrian camel, dromedary, and wild camel clustered first, and dolphin and killer whales clustered according to taxonomy. Although the four species Tibetan antelope, buffalo, goat, and sheep were alone, they got close and the relative genetic relationship was intimate according to the dendrogram. The mutation site analysis of the POU1F1 gene in five sheep populations in this study would be favorable for uncovering the function of POU1F1 gene deeply.

  14. Diversity, phylogeny and expression patterns of Pou and Six homeodomain transcription factors in hydrozoan jellyfish Craspedacusta sowerbyi.

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    Miluse Hroudova

    Full Text Available Formation of all metazoan bodies is controlled by a group of selector genes including homeobox genes, highly conserved across the entire animal kingdom. The homeobox genes from Pou and Six classes are key members of the regulation cascades determining development of sensory organs, nervous system, gonads and muscles. Besides using common bilaterian models, more attention has recently been targeted at the identification and characterization of these genes within the basal metazoan phyla. Cnidaria as a diploblastic sister group to bilateria with simple and yet specialized organs are suitable models for studies on the sensory organ origin and the associated role of homeobox genes. In this work, Pou and Six homeobox genes, together with a broad range of other sensory-specific transcription factors, were identified in the transcriptome of hydrozoan jellyfish Craspedacusta sowerbyi. Phylogenetic analyses of Pou and Six proteins revealed cnidarian-specific sequence motifs and contributed to the classification of individual factors. The majority of the Craspedacusta sowerbyi Pou and Six homeobox genes are predominantly expressed in statocysts, manubrium and nerve ring, the tissues with sensory and nervous activities. The described diversity and expression patterns of Pou and Six factors in hydrozoan jellyfish highlight their evolutionarily conserved functions. This study extends the knowledge of the cnidarian genome complexity and shows that the transcriptome of hydrozoan jellyfish is generally rich in homeodomain transcription factors employed in the regulation of sensory and nervous functions.

  15. Red nucleus and rubrospinal tract disorganization in the absence of Pou4f1

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    Jesus E. eMartinez-Lopez

    2015-02-01

    Full Text Available The red nucleus is a neuronal population that plays an important role in forelimb motor control and locomotion. Histologically it is subdivided into two subpopulations, the parvocellular red nucleus located in the diencephalon and the magnocellular red nucleus in the mesencephalon. The red nucleus integrates signals from motor cortex and cerebellum and projects to spinal cord interneurons and motor neurons through the rubrospinal tract. Pou4f1 is a transcription factor highly expressed in this nucleus that has been related to its specification. Here we profoundly analyzed consequences of Pou4f1 loss-of-function in development, maturation and axonal projection of the red nucleus. Surprisingly, red nucleus neurons are specified and maintained in the mutant, no cell death was detected. Nevertheless, the nucleus appeared disorganized with a strong delay in radial migration and with a wider neuronal distribution; the neurons did not form a compacted population as they do in controls, Robo1 and Slit2 were miss-expressed. Cplx1 and Npas1, expressed in the red nucleus, are transcription factors involved in neurotransmitter release, neuronal maturation and motor function processes among others. In our mutant mice, both transcription factors are lost, suggesting an abnormal maturation of the red nucleus. The resulting altered nucleus occupied a wider territory. Finally, we examined rubrospinal tract development and found that the red nucleus neurons were able to project to the spinal cord but their axons appeared defasciculated. These data suggest that Pou4f1 is necessary for the maturation of red nucleus neurons but not for their specification and maintenance.

  16. Pou5f1/Oct4 promotes cell survival via direct activation of mych expression during zebrafish gastrulation.

    Science.gov (United States)

    Kotkamp, Kay; Kur, Esther; Wendik, Björn; Polok, Bożena K; Ben-Dor, Shifra; Onichtchouk, Daria; Driever, Wolfgang

    2014-01-01

    Myc proteins control cell proliferation, cell cycle progression, and apoptosis, and play important roles in cancer as well in establishment of pluripotency. Here we investigated the control of myc gene expression by the Pou5f1/Oct4 pluripotency factor in the early zebrafish embryo. We analyzed the expression of all known zebrafish Myc family members, myca, mycb, mych, mycl1a, mycl1b, and mycn, by whole mount in situ hybridization during blastula and gastrula stages in wildtype and maternal plus zygotic pou5f1 mutant (MZspg) embryos, as well as by quantitative PCR and in time series microarray data. We found that the broad blastula and gastrula stage mych expression, as well as late gastrula stage mycl1b expression, both depend on Pou5f1 activity. We analyzed ChIP-Seq data and found that both Pou5f1 and Sox2 bind to mych and mycl1b control regions. The regulation of mych by Pou5f1 appears to be direct transcriptional activation, as overexpression of a Pou5f1 activator fusion protein in MZspg embryos induced strong mych expression even when translation of zygotically expressed mRNAs was suppressed. We further showed that MZspg embryos develop enhanced apoptosis already during early gastrula stages, when apoptosis was not be detected in wildtype embryos. However, Mych knockdown alone did not induce early apoptosis, suggesting potentially redundant action of several early expressed myc genes, or combination of several pathways affected in MZspg. Experimental mych overexpression in MZspg embryos did significantly, but not completely suppress the apoptosis phenotype. Similarly, p53 knockdown only partially suppressed apoptosis in MZspg gastrula embryos. However, combined knockdown of p53 and overexpression of Mych completely rescued the MZspg apoptosis phenotype. These results reveal that Mych has anti-apoptotic activity in the early zebrafish embryo, and that p53-dependent and Myc pathways are likely to act in parallel to control apoptosis at these stages.

  17. Evaluation of regulatory genetic variants in POU5F1 and risk of congenital heart disease in Han Chinese.

    Science.gov (United States)

    Lin, Yuan; Ding, Chenyue; Zhang, Kai; Ni, Bixian; Da, Min; Hu, Liang; Hu, Yuanli; Xu, Jing; Wang, Xiaowei; Chen, Yijiang; Mo, Xuming; Cui, Yugui; Shen, Hongbing; Sha, Jiahao; Liu, Jiayin; Hu, Zhibin

    2015-10-28

    OCT4 is a transcription factor of the POU family, which plays a key role in embryonic development and stem cell pluripotency. Previous studies have shown that Oct4 is required for cardiomyocyte differentiation in mice and its depletion could result in cardiac morphogenesis in embryo. However, whether the genetic variations in OCT4 coding gene, POU5F1, confer the predisposition to congenital heart disease (CHD) is unclear. This study sought to investigate the associations between low-frequency (defined here as having minor allele frequency (MAF) between 0.1%-5%) and rare (MAF below 0.1%) variants with potential function in POU5F1 and risk of CHD. We conducted association analysis in a two-stage case-control study with a total of 2,720 CHD cases and 3,331 controls in Chinese. The low-frequency variant rs3130933 was observed to be associated with a significantly increased risk of CHD [additive model: adjusted odds ratio (OR) = 2.15, adjusted P = 3.37 × 10(-6)]. Furthermore, luciferase activity assay showed that the variant A allele led to significantly lower expression levels as compared to the G allele. These findings indicate for the first time that low-frequency functional variant in POU5F1 may contribute to the risk of congenital heart malformations.

  18. A novel mutation in POU3F4 in a Chinese family with X-linked non-syndromic hearing loss

    Institute of Scientific and Technical Information of China (English)

    Bang-qing Huang; Jia-ling Zeng; Yong-yi Yuan; Pu Dai

    2015-01-01

    Objective:Based on the clinical manifestations of a hearing loss patient, the POU3F4 gene was tested for diagnosis of etiology. Methods:A comprehensive physical examination was performed on the proband to exclude abnormalities of other organs, and detailed audi-ological testing and temporal bone CT scan were also performed. Genomic DNA was extracted using the proband's peripheral blood leukocytes. Polymerase chain reactions (PCR) were performed in the coding sequence of the POU3F4 gene. Direct DNA sequencing was subsequently applied to screen the entire coding region of the POU3F4 gene. Results:The proband had severe sensorineural hearing loss. Temporal CT showed bilateral cochlear incomplete partition, vestibule dysplasia, internal auditory canal fundus expansion, and cochlear interlink with the internal auditory canal fundus. A novel mutation (c.530C > A (p.S177X)) in the POU3F4 gene was found in this patient, creating an new stop codon and was predicted to result in a truncated protein lacking normal POU3F4 transcription factor function. Conclusion: Through analysis of the POU3F4 gene and clinical manifestations in the patient, we conclude that a novel mutation may have resulted in a premature stop codon, contributing to the mutation of POU3F4 gene.

  19. Pou5f1/Oct4 promotes cell survival via direct activation of mych expression during zebrafish gastrulation.

    Directory of Open Access Journals (Sweden)

    Kay Kotkamp

    Full Text Available Myc proteins control cell proliferation, cell cycle progression, and apoptosis, and play important roles in cancer as well in establishment of pluripotency. Here we investigated the control of myc gene expression by the Pou5f1/Oct4 pluripotency factor in the early zebrafish embryo. We analyzed the expression of all known zebrafish Myc family members, myca, mycb, mych, mycl1a, mycl1b, and mycn, by whole mount in situ hybridization during blastula and gastrula stages in wildtype and maternal plus zygotic pou5f1 mutant (MZspg embryos, as well as by quantitative PCR and in time series microarray data. We found that the broad blastula and gastrula stage mych expression, as well as late gastrula stage mycl1b expression, both depend on Pou5f1 activity. We analyzed ChIP-Seq data and found that both Pou5f1 and Sox2 bind to mych and mycl1b control regions. The regulation of mych by Pou5f1 appears to be direct transcriptional activation, as overexpression of a Pou5f1 activator fusion protein in MZspg embryos induced strong mych expression even when translation of zygotically expressed mRNAs was suppressed. We further showed that MZspg embryos develop enhanced apoptosis already during early gastrula stages, when apoptosis was not be detected in wildtype embryos. However, Mych knockdown alone did not induce early apoptosis, suggesting potentially redundant action of several early expressed myc genes, or combination of several pathways affected in MZspg. Experimental mych overexpression in MZspg embryos did significantly, but not completely suppress the apoptosis phenotype. Similarly, p53 knockdown only partially suppressed apoptosis in MZspg gastrula embryos. However, combined knockdown of p53 and overexpression of Mych completely rescued the MZspg apoptosis phenotype. These results reveal that Mych has anti-apoptotic activity in the early zebrafish embryo, and that p53-dependent and Myc pathways are likely to act in parallel to control apoptosis at these

  20. Second Intron of Mouse Nestin Gene Directs its Expression in Pluripotent Embryonic Carcinoma Cells through POU Factor Binding Site

    Institute of Scientific and Technical Information of China (English)

    Zhi-Gang JIN; Li LIU; Hua ZHONG; Ke-Jing ZHANG; Yong-Feng CHEN; Wei BIAN; Le-Ping CHENG; Nai-He JING

    2006-01-01

    Nestin, an intermediate filament protein, is expressed in the neural stem cells of the developing central nervous system. This tissue-specific expression is driven by the neural stem cell-specific enhancer in the second intron of the nestin gene. In this study, we showed that the mouse nestin gene was expressed in pluripotent embryonic carcinoma (EC) P19 and F9 cells, not in the differentiated cell types. This cell typespecific expression was conferred by the enhancer in the second intron. Mutation of the conserved POU factor-binding site in the enhancer abolished the reporter gene expression in EC cells. Oct4, a Class V POU factor, was found to be coexpressed with nestin in EC cells. Electrophoretic mobility-shift assays and supershift assays showed that a unique protein-DNA complex was formed specifically with nuclear extracts of EC cells, and Oct4 protein was included. Together, these results suggest the functional relevance between the conserved POU factor-binding site and the expression of the nestin gene in pluripotent EC cells.

  1. The Polymorphism of Pituitary Factor 1 (POU1F1 in Cattle

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    Teodora Crina Carsai

    2012-05-01

    Full Text Available The development and function of mammary gland is mainly controlled by growth hormone and prolactin, twoprotein hormones secreted by the anterior pituitary gland. Their synthesis is under regulatory influence of pituitaryfactor 1 (PIT1 or POU1F1, a protein factor produced in hypothalamic nuclei. In cattle, it was shown that a HinfIpolymorphism located in exon 6 of PIT1 gene may have significant influence on milk quantity. In particular A allelewas associated with a higher milk yield and could be a valuable genetic marker for improving milk quantity in cattle.In an effort to better understand the possible influence of this polymorphism on mammary gland development andfunction in cattle, we have studied the frequency this polymorphism in Romanian Black and White breed, a highmilk production cattle breed versus Romanian Grey Steppe breed, a primitive breed with very low milk production.In both breeds the frequency of B allele is much higher as compared with the frequency of A allele. The study ofPIT1 polymorphism in Romanian cattle breeds is a part of a more complex study targeting several key genesinvolved in mammary gland function.

  2. The homeodomain transcription factors antennapedia and POU-M2 regulate the transcription of the steroidogenic enzyme gene Phantom in the silkworm.

    Science.gov (United States)

    Meng, Meng; Cheng, Dao-Jun; Peng, Jian; Qian, Wen-Liang; Li, Jia-Rui; Dai, Dan-Dan; Zhang, Tian-Lei; Xia, Qing-You

    2015-10-01

    The steroid hormone ecdysone, which controls insect molting and metamorphosis, is synthesized in the prothoracic gland (PG), and several steroidogenic enzymes that are expressed specifically in the PG are involved in ecdysteroidogenesis. In this study, we identified new regulators that are involved in the transcriptional control of the silkworm steroidogenic enzyme genes. In silico analysis predicted several potential cis-regulatory elements (CREs) for the homeodomain transcription factors Antennapedia (Antp) and POU-M2 in the proximal promoters of steroidogenic enzyme genes. Antp and POU-M2 are expressed dynamically in the PG during larval development, and their overexpression in silkworm embryo-derived (BmE) cells induced the expression of steroidogenic enzyme genes. Importantly, luciferase reporter analyses, electrophoretic mobility shift assays, and chromatin immunoprecipitation assays revealed that Antp and POU-M2 promote the transcription of the silkworm steroidogenic enzyme gene Phantom (Phm) by binding directly to specific motifs within overlapping CREs in the Phm promoter. Mutations of these CREs in the Phm promoter suppressed the transcriptional activities of both Antp and POU-M2 in BmE cells and decreased the activities of mutated Phm promoters in the silkworm PG. In addition, pulldown and co-immunoprecipitation assays demonstrated that Antp can interact with POU-M2. Moreover, RNA interference-mediated down-regulation of either Antp or POU-M2 during silkworm wandering not only decreased the ecdysone titer but also led to the failure of metamorphosis. In summary, our results suggest that Antp and POU-M2 coordinate the transcription of the silkworm Phm gene directly, indicating new roles for homeodomain proteins in regulating insect ecdysteroidogenesis.

  3. Characterization of Novel Seven Transmembrane Helix, GS-Coupled Receptors and Pou Domain Proteins in Cancer of the Mammary Epithelium.

    Science.gov (United States)

    1998-09-01

    and tested against CBP (amino acids, 2,058- 2,170) by a yeast two-hybrid assay. The major CBP interaction NATUREl VOL 387112 JUNE 1997 677...dependent transcription by evaluating its effects on stimulation by IFN-7 and retinoic acid. The simultaneous addition NATUREl VOL 387112 JUNE 1997...described44. Transient transfections and reporter assays. Transfection was done in either HeLa or CV-1 cells using the standard calcium phosphate procedure

  4. Polymorphisms of POU1F1 and STAT5A genes and their associate on with milk production traits in cattle

    Directory of Open Access Journals (Sweden)

    Sonia Zakizadeh

    2015-04-01

    Full Text Available Specific trait candidate genes are sequenced genes with known biological activity. The effects of POU1F1 and STAT5A on milk production traits have been studied in several studies. POU1F1 affects on transcription of prolactin and growth hormone gene, as well as, STAT5A is known as a main mediator of growth hormone action on target genes and intracellular mediator of prolactin signaling. Since these genes are essential for development of mammary system, the aim of this study was to determine association of their polymorphism with milk production breeding values in Brown Swiss cattle. Blood of ninety milking cow were randomly obtained. DNA was extracted from whole blood using modified salting out method, then the desired fragments were PCR amplified and digested by specific restriction endonuclease enzymes. Gene and genotype frequencies, heterozygosity indexes, the real and effective allele number were calculated by PopGene software; and the breeding values of production traits were estimated by DFREML. SAS software was used to analyze association between genotypes and breeding values. The frequency of 'A' and 'C' alleles of POU1F1 and STAT5A were 0.455 and 0.489, respectively. This population was in hardy-weinburg equilibrium for both loci. There was no significant association between genotypes and breeding values, although POU1F1*B tended to produce higher milk and POU1F1*A showed higher fat and protein percent.

  5. The sex-linked fidget mutation abolishes Brn4/Pou3f4 gene expression in the embryonic inner ear.

    Science.gov (United States)

    Phippard, D; Boyd, Y; Reed, V; Fisher, G; Masson, W K; Evans, E P; Saunders, J C; Crenshaw, E B

    2000-01-01

    We have demonstrated that the phenotype of the mouse mutant sex-linked fidget ( slf ) is caused by developmental malformations of the inner ear that result in hearing loss and vestibular dysfunction. Recently, pilot mapping experiments suggested that the mouse Brn4 / Pou3f4 gene co-segregated with the slf locus on the mouse X chromosome. These mapping data, in conjunction with the observation that the vertical head-shaking phenotype of slf mutants is identical to that observed in mice with a targeted deletion of the Brn4 gene, suggested that slf is a mutant allele of the Brn4 gene. In this paper, we have identified the nature of the slf mutation, and demonstrated that it is an X chromosomal inversion with one breakpoint close to Brn4. This inversion selectively eliminates the expression of the Brn4 gene in the developing inner ear, but not the neural tube. Finally, these results demonstrate that the slf mutation is a good mouse model for the most prevalent form of X-linked congenital deafness in man, which is associated with mutations in the human Brn4 ortholog, POU3F4.

  6. End-user preferences for and performance of competing POU water treatment technologies among the rural poor of Kenya.

    Science.gov (United States)

    Albert, Jeff; Luoto, Jill; Levine, David

    2010-06-15

    Household point-of-use (POU) water treatment technologies targeted at vulnerable populations are microbiologically effective and, in small trials, improve health. We do not understand the factors that influence preference for and adoption of these technologies by target end-users. We cycled 400 rural subsistence farm households in western Kenya through three randomly ordered two-month trials of three POU products: dilute hypochlorite solution, porous ceramic filtration, and a combined flocculant-disinfectant powdered mixture to compare relative end-user preferences and usage. Households reported higher usage of both dilute hypochlorite and filters than the flocculant-disinfectant. Averaged among all participating households, Escherichia coli reductions in treated water were generally higher among those that received dilute hypochlorite solution than among those receiving either of the other two products. Among those households that self-reported product usage, the E. coli reductions achieved by dilute hypochlorite and the flocculant-disinfectant are statistically equivalent to one another and higher than the reductions achieved by filters. At the same time, households ranked filters most frequently as their most preferred product.

  7. Audiometric characteristics of a Dutch family linked to DFNA15 with a novel mutation (p.L289F) in POU4F3.

    NARCIS (Netherlands)

    Pauw, R.J.; Drunen, FJ van; Collin, R.W.J.; Huygen, P.L.; Kremer, H.; Cremers, C.W.R.J.

    2008-01-01

    OBJECTIVE: To report on the audiometric characteristics of a large Dutch family linked to DFNA15 with a novel mutation (p.L289F) in POU4F3 (OMIM 602460). DESIGN: Clinical investigation. SETTING: Tertiary referral center. PATIENTS: Family members from a large 5-generation pedigree with sensorineural

  8. Clinical Significance of POU5F1P1 rs10505477 Polymorphism in Chinese Gastric Cancer Patients Receving Cisplatin-Based Chemotherapy after Surgical Resection

    Directory of Open Access Journals (Sweden)

    Lili Shen

    2014-07-01

    Full Text Available This study aimed to investigate the association between POU class5 homeobox 1 pseudogene 1 gene (POU5F1P1 rs10505477 polymorphism and the prognosis of Chinese gastric cancer patients, who received cisplatin-based chemotherapy after surgical resection. POU5F1P1 rs10505477 was genotyped using the SNaPshot method in 944 gastric cancer patients who received gastrectomy. The association of rs10505477 G > A polymorphism with the progression and prognosis in gastric cancer patients was statistically analyzed using the SPSS version 18.0 for Windows. The results reveal that rs10505477 polymorphism has a negatively effect on the overall survival of gastric cancer patients in cisplatin-based chemotherapy subgroup (HR = 1.764, 95% CI = 1.069–2.911, p = 0.023. Our preliminary study indicates for the first time that POU5F1P1 rs10505477 is correlated with survival of gastric cancer patients who receving cisplatin-based chemotherapy after gastrectomy. Further studies are warranted to investigate the mechanism and to verify our results in different populations.

  9. SNP linkage analysis and whole exome sequencing identify a novel POU4F3 mutation in autosomal dominant late-onset nonsyndromic hearing loss (DFNA15.

    Directory of Open Access Journals (Sweden)

    Hee-Jin Kim

    Full Text Available Autosomal dominant non-syndromic hearing loss (AD-NSHL is one of the most common genetic diseases in human and is well-known for the considerable genetic heterogeneity. In this study, we utilized whole exome sequencing (WES and linkage analysis for direct genetic diagnosis in AD-NSHL. The Korean family had typical AD-NSHL running over 6 generations. Linkage analysis was performed by using genome-wide single nucleotide polymorphism (SNP chip and pinpointed a genomic region on 5q31 with a significant linkage signal. Sequential filtering of variants obtained from WES, application of the linkage region, bioinformatic analyses, and Sanger sequencing validation identified a novel missense mutation Arg326Lys (c.977G>A in the POU homeodomain of the POU4F3 gene as the candidate disease-causing mutation in the family. POU4F3 is a known disease gene causing AD-HSLH (DFNA15 described in 5 unrelated families until now each with a unique mutation. Arg326Lys was the first missense mutation affecting the 3(rd alpha helix of the POU homeodomain harboring a bipartite nuclear localization signal sequence. The phenotype findings in our family further supported previously noted intrafamilial and interfamilial variability of DFNA15. This study demonstrated that WES in combination with linkage analysis utilizing bi-allelic SNP markers successfully identified the disease locus and causative mutation in AD-NSHL.

  10. Linkage disequilibrium screening for multiple sclerosis implicates JAG1 and POU2AF1 as susceptibility genes in Europeans.

    Science.gov (United States)

    Ban, Maria; Booth, David; Heard, Robert; Stewart, Graeme; Goris, An; Vandenbroeck, Koen; Dubois, Bénédicte; Laaksonen, Mikko; Ilonen, Jorma; Alizadeh, Mehdi; Edan, Gilles; Babron, Marie Claude; Brassat, David; Clanet, Michael; Cournu-Rebeix, Isabelle; Fontaine, Bertrand; Semana, Gilbert; Goedde, Rene; Epplen, Jorg; Weber, Alexandra; Infante-Duarte, Carmen; Zipp, Frauke; Rajda, Cecilia; Bencsik, Krisztina; Vécsei, László; Heggarty, Shirley; Graham, Colin; Hawkins, Stanley; Liguori, Maria; Momigliano-Richiardi, Patricia; Caputo, Domenico; Grimaldi, Luigi M E; Leone, Maurizio; Massacesi, Luca; Milanese, Clara; Salvetti, Marco; Savettieri, Giovani; Trojano, Maria; Bielecki, Bartosz; Mycko, Marcin P; Selmaj, Krzysztof; Santos, Monica; Maciel, Patricia; Pereira, Clara; Silva, Ana; Silva, Berta Martins; Coraddu, Francesca; Marrosu, Maria Giovanna; Akesson, Eva; Hillert, Jan; Datta, Pameli; Oturai, Annette; Harbo, Hanne F; Spurkland, Anne; Goertsches, Robert; Villoslada, Pablo; Eraksoy, Mefkure; Hensiek, Anke; Compston, Alastair; Setakis, Efrosini; Gray, Julia; Yeo, Tai Wai; Sawcer, Stephen

    2006-10-01

    By combining all the data available from the Genetic Analysis of Multiple sclerosis in EuropeanS (GAMES) project, we have been able to identify 17 microsatellite markers showing consistent evidence for apparent association. As might be expected five of these markers map within the Major Histocompatibility Complex (MHC) and are in LD with HLA-DRB1. Individual genotyping of the 12 non-MHC markers confirmed association for three of them--D11S1986, D19S552 and D20S894. Association mapping across the candidate genes implicated by these markers in 937 UK trio families revealed modestly associated haplotypes in JAG1 (p=0.019) on chromosome 20p12.2 and POU2AF1 (p=0.003) on chromosome 11q23.1.

  11. Epigenetic mechanisms regulate stem cell expressed genes Pou5f1 and Gfra1 in a male germ cell line.

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    Maren Godmann

    Full Text Available Male fertility is declining and an underlying cause may be due to environment-epigenetic interactions in developing sperm, yet nothing is known of how the epigenome controls gene expression in sperm development. Histone methylation and acetylation are dynamically regulated in spermatogenesis and are sensitive to the environment. Our objectives were to determine how histone H3 methylation and acetylation contribute to the regulation of key genes in spermatogenesis. A germ cell line, GC-1, was exposed to either the control, or the chromatin modifying drugs tranylcypromine (T, an inhibitor of the histone H3 demethylase KDM1 (lysine specific demethylase 1, or trichostatin (TSA, an inhibitor of histone deacetylases, (HDAC. Quantitative PCR (qPCR was used to identify genes that were sensitive to treatment. As a control for specificity the Myod1 (myogenic differentiation 1 gene was analyzed. Chromatin immunoprecipitation (ChIP followed by qPCR was used to measure histone H3 methylation and acetylation at the promoters of target genes and the control, Myod1. Remarkably, the chromatin modifying treatment specifically induced the expression of spermatogonia expressed genes Pou5f1 and Gfra1. ChIP-qPCR revealed that induction of gene expression was associated with a gain in gene activating histone H3 methylation and acetylation in Pou5f1 and Gfra1 promoters, whereas CpG DNA methylation was not affected. Our data implicate a critical role for histone H3 methylation and acetylation in the regulation of genes expressed by spermatogonia--here, predominantly mediated by HDAC-containing protein complexes.

  12. Identification of Pou5f1, Sox2, and Nanog downstream target genes with statistical confidence by applying a novel algorithm to time course microarray and genome-wide chromatin immunoprecipitation data

    Science.gov (United States)

    Sharov, Alexei A; Masui, Shinji; Sharova, Lioudmila V; Piao, Yulan; Aiba, Kazuhiro; Matoba, Ryo; Xin, Li; Niwa, Hitoshi; Ko, Minoru SH

    2008-01-01

    Background Target genes of a transcription factor (TF) Pou5f1 (Oct3/4 or Oct4), which is essential for pluripotency maintenance and self-renewal of embryonic stem (ES) cells, have previously been identified based on their response to Pou5f1 manipulation and occurrence of Chromatin-immunoprecipitation (ChIP)-binding sites in promoters. However, many responding genes with binding sites may not be direct targets because response may be mediated by other genes and ChIP-binding site may not be functional in terms of transcription regulation. Results To reduce the number of false positives, we propose to separate responding genes into groups according to direction, magnitude, and time of response, and to apply the false discovery rate (FDR) criterion to each group individually. Using this novel algorithm with stringent statistical criteria (FDR < 0.2) to a compendium of published and new microarray data (3, 6, 12, and 24 hr after Pou5f1 suppression) and published ChIP data, we identified 420 tentative target genes (TTGs) for Pou5f1. The majority of TTGs (372) were down-regulated after Pou5f1 suppression, indicating that the Pou5f1 functions as an activator of gene expression when it binds to promoters. Interestingly, many activated genes are potent suppressors of transcription, which include polycomb genes, zinc finger TFs, chromatin remodeling factors, and suppressors of signaling. Similar analysis showed that Sox2 and Nanog also function mostly as transcription activators in cooperation with Pou5f1. Conclusion We have identified the most reliable sets of direct target genes for key pluripotency genes – Pou5f1, Sox2, and Nanog, and found that they predominantly function as activators of downstream gene expression. Thus, most genes related to cell differentiation are suppressed indirectly. PMID:18522731

  13. Identification of Pou5f1, Sox2, and Nanog downstream target genes with statistical confidence by applying a novel algorithm to time course microarray and genome-wide chromatin immunoprecipitation data

    Directory of Open Access Journals (Sweden)

    Xin Li

    2008-06-01

    Full Text Available Abstract Background Target genes of a transcription factor (TF Pou5f1 (Oct3/4 or Oct4, which is essential for pluripotency maintenance and self-renewal of embryonic stem (ES cells, have previously been identified based on their response to Pou5f1 manipulation and occurrence of Chromatin-immunoprecipitation (ChIP-binding sites in promoters. However, many responding genes with binding sites may not be direct targets because response may be mediated by other genes and ChIP-binding site may not be functional in terms of transcription regulation. Results To reduce the number of false positives, we propose to separate responding genes into groups according to direction, magnitude, and time of response, and to apply the false discovery rate (FDR criterion to each group individually. Using this novel algorithm with stringent statistical criteria (FDR Pou5f1 suppression and published ChIP data, we identified 420 tentative target genes (TTGs for Pou5f1. The majority of TTGs (372 were down-regulated after Pou5f1 suppression, indicating that the Pou5f1 functions as an activator of gene expression when it binds to promoters. Interestingly, many activated genes are potent suppressors of transcription, which include polycomb genes, zinc finger TFs, chromatin remodeling factors, and suppressors of signaling. Similar analysis showed that Sox2 and Nanog also function mostly as transcription activators in cooperation with Pou5f1. Conclusion We have identified the most reliable sets of direct target genes for key pluripotency genes – Pou5f1, Sox2, and Nanog, and found that they predominantly function as activators of downstream gene expression. Thus, most genes related to cell differentiation are suppressed indirectly.

  14. Domains and domain loss

    DEFF Research Database (Denmark)

    Haberland, Hartmut

    2005-01-01

    The domain concept, originally suggested by Schmidt-Rohr in the 1930’s (as credited in Fishman’s writings in the 1970s), was an attempt to sort out different areas of language use in multilingual societies, which are relevant for language choice. In Fishman’s version, domains were considered...... not described in terms of domains, and recent research e.g. about the multilingual communities in the Danish-German border area seems to confirm this....

  15. An epigenetic biomarker combination of PCDH17 and POU4F2 detects bladder cancer accurately by methylation analyses of urine sediment DNA in Han Chinese

    Science.gov (United States)

    Li, Qiaoling; An, Dan; Fang, Lu; Lin, Youcheng; Hou, Yong; Xu, Abai; Fu, Yu; Lu, Wei; Chen, Xin; Chen, Mingwei; Zhang, Meng; Jiang, Huiling; Zhang, Chuanxia; Dong, Pei; Li, Chong; Chen, Jun; Yang, Guosheng; Liu, Chunxiao; Cai, Zhiming; Zhou, Fangjian; Wu, Song

    2016-01-01

    To develop a routine and effectual procedure of detecting bladder cancer (BlCa), an optimized combination of epigenetic biomarkers that work synergistically with high sensitivity and specificity is necessary. In this study, methylation levels of seven biomarkers (EOMES, GDF15, NID2, PCDH17, POU4F2, TCF21, and ZNF154) in 148 individuals—which including 58 urothelial cell carcinoma (UCC) patients, 20 infected urinary calculi (IUC) patients, 20 kidney cancer (KC) patients,20 prostate cancer (PC) patients, and 30 healthy volunteers (HV)—were quantified by qMSP using the urine sediment DNA. Receiver operating characteristic (ROC) curves were generated for each biomarker. The combining predictors of possible combinations were calculated through logistic regression model. Subsequently, ROC curves of the three best performing combinations were constructed. Then, we validated the three best performing combinations and POU4F2 in another 72 UCC, 21 IUC, 26 KC and 22 PC, and 23 HV urine samples. The combination of POU4F2/PCDH17 has yielded the highest sensitivity and specificity of 90.00% and 93.96% in all the 312 individuals, showing the capability of detecting BlCa effectively among pathologically varied sample groups. PMID:26700620

  16. E6/E7-P53-POU2F1-CTHRC1 axis promotes cervical cancer metastasis and activates Wnt/PCP pathway

    Science.gov (United States)

    Zhang, Rong; Lu, Huan; Lyu, Yuan-yuan; Yang, Xiao-mei; Zhu, Lin-yan; Yang, Guang-dong; Jiang, Peng-cheng; Re, Yuan; Song, Wei-wei; Wang, Jin-hao; Zhang, Can-can; Gu, Fei; Luo, Tian-jiao; Wu, Zhi-yong; Xu, Cong-jian

    2017-01-01

    Cervical cancer is an infectious cancer and the most common gynecologic cancer worldwide. E6/E7, the early genes of the high-risk mucosal human papillomavirus type, play key roles in the carcinogenic process of cervical cancer. However, little was known about its roles in modulating tumor microenvironment, particular extracellular matrix (ECM). In this study, we found that E6/E7 could regulate multiple ECM proteins, especially collagen triple helix repeat containing 1 (CTHRC1). CTHRC1 is highly expressed in cervical cancer tissue and serum and closely correlated with clinicopathological parameters. CTHRC1 promotes cervical cancer cell migration and invasion in vitro and metastasis in vivo. E6/E7 regulates the expression of CTHRC1 in cervical cancer by E6/E7-p53-POU2F1 (POU class 2 homeobox 1) axis. Futhermore, CTHRC1 activates Wnt/PCP signaling pathway. Take together, E6/E7-p53-POU2F1-CTHRC1 axis promotes cervical cancer cell invasion and metastasis and may act as a potential therapeutic target for interventions against cervical cancer invasion and metastasis. PMID:28303973

  17. Metody stemmingu používané při dolování textu

    OpenAIRE

    Adámek, Tomáš

    2010-01-01

    Tématem této diplomové práce je problematika jednotlivých metod pro dolování z anglických textových dokumentů. Hlavní část této práce se zabývá analýzou metod pro předzpracování textu, konkrétně stemmingem. Jsou zde rozebrány jednotlivé algoritmy stemmingu (Lovinsův, Porterův a Paice/Husk), které z jednotlivých slov textového dokumentu získávají jejich základní tvar (kořen), za použití speciálních lexikografických pravidel anglického jazyka. Tyto kořeny slov jsou následně ulože...

  18. Evolutionary Conservation of pou5f3 Genomic Organization and Its Dynamic Distribution during Embryogenesis and in Adult Gonads in Japanese Flounder Paralichthys olivaceus

    Science.gov (United States)

    Gao, Jinning; Wang, Xubo; Zhang, Quanqi

    2017-01-01

    Octamer-binding transcription factor 4 (Oct4) is a member of POU (Pit-Oct-Unc) transcription factor family Class V that plays a crucial role in maintaining the pluripotency and self-renewal of stem cells. Though it has been deeply investigated in mammals, its lower vertebrate homologue, especially in the marine fish, is poorly studied. In this study, we isolated the full-length sequence of Paralichthys olivaceus pou5f3 (Popou5f3), and we found that it is homologous to mammalian Oct4. We identified two transcript variants with different lengths of 3′-untranslated regions (UTRs) generated by alternative polyadenylation (APA). Quantitative real-time RT-PCR (qRT-PCR), in situ hybridization (ISH) and immunohistochemistry (IHC) were implemented to characterize the spatial and temporal expression pattern of Popou5f3 during early development and in adult tissues. Our results show that Popou5f3 is maternally inherited, abundantly expressed at the blastula and early gastrula stages, then greatly diminishes at the end of gastrulation. It is hardly detectable from the heart-beating stage onward. We found that Popou5f3 expression is restricted to the adult gonads, and continuously expresses during oogenesis while its dynamics are downregulated during spermatogenesis. Additionally, numerous cis-regulatory elements (CRE) on both sides of the flanking regions show potential roles in regulating the expression of Popou5f3. Taken together, these findings could further our understanding of the functions and evolution of pou5f3 in lower vertebrates, and also provides fundamental information for stem cell tracing and genetic manipulation in Paralichthys olivaceus. PMID:28124980

  19. Triage of Atypical Glandular Cell by SOX1 and POU4F3 Methylation: A Taiwanese Gynecologic Oncology Group (TGOG Study.

    Directory of Open Access Journals (Sweden)

    Cheng-Chang Chang

    Full Text Available Invasive procedures including loop electrosurgical excision, cervical conization, and endometrial sampling are often recommended when atypical glandular cells (AGC are detected on Pap smear with unsatisfactory colposcopy. These invasive procedures may result in patient anxiety, increased medical expense, and increasing the risk of preterm delivery in subsequent pregnancies. This study was performed to assess methylation biomarkers in the triage of AGC on Pap smear for invasive procedures.We conducted a multicenter study in 13 medical centers in Taiwan from May 2012 to May 2014. A total of 55 samples diagnosed "AGC not otherwise specified" (AGC-NOS were included. All patients with AGC underwent colposcopy, cervical biopsy, endometrial sampling, and conization if indicated. Multiplex quantitative methylation-specific polymerase chain reaction (QMSPCR was performed. Sensitivity, specificity, and accuracy were calculated for detecting CIN3+ and endometrial complex hyperplasia.In 55 patients with AGC, the sensitivity for methylated (m SOX1m, PAX1 m, ZNF582m,PTPRRm, AJAP1m, HS3ST2m, and POU4F3m for detecting CIN3+ and endometrial complex hyperplasia lesions was 100, 86, 71, 86, 86, 57, and 100%; specificity was 67, 79, 85, 50, 52, 96, and 52%, respectively. Testing for high risk-HPV had a sensitivity of 57% and specificity of 75% for CIN3+ and endometrial complex hyperplasia lesions.Methylated (m SOX1m and POU4F3m could be new methylation biomarkers for detection of CIN3+ and endometrial complex hyperplasia in AGC. Women with AGC and positive SOX1m / POU4F3m, colposcopy, cervical conization or endometrial sampling should be considered.

  20. Evolutionary Conservation of pou5f3 Genomic Organization and Its Dynamic Distribution during Embryogenesis and in Adult Gonads in Japanese Flounder Paralichthys olivaceus

    Directory of Open Access Journals (Sweden)

    Jinning Gao

    2017-01-01

    Full Text Available Octamer-binding transcription factor 4 (Oct4 is a member of POU (Pit-Oct-Unc transcription factor family Class V that plays a crucial role in maintaining the pluripotency and self-renewal of stem cells. Though it has been deeply investigated in mammals, its lower vertebrate homologue, especially in the marine fish, is poorly studied. In this study, we isolated the full-length sequence of Paralichthys olivaceus pou5f3 (Popou5f3, and we found that it is homologous to mammalian Oct4. We identified two transcript variants with different lengths of 3′-untranslated regions (UTRs generated by alternative polyadenylation (APA. Quantitative real-time RT-PCR (qRT-PCR, in situ hybridization (ISH and immunohistochemistry (IHC were implemented to characterize the spatial and temporal expression pattern of Popou5f3 during early development and in adult tissues. Our results show that Popou5f3 is maternally inherited, abundantly expressed at the blastula and early gastrula stages, then greatly diminishes at the end of gastrulation. It is hardly detectable from the heart-beating stage onward. We found that Popou5f3 expression is restricted to the adult gonads, and continuously expresses during oogenesis while its dynamics are downregulated during spermatogenesis. Additionally, numerous cis-regulatory elements (CRE on both sides of the flanking regions show potential roles in regulating the expression of Popou5f3. Taken together, these findings could further our understanding of the functions and evolution of pou5f3 in lower vertebrates, and also provides fundamental information for stem cell tracing and genetic manipulation in Paralichthys olivaceus.

  1. Growth and carcass traits associated with GH1/Alu I and POU1F1/Hinf I gene polymorphisms in Zebu and crossbred beef cattle

    Directory of Open Access Journals (Sweden)

    Rogério A. Curi

    2006-01-01

    Full Text Available The objectives of the present study were to estimate the allele and genotype frequencies of the GH1/Alu I and POU1F1/Hinf I polymorphisms in beef cattle belonging to different genetic groups and to determine the effects of these polymorphisms on growth and carcass traits in cattle submitted to feedlot management, an intensive production model. Genotyping was performed on 384 animals, including 79 Nellore, 30 Canchim (5/8 Charolais + 3/8 Zebu, 30 Simmental x Nellore crossbred and 245 Angus x Nellore crossbred cattle. Body weight, weight gain, dressing percentage, Longissimus dorsi area and backfat thickness were fitted using the General Linear Model (GLM procedure of the SAS program and the least square means of the genotypes were compared using the F test. The results showed significant associations between the LL genotype of the GH1/Alu I polymorphism and higher weight gain and body weight at slaughter (p < 0.05. The POU1F1/Hinf I polymorphism did not have any effect on the growth and carcass traits analyzed.

  2. Identification of a novel mutation in POU3F4 for prenatal diagnosis in a Chinese family with X-linked nonsyndromic hearing loss

    Institute of Scientific and Technical Information of China (English)

    Jianzhong Li; Dongyi Han; Huijun Yuan; Jing Cheng; Yanping Lu; Yu Lu; Aiting Chen; Yi Sun; Dongyang Kang; Xin Zhang; Pu Dai

    2010-01-01

    We present the clinical and genetic findings for a Chinese family with X-linked non-syndromic hearing loss in which the affected males showed congenital profound sensorineural hearing impairment. In two affected brothers, the computer tomography of temporal bone showed bilateral dilation of the internal auditory canal with fistulous communication between the lateral canal and the basal cochlear turn, which is consistent with the typical DFNX2 phenotype. A missense mutation (c.647G→A) in the POU3F4 gene caused a substitution from glycine to glutamic acid at position 216 (p.G216E), and this mutation was found to consistently cosegregate with the deafness phenotype in the family. The mutation resulted in the loss of function of the POU3F4 by decreasing the affinity between the protein and DNA, as shown in silico by the structural analysis. Prenatal diagnosis of pregnant proband of this family revealed the C.647G→A mutation in DNA extracted from the amniotic fluid surrounding the fetus. The appropriate use of genetic testing and prenatal diagnosis plays a key role in reducing the recurrence of genetic defects in high-risk families.

  3. ARSENIC REMOVAL FROM DRINKING WATER BY POINT-OF-USE (POU) REVERSE OSMOSIS. U.S. EPA DEMONSTRATION PROJECT AT SUNSET RANCH DEVELOPMENT IN HOMEDALE, ID. FINAL PERFORMANCE EVALUATION REPORT

    Science.gov (United States)

    This report documents the activities performed during and the results obtained from the arsenic removal technology demonstration project at the Sunset Ranch Development in Homedale, ID. The objectives of the project are to evaluate: 1) the effectiveness of a point of use (POU) re...

  4. Expression profiles of the pluripotency marker gene POU5F1 and validation of reference genes in rabbit oocytes and preimplantation stage embryos

    Directory of Open Access Journals (Sweden)

    Polgar Zsuzsanna

    2008-07-01

    Full Text Available Abstract Background The surge in the number of gene expression studies and tendencies to increase the quality of analysis have necessitated the identification of stable reference genes. Although rabbits are classical experimental model animals, stable reference genes have not been identified for normalization. The aims of this study were to compare the expression profiles of the widely used reference genes in rabbit oocytes and preimplantation stage embryos, and to select and validate stable ones to use as reference. Results Quantitative real time PCR method was used to evaluate 13 commonly used references (Actb, Gapdh, Hprt1, H2afz, Ubc, Ppia, Eef1e1, Polr2a, Tbp, G6pdx, B2m, Pgk1, and Ywhaz and POU5F1 (Oct4 genes. Expressions of these genes were examined in multiple individual embryos of seven different preimplantation developmental stages and embryo types (in vivo and in vitro. Initial analysis identified three genes (Ubc, Tbp, and B2m close to the detection limit with irregular expression between the different stages. As variability impedes the selection of stable genes, these were excluded from further analysis. The expression levels of the remaining ten genes, varied according to developmental stage and embryo types. These genes were ranked using the geNorm software and finally the three most stable references (H2afz, Hprt1, and Ywhaz were selected. Normalization factor was calculated (from the geometric averages of the three selected genes and used to normalize the expressions of POU5F1 gene. The results showed the expected expression patterns of the POU5F1 during development. Conclusion Compared to the earlier studies with similar objectives, the comparison of large number of genes, the use of multiple individual embryos as compared to pools, and simultaneous analyses of in vitro and in vivo derived embryo samples were unique approaches in our study. Based on quantification, pattern and geNorm analyses, we found the three genes (H2afz

  5. Kompozitní materiály používané při výrobě automobilů

    OpenAIRE

    2016-01-01

    Bakalárska práca pojednáva o použití jednotlivých druhov kompozitov v odvetviach automobilového priemyslu. V prvej časti je zameraná na úvod do problematiky kompozitných materiálov, spôsoby výroby, ich výhody a nevýhody. Druhá časť práce sa sústredí na konkrétne aplikácie v automobilovom priemysle. Vo finálnej časti je zhodnotená budúcnosť a celkový pohľad na kompozitné materiály v oblasti automobilov. Bachelor’s thesis deals with various types of composites used in the spheres of automoti...

  6. Effect of epigenetic modification with trichostatin A and S-adenosylhomocysteine on developmental competence and POU5F1-EGFP expression of interspecies cloned embryos in dog.

    Science.gov (United States)

    Mousai, M; Hosseini, S M; Hajian, M; Jafarpour, F; Asgari, V; Forouzanfar, M; Nasr-Esfahani, M H

    2015-10-01

    Adult canine fibroblasts stably transfected with either cytomegalovirus (CMV) or POU5F1 promoter-driven enhanced green fluorescent protein (EGFP) were used to investigate if pre-treatment of these donor cells with two epigenetic drugs [trichostatin A (TSA), or S-adenosylhomocysteine (SAH)] can improve the efficiency of interspecies somatic cell nuclear transfer (iSCNT). Fluorescence-activated cell sorting (FACS), analyses revealed that TSA, but not SAH, treatment of both transgenic and non-transgenic fibroblasts significantly increased acetylation levels compared with untreated relatives. The expression levels of Bcl2 and P53 were significantly affected in TSA-treated cells compared with untreated cells, whereas SAH treatment had no significant effect on cell apoptosis. Irrespective of epigenetic modification, dog/bovine iSCNT embryos had overall similar rates of cleavage and development to 8-16-cell and morula stages in non-transgenic groups. For transgenic reconstructed embryos, however, TSA and SAH could significantly improve development to 8-16-cell and morula stages compared with control. Even though, irrespective of cell transgenesis and epigenetic modification, none of the iSCNT embryos developed to the blastocyst stage. The iSCNT embryos carrying CMV-EGFP expressed EGFP at all developmental stages (2-cell, 4-cell, 8-16-cell, and morula) without mosaicism, while no POU5F1-EGFP signal was observed in any stage of developing iSCNT embryos irrespective of TSA/SAH epigenetic modifications. These results indicated that bovine oocytes partially remodel canine fibroblasts and that TSA and SAH have marginal beneficial effects on this process.

  7. Transcriptional regulation of AQP-8, a Caenorhabditis elegans aquaporin exclusively expressed in the excretory system, by the POU homeobox transcription factor CEH-6.

    Science.gov (United States)

    Mah, Allan K; Armstrong, Kristin R; Chew, Derek S; Chu, Jeffrey S; Tu, Domena K; Johnsen, Robert C; Chen, Nansheng; Chamberlin, Helen M; Baillie, David L

    2007-09-21

    Due to the ever changing environmental conditions in soil, regulation of osmotic homeostasis in the soil-dwelling nematode Caenorhabditis elegans is critical. AQP-8 is a C. elegans aquaporin that is expressed in the excretory cell, a renal equivalent tissue, where the protein participates in maintaining water balance. To better understand the regulation of AQP-8, we undertook a promoter analysis to identify the aqp-8 cis-regulatory elements. Using progressive 5' deletions of upstream sequence, we have mapped an essential regulatory region to roughly 300 bp upstream of the translational start site of aqp-8. Analysis of this region revealed a sequence corresponding to a known DNA functional element (octamer motif), which interacts with POU homeobox transcription factors. Phylogenetic footprinting showed that this site is perfectly conserved in four nematode species. The octamer site's function was further confirmed by deletion analyses, mutagenesis, functional studies, and electrophoretic mobility shift assays. Of the three POU homeobox proteins encoded in the C. elegans genome, CEH-6 is the only member that is expressed in the excretory cell. We show that expression of AQP-8 is regulated by CEH-6 by performing RNA interference experiments. CEH-6's mammalian ortholog, Brn1, is expressed both in the kidney and the central nervous system and binds to the same octamer consensus binding site to drive gene expression. These parallels in transcriptional control between Brn1 and CEH-6 suggest that C. elegans may well be an appropriate model for determining gene-regulatory networks in the developing vertebrate kidney.

  8. Long non-coding RNA TUG1 contributes to tumorigenesis of human osteosarcoma by sponging miR-9-5p and regulating POU2F1 expression.

    Science.gov (United States)

    Xie, Chu-Hai; Cao, Yan-Ming; Huang, Yan; Shi, Qun-Wei; Guo, Jian-Hong; Fan, Zi-Wen; Li, Ju-Gen; Chen, Bin-Wei; Wu, Bo-Yi

    2016-11-01

    Recent studies have shown that long non-coding RNAs (lncRNAs) have critical roles in tumorigenesis, including osteosarcoma. The lncRNA taurine-upregulated gene 1 (TUG1) was reported to be involved in the progression of osteosarcoma. Here, we investigated the role of TUG1 in osteosarcoma cells and the underlying mechanism. TUG1 expression was measured in osteosarcoma cell lines and human normal osteoblast cells by quantitative real-time PCR (qRT-PCR). The effects of TUG1 on osteosarcoma cells were studied by RNA interference in vitro and in vivo. The mechanism of competing endogenous RNA (ceRNA) was determined using bioinformatic analysis and luciferase assays. Our data showed that TUG1 knockdown inhibited cell proliferation and colony formation, and induced G0/G1 cell cycle arrest and apoptosis in vitro, and suppressed tumor growth in vivo. Besides, we found that TUG1 acted as an endogenous sponge to directly bind to miR-9-5p and downregulated miR-9-5p expression. Moreover, TUG1 overturned the effect of miR-9-5p on the proliferation, colony formation, cell cycle arrest, and apoptosis in osteosarcoma cells, which involved the derepression of POU class 2 homeobox 1 (POU2F1) expression. In conclusion, our study elucidated a novel TUG1/miR-9-5p/POU2F1 pathway, in which TUG1 acted as a ceRNA by sponging miR-9-5p, leading to downregulation of POU2F1 and facilitating the tumorigenesis of osteosarcoma. These findings may contribute to the lncRNA-targeted therapy for human osteosarcoma.

  9. The LIM and POU homeobox genes ttx-3 and unc-86 act as terminal selectors in distinct cholinergic and serotonergic neuron types.

    Science.gov (United States)

    Zhang, Feifan; Bhattacharya, Abhishek; Nelson, Jessica C; Abe, Namiko; Gordon, Patricia; Lloret-Fernandez, Carla; Maicas, Miren; Flames, Nuria; Mann, Richard S; Colón-Ramos, Daniel A; Hobert, Oliver

    2014-01-01

    Transcription factors that drive neuron type-specific terminal differentiation programs in the developing nervous system are often expressed in several distinct neuronal cell types, but to what extent they have similar or distinct activities in individual neuronal cell types is generally not well explored. We investigate this problem using, as a starting point, the C. elegans LIM homeodomain transcription factor ttx-3, which acts as a terminal selector to drive the terminal differentiation program of the cholinergic AIY interneuron class. Using a panel of different terminal differentiation markers, including neurotransmitter synthesizing enzymes, neurotransmitter receptors and neuropeptides, we show that ttx-3 also controls the terminal differentiation program of two additional, distinct neuron types, namely the cholinergic AIA interneurons and the serotonergic NSM neurons. We show that the type of differentiation program that is controlled by ttx-3 in different neuron types is specified by a distinct set of collaborating transcription factors. One of the collaborating transcription factors is the POU homeobox gene unc-86, which collaborates with ttx-3 to determine the identity of the serotonergic NSM neurons. unc-86 in turn operates independently of ttx-3 in the anterior ganglion where it collaborates with the ARID-type transcription factor cfi-1 to determine the cholinergic identity of the IL2 sensory and URA motor neurons. In conclusion, transcription factors operate as terminal selectors in distinct combinations in different neuron types, defining neuron type-specific identity features.

  10. Domain crossing

    DEFF Research Database (Denmark)

    Schraefel, M. C.; Rouncefield, Mark; Kellogg, Wendy

    2012-01-01

    In CSCW, how much do we need to know about another domain/culture before we observe, intersect and intervene with designs. What optimally would that other culture need to know about us? Is this a “how long is a piece of string” question, or an inquiry where we can consider a variety of contexts a...

  11. Trusted Domain

    DEFF Research Database (Denmark)

    Hjorth, Theis Solberg; Torbensen, Rune

    2012-01-01

    In the digital age of home automation and with the proliferation of mobile Internet access, the intelligent home and its devices should be accessible at any time from anywhere. There are many challenges such as security, privacy, ease of configuration, incompatible legacy devices, a wealth...... remote access via IP-based devices such as smartphones. The Trusted Domain platform fits existing legacy technologies by managing their interoperability and access controls, and it seeks to avoid the security issues of relying on third-party servers outside the home. It is a distributed system...... of wireless standards, limited resources of embedded systems, etc. Taking these challenges into account, we present a Trusted Domain home automation platform, which dynamically and securely connects heterogeneous networks of Short-Range Wireless devices via simple non-expert user. interactions, and allows...

  12. Estimation of Avalanche Hazard in the Settlement of Magurka using Elba+ Model / Posúdenie Ohrozenosti Osady Magurky Lavínami S Použitím Modelu Elba+

    Directory of Open Access Journals (Sweden)

    Bartík Martin

    2013-06-01

    Full Text Available V našej študií sme sa zamerali na moderné softvérové aplikácie umožňujúce simuláciu lavíny. Použili sme model ELBA+, pomocou ktorého sme snažili zhodnotiť ohrozenosť horského prostredia v okolí starej banskej osady Magurka (1 036 m n. m., ktorá leží v závere Ľupčianskej doline pod hlavným hrebeňom Nízkych Tatier. Do histórie sa zapísala hlavne lavína v doline Ďurková zo 14. marca 1970, ktorá dodnes patrí medzi najväčšie lavíny zaznamenané na Slovensku. S použitím archívnych údajov Strediska lavínovej prevencie v Jasnej sme sa pokúsili o jej čo najvernejšiu rekonštrukciu. Následne sme sa pokúsili o simuláciu lavíny v doline Viedenka pri použití rovnakej výšky snehu v odtrhovom pásme ako sa predpokladá pri lavíne v roku 1970. Keďže časť osady Magurka je situovaných pri ústí tejto doliny, ktorá má priamejší aj kratší priebeh ako dolina Ďurková, skúmali sme možnosť jej zásahu lavínou.

  13. .Gov Domains API

    Data.gov (United States)

    General Services Administration — This dataset offers the list of all .gov domains, including state, local, and tribal .gov domains. It does not include .mil domains, or other federal domains outside...

  14. Porovnání kompozitních a tradičních materiálů používaných v cyklistickém průmyslu

    OpenAIRE

    Ševeček, Jan

    2011-01-01

    Tato závěrečná práce shrnuje základní informace o tradičních materiálech určených na výrobu cyklistických rámů v porovnání s kompozitními materiály. Popisuje mechanické vlastnosti, technologické vlastnosti, způsob tváření a tepelného zpracování jednotlivých slitin. Informuje o jejich použití ve veloprůmyslu. This final thesis summarizes the basic information on traditional materials for the manufacture of bycicle frames in comparison with composite materials. It describes the mechanical pr...

  15. Efeito de polimorfismo nos loci CSN1S1, GH, DGAT1 e POU1F1 sobre os valores genéticos de produção e composição do leite de cabra

    OpenAIRE

    2012-01-01

    Objetivamos com este trabalho, verificar se os polimorfismos nos genes CSN1S1, GH, DGAT1 e POU1F1 de caprinos estão associados com a produção de leite até os 270 dias de lactação, duração da lactação, contagem de células somáticas, produção e porcentagens de gordura, proteína, lactose e extrato seco total no leite. Para este propósito foram consideradas 2173 lactações de 1064 cabras de grupamentos genéticos das raças Saanen e Alpina, pertencentes ao rebanho do Setor de Caprinocultura da Unive...

  16. Protein domain prediction

    NARCIS (Netherlands)

    Ingolfsson, Helgi; Yona, Golan

    2008-01-01

    Domains are considered to be the building blocks of protein structures. A protein can contain a single domain or multiple domains, each one typically associated with a specific function. The combination of domains determines the function of the protein, its subcellular localization and the interacti

  17. Membrane binding domains

    OpenAIRE

    Hurley, James H.

    2006-01-01

    Eukaryotic signaling and trafficking proteins are rich in modular domains that bind cell membranes. These binding events are tightly regulated in space and time. The structural, biochemical, and biophysical mechanisms for targeting have been worked out for many families of membrane binding domains. This review takes a comparative view of seven major classes of membrane binding domains, the C1, C2, PH, FYVE, PX, ENTH, and BAR domains. These domains use a combination of specific headgroup inter...

  18. Domains via Graphs

    Institute of Scientific and Technical Information of China (English)

    ZHANG Guoqiang; CHEN Yixiang

    2001-01-01

    This paper provides a concrete and simple introduction to two pillars of domain theory: (1) solving recursive domain equations, and (2) universal and saturated domains. Our exposition combines Larsen and Winskel's idea on solving domain equations using information systems with Girard's idea of stable domain theory in the form of coherence spaces, or graphs.Detailed constructions are given for universal and even homogeneous objects in two categories of graphs: one representing binary complete, prime algebraic domains with complete primes covering the bottom; the other representing ω-algebraic, prime algebraic lattices. The backand-forth argument in model theory helps to enlighten the constructions.

  19. Domains of laminin

    DEFF Research Database (Denmark)

    Engvall, E; Wewer, U M

    1996-01-01

    Extracellular matrix molecules are often very large and made up of several independent domains, frequently with autonomous activities. Laminin is no exception. A number of globular and rod-like domains can be identified in laminin and its isoforms by sequence analysis as well as by electron...... microscopy. Here we present the structure-function relations in laminins by examination of their individual domains. This approach to viewing laminin is based on recent results from several laboratories. First, some mutations in laminin genes that cause disease have affected single laminin domains, and some...... laminin isoforms lack particular domains. These mutants and isoforms are informative with regard to the activities of the mutated and missing domains. These mutants and isoforms are informative with regard to the activities of the mutated and missing domains. Second, laminin-like domains have now been...

  20. Efektivní použití 3D Cad systémů v procesním inženýrství-I

    OpenAIRE

    Dítě, Jan

    2008-01-01

    Zadáním této bakalářské práce bylo efektivní použití 3D CAD systémů v procesním a ekologickém inženýrství. Tato práce je zaměřená na program s názvem SolidWorks 2006, kde je úkolem obecně popsat tvorbu dílu, sestavy, výkresu a konkrétně popsat modul Routing tj. modul využitelný pro tvorbu potrubních systémů. Práce dále popisuje význam bodu styku, bodu trasy a problematiku spojenou s podsestavou trasování. This work is focused on effecitive use of 3D CAD systems in process and environmetal ...

  1. Frustratingly Easy Domain Adaptation

    CERN Document Server

    Daumé, Hal

    2009-01-01

    We describe an approach to domain adaptation that is appropriate exactly in the case when one has enough ``target'' data to do slightly better than just using only ``source'' data. Our approach is incredibly simple, easy to implement as a preprocessing step (10 lines of Perl!) and outperforms state-of-the-art approaches on a range of datasets. Moreover, it is trivially extended to a multi-domain adaptation problem, where one has data from a variety of different domains.

  2. Staggered domain wall fermions

    CERN Document Server

    Hoelbling, Christian

    2016-01-01

    We construct domain wall fermions with a staggered kernel and investigate their spectral and chiral properties numerically in the Schwinger model. In some relevant cases we see an improvement of chirality by more than an order of magnitude as compared to usual domain wall fermions. Moreover, we present first results for four-dimensional quantum chromodynamics, where we also observe significant reductions of chiral symmetry violations for staggered domain wall fermions.

  3. Translation domains in multiferroics

    OpenAIRE

    Meier, D; Leo, N; Jungk, T.; Soergel, E.; Becker, P.; Bohaty, L.; Fiebig, M.

    2010-01-01

    Translation domains differing in the phase but not in the orientation of the corresponding order parameter are resolved in two types of multiferroics. Hexagonal (h-) YMnO$_3$ is a split-order-parameter multiferroic in which commensurate ferroelectric translation domains are resolved by piezoresponse force microscopy whereas MnWO$_4$ is a joint-order-parameter multiferroic in which incommensurate magnetic translation domains are observed by optical second harmonic generation. The pronounced ma...

  4. Pragmatic circuits frequency domain

    CERN Document Server

    Eccles, William

    2006-01-01

    Pragmatic Circuits: Frequency Domain goes through the Laplace transform to get from the time domain to topics that include the s-plane, Bode diagrams, and the sinusoidal steady state. This second of three volumes ends with a-c power, which, although it is just a special case of the sinusoidal steady state, is an important topic with unique techniques and terminology. Pragmatic Circuits: Frequency Domain is focused on the frequency domain. In other words, time will no longer be the independent variable in our analysis. The two other volumes in the Pragmatic Circuits series include titles on DC

  5. Visualizing domain wall and reverse domain superconductivity.

    Science.gov (United States)

    Iavarone, M; Moore, S A; Fedor, J; Ciocys, S T; Karapetrov, G; Pearson, J; Novosad, V; Bader, S D

    2014-08-28

    In magnetically coupled, planar ferromagnet-superconductor (F/S) hybrid structures, magnetic domain walls can be used to spatially confine the superconductivity. In contrast to a superconductor in a uniform applied magnetic field, the nucleation of the superconducting order parameter in F/S structures is governed by the inhomogeneous magnetic field distribution. The interplay between the superconductivity localized at the domain walls and far from the walls leads to effects such as re-entrant superconductivity and reverse domain superconductivity with the critical temperature depending upon the location. Here we use scanning tunnelling spectroscopy to directly image the nucleation of superconductivity at the domain wall in F/S structures realized with Co-Pd multilayers and Pb thin films. Our results demonstrate that such F/S structures are attractive model systems that offer the possibility to control the strength and the location of the superconducting nucleus by applying an external magnetic field, potentially useful to guide vortices for computing application.

  6. Domain Walls on Singularities

    CERN Document Server

    Halyo, Edi

    2009-01-01

    We describe domain walls that live on $A_2$ and $A_3$ singularities. The walls are BPS if the singularity is resolved and non--BPS if it is deformed and fibered. We show that these domain walls may interpolate between vacua that support monopoles and/or vortices.

  7. A Domain Analysis Bibliography

    Science.gov (United States)

    1990-06-01

    Bauhaus , a prototype CASE workstation for D-SAPS development. [ARAN88A] Guillermo F. Arango. Domain Engineering for Software Reuse. PhD thesis...34 VITA90B: Domain Analysis within the ISEC Rapid Center 48 CMU/SEI-90-SR-3 Appendix III Alphabetical by Organization/Project BAUHAUS * ALLE87A

  8. Conserved Domain Database (CDD)

    Data.gov (United States)

    U.S. Department of Health & Human Services — CDD is a protein annotation resource that consists of a collection of well-annotated multiple sequence alignment models for ancient domains and full-length proteins.

  9. Strongly Semicontinuous Domains and Semi-FS Domains

    Directory of Open Access Journals (Sweden)

    Qingyu He

    2014-01-01

    Full Text Available We are mainly concerned with some special kinds of semicontinuous domains and relationships between them. New concepts of strongly semicontinuous domains, meet semicontinuous domains and semi-FS domains are introduced. It is shown that a dcpo L is strongly semicontinuous if and only if L is semicontinuous and meet semicontinuous. It is proved that semi-FS domains are strongly semicontinuous. Some interpolation properties of semiway-below relations in (strongly semicontinuous bc-domains are given. In terms of these properties, it is proved that strongly semicontinuous bc-domains, in particular strongly semicontinuous lattices, are all semi-FS domains.

  10. Domains in Ferroelectric Nanostructures

    Science.gov (United States)

    Gregg, Marty

    2010-03-01

    Ferroelectric materials have great potential in influencing the future of small scale electronics. At a basic level, this is because ferroelectric surfaces are charged, and so interact strongly with charge-carrying metals and semiconductors - the building blocks for all electronic systems. Since the electrical polarity of the ferroelectric can be reversed, surfaces can both attract and repel charges in nearby materials, and can thereby exert complete control over both charge distribution and movement. It should be no surprise, therefore, that microelectronics industries have already looked very seriously at harnessing ferroelectric materials in a variety of applications, from solid state memory chips (FeRAMs) to field effect transistors (FeFETs). In all such applications, switching the direction of the polarity of the ferroelectric is a key aspect of functional behavior. The mechanism for switching involves the field-induced nucleation and growth of domains. Domain coarsening, through domain wall propagation, eventually causes the entire ferroelectric to switch its polar direction. It is thus the existence and behavior of domains that determine the switching response, and ultimately the performance of the ferroelectric device. A major issue, associated with the integration of ferroelectrics into microelectronic devices, has been that the fundamental properties associated with ferroelectrics, when in bulk form, appear to change quite dramatically and unpredictably when at the nanoscale: new modes of behaviour, and different functional characteristics from those seen in bulk appear. For domains, in particular, the proximity of surfaces and boundaries have a dramatic effect: surface tension and depolarizing fields both serve to increase the equilibrium density of domains, such that minor changes in scale or morphology can have major ramifications for domain redistribution. Given the importance of domains in dictating the overall switching characteristics of a device

  11. Just how versatile are domains?

    Directory of Open Access Journals (Sweden)

    Bornberg-Bauer Erich

    2008-10-01

    Full Text Available Abstract Background Creating new protein domain arrangements is a frequent mechanism of evolutionary innovation. While some domains always form the same combinations, others form many different arrangements. This ability, which is often referred to as versatility or promiscuity of domains, its a random evolutionary model in which a domain's promiscuity is based on its relative frequency of domains. Results We show that there is a clear relationship across genomes between the promiscuity of a given domain and its frequency. However, the strength of this relationship differs for different domains. We thus redefine domain promiscuity by defining a new index, DV I ("domain versatility index", which eliminates the effect of domain frequency. We explore links between a domain's versatility, when unlinked from abundance, and its biological properties. Conclusion Our results indicate that domains occurring as single domain proteins and domains appearing frequently at protein termini have a higher DV I. This is consistent with previous observations that the evolution of domain re-arrangements is primarily driven by fusion of pre-existing arrangements and single domains as well as loss of domains at protein termini. Furthermore, we studied the link between domain age, defined as the first appearance of a domain in the species tree, and the DV I. Contrary to previous studies based on domain promiscuity, it seems as if the DV I is age independent. Finally, we find that contrary to previously reported findings, versatility is lower in Eukaryotes. In summary, our measure of domain versatility indicates that a random attachment process is sufficient to explain the observed distribution of domain arrangements and that several views on domain promiscuity need to be revised.

  12. Axion domain wall baryogenesis

    Energy Technology Data Exchange (ETDEWEB)

    Daido, Ryuji; Kitajima, Naoya [Department of Physics, Tohoku University,Sendai 980-8578 (Japan); Takahashi, Fuminobu [Department of Physics, Tohoku University,Sendai 980-8578 (Japan); Kavli IPMU, TODIAS, University of Tokyo,Kashiwa 277-8583 (Japan)

    2015-07-28

    We propose a new scenario of baryogenesis, in which annihilation of axion domain walls generates a sizable baryon asymmetry. Successful baryogenesis is possible for a wide range of the axion mass and decay constant, m≃10{sup 8}–10{sup 13} GeV and f≃10{sup 13}–10{sup 16} GeV. Baryonic isocurvature perturbations are significantly suppressed in our model, in contrast to various spontaneous baryogenesis scenarios in the slow-roll regime. In particular, the axion domain wall baryogenesis is consistent with high-scale inflation which generates a large tensor-to-scalar ratio within the reach of future CMB B-mode experiments. We also discuss the gravitational waves produced by the domain wall annihilation and its implications for the future gravitational wave experiments.

  13. On Binding Domains

    NARCIS (Netherlands)

    Everaert, M.B.H.

    2005-01-01

    In this paper I want to explore reasons for replacing Binding Theory based on the anaphor-pronoun dichotomy by a Binding Theory allowing more domains restricting/defining anaphoric dependencies. This will, thus, have consequences for the partitioning of anaphoric elements, presupposing more types of

  14. Domain: Labour market

    NARCIS (Netherlands)

    Oude Mulders, J.; Wadensjö, E.; Hasselhorn, H.M.; Apt, W.

    2015-01-01

    This domain chapter is dedicated to summarize research on the effects of labour market contextual factors on labour market participation of older workers (aged 50+) and identify research gaps. While employment participation and the timing of (early) retirement is often modelled as an individual deci

  15. Cellulose binding domain proteins

    Science.gov (United States)

    Shoseyov, Oded; Shpiegl, Itai; Goldstein, Marc; Doi, Roy

    1998-01-01

    A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

  16. Normed Domains of Holomorphy

    Directory of Open Access Journals (Sweden)

    Steven G. Krantz

    2010-01-01

    Full Text Available We treat the classical concept of domain of holomorphy in ℂn when the holomorphic functions considered are restricted to lie in some Banach space. Positive and negative results are presented. A new view of the case n=1 is considered.

  17. Time Domain Induced Polarization

    DEFF Research Database (Denmark)

    Fiandaca, Gianluca; Auken, Esben; Christiansen, Anders Vest

    2012-01-01

    Time-domain-induced polarization has significantly broadened its field of reference during the last decade, from mineral exploration to environmental geophysics, e.g., for clay and peat identification and landfill characterization. Though, insufficient modeling tools have hitherto limited the use...... of time-domaininduced polarization for wider purposes. For these reasons, a new forward code and inversion algorithm have been developed using the full-time decay of the induced polarization response, together with an accurate description of the transmitter waveform and of the receiver transfer function......%. Furthermore, the presence of low-pass filters in time-domain-induced polarization instruments affects the early times of the acquired decays (typically up to 100 ms) and has to be modeled in the forward response to avoid significant loss of resolution. The developed forward code has been implemented in a 1D...

  18. Comparison of the domain and frequency domain state feedbacks

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, S.Y.

    1986-01-01

    In this paper, we present explicitly the equivalence of the time domain and frequency domain state feedbacks, as well as the dynamic state feedback and a modified frequency domain state feedback, from the closed-loop transfer function point of view. The difference of the two approaches is also shown.

  19. Domains of Disoriented Chiral Condensate

    CERN Document Server

    Amado, R D; Lu, Yang

    1996-01-01

    The probability distribution of neutral pion fraction from independent domains of disoriented chiral condensate is characterized. The signal for the condensate is clear for a small number of domains but is greatly reduced for more than three.

  20. Ligand binding by PDZ domains

    OpenAIRE

    Celestine N. Chi; Bach, Anders; Stromgaard, Kristian; Gianni, Stefano; Jemth, Per

    2012-01-01

    The postsynaptic density protein-95/disks large/zonula occludens-1 (PDZ) protein domain family is one of the most common proteinprotein interaction modules in mammalian cells, with paralogs present in several hundred human proteins. PDZ domains are found in most cell types, but neuronal proteins, for example, are particularly rich in these domains. The general function of PDZ domains is to bring proteins together within the appropriate cellular compartment, thereby facilitating scaffolding, s...

  1. Summarization by domain ontology navigation

    DEFF Research Database (Denmark)

    Andreasen, Troels; Bulskov, Henrik

    2013-01-01

    of the subject. In between these two extremes, conceptual summaries encompass selected concepts derived using background knowledge. We address in this paper an approach where conceptual summaries are provided through a conceptualization as given by an ontology. The ontology guiding the summarization can...... be a simple taxonomy or a generative domain ontology. A domain ontology can be provided by a preanalysis of a domain corpus and can be used to condense improved summaries that better reflects the conceptualization of a given domain....

  2. Genome cartography through domain annotation.

    Science.gov (United States)

    Ponting, C P; Dickens, N J

    2001-01-01

    The evolutionary history of eukaryotic proteins involves rapid sequence divergence, addition and deletion of domains, and fusion and fission of genes. Although the protein repertoires of distantly related species differ greatly, their domain repertoires do not. To account for the great diversity of domain contexts and an unexpected paucity of ortholog conservation, we must categorize the coding regions of completely sequenced genomes into domain families, as well as protein families.

  3. Classification of Noncommutative Domain Algebras

    CERN Document Server

    Arias, Alvaro

    2012-01-01

    Noncommutative domain algebras are noncommutative analogues of the algebras of holomorphic functions on domains of $\\C^n$ defined by holomorphic polynomials, and they generalize the noncommutative Hardy algebras. We present here a complete classification of these algebras based upon techniques inspired by multivariate complex analysis, and more specifically the classification of domains in hermitian spaces up to biholomorphic equivalence.

  4. Chaotic domains: A numerical investigation

    OpenAIRE

    Cross, M. C.; Meiron, D.; Tu, Yuhai

    1994-01-01

    We study the chaotic domain state in rotating convection using a model equation that allows for a continuous range of roll orientations as in the experimental system. Methods are developed for extracting the domain configuration from the resulting patterns that should be applicable to a wide range of domain states. Comparison with the truncated three mode amplitude equation description is made.

  5. Gershgorin domains for partitioned matrices

    NARCIS (Netherlands)

    Sluis, A. van der

    1979-01-01

    Inclusion domains for the eigenvalues of a partitioned matrix are specified in terms of perturbations of its diagonal blocks. The size of such perturbations is measured using the Kantorovitch-Robert-Deutsch vectorial norms. The inclusion domains obtained thereby are compared with inclusion domains o

  6. Metaphors, domains and embodiment

    Directory of Open Access Journals (Sweden)

    M.E. Botha

    2005-07-01

    Full Text Available Investigations of metaphorical meaning constitution and meaning (in- variance have revealed the significance of semantic and semiotic domains and the contexts within which they function as basis for the grounding of metaphorical meaning. In this article some of the current views concerning the grounding of metaphorical meaning in experience and embodiment are explored. My provisional agreement with Lakoff, Johnson and others about the “conceptual” nature of metaphor rests on an important caveat, viz. that this bodily based conceptual structure which lies at the basis of linguistic articulations of metaphor, is grounded in a deeper ontic structure of the world and of human experience. It is the “metaphorical” (actually “analogical” ontological structure of this grounding that is of interest for the line of argumentation followed in this article. Because Johnson, Lakoff and other’s proposal to ground metaphorical meaning in embodiment and neural processes is open to being construed as subjectivist and materialist, I shall attempt to articulate the contours of an alternative theory of conceptual metaphor, meaning and embodiment which counteracts these possibilities. This theory grounds metaphorical meaning and meaning change in an ontological and anthropological framework which recognises the presence and conditioning functioning of radially ordered structures for reality. These categorisations in which humankind, human knowledge and reality participate, condition and constrain (ground analogical and metaphorical meaning transfer, cross-domain mappings, and blends in cognition and in language, provide the basis for the analogical concepts found in these disciplines.

  7. Ligand binding by PDZ domains

    DEFF Research Database (Denmark)

    Chi, Celestine N.; Bach, Anders; Strømgaard, Kristian

    2012-01-01

    The postsynaptic density protein-95/disks large/zonula occludens-1 (PDZ) protein domain family is one of the most common protein-protein interaction modules in mammalian cells, with paralogs present in several hundred human proteins. PDZ domains are found in most cell types, but neuronal proteins......, for example, are particularly rich in these domains. The general function of PDZ domains is to bring proteins together within the appropriate cellular compartment, thereby facilitating scaffolding, signaling, and trafficking events. The many functions of PDZ domains under normal physiological as well...

  8. The framing of scientific domains

    DEFF Research Database (Denmark)

    Dam Christensen, Hans

    2014-01-01

    Purpose: By using the UNISIST models this article argues for the necessity of domain analysis in order to qualify scientific information seeking. The models better understanding of communication processes in a scientific domain and embraces the point that domains are always both unstable over time...... and changeable according to the specific perspective. This understanding is even more important today as numerous digitally generated information tools as well as collaborative and interdisciplinary research are blurring the domain borders. Nevertheless, researchers navigate “intuitively” in “their” specific...... as according to the agents that are charting them. As such, power in a Foucauldian sense is unavoidable in outlining a domain. Originality/value 1. The UNISIST models are applied to the domain of art history; and 2. the article discusses the instability of a scientific domain as well as, at the same time...

  9. The framing of scientific domains

    DEFF Research Database (Denmark)

    Dam Christensen, Hans

    2014-01-01

    Purpose: By using the UNISIST models this article argues for the necessity of domain analysis in order to qualify scientific information seeking. The models better understanding of communication processes in a scientific domain and embraces the point that domains are always both unstable over time...... as according to the agents that are charting them. As such, power in a Foucauldian sense is unavoidable in outlining a domain. Originality/value 1. The UNISIST models are applied to the domain of art history; and 2. the article discusses the instability of a scientific domain as well as, at the same time......, the significance of framing a domain; an implication which is often neglected in scientific information seeking....

  10. Protein domain organisation: adding order

    Directory of Open Access Journals (Sweden)

    Kummerfeld Sarah K

    2009-01-01

    Full Text Available Abstract Background Domains are the building blocks of proteins. During evolution, they have been duplicated, fused and recombined, to produce proteins with novel structures and functions. Structural and genome-scale studies have shown that pairs or groups of domains observed together in a protein are almost always found in only one N to C terminal order and are the result of a single recombination event that has been propagated by duplication of the multi-domain unit. Previous studies of domain organisation have used graph theory to represent the co-occurrence of domains within proteins. We build on this approach by adding directionality to the graphs and connecting nodes based on their relative order in the protein. Most of the time, the linear order of domains is conserved. However, using the directed graph representation we have identified non-linear features of domain organization that are over-represented in genomes. Recognising these patterns and unravelling how they have arisen may allow us to understand the functional relationships between domains and understand how the protein repertoire has evolved. Results We identify groups of domains that are not linearly conserved, but instead have been shuffled during evolution so that they occur in multiple different orders. We consider 192 genomes across all three kingdoms of life and use domain and protein annotation to understand their functional significance. To identify these features and assess their statistical significance, we represent the linear order of domains in proteins as a directed graph and apply graph theoretical methods. We describe two higher-order patterns of domain organisation: clusters and bi-directionally associated domain pairs and explore their functional importance and phylogenetic conservation. Conclusion Taking into account the order of domains, we have derived a novel picture of global protein organization. We found that all genomes have a higher than expected

  11. Dynamical domain wall and localization

    Directory of Open Access Journals (Sweden)

    Yuta Toyozato

    2016-03-01

    Full Text Available Based on the previous works (Toyozato et al., 2013 [24]; Higuchi and Nojiri, 2014 [25], we investigate the localization of the fields on the dynamical domain wall, where the four-dimensional FRW universe is realized on the domain wall in the five-dimensional space–time. Especially we show that the chiral spinor can localize on the domain wall, which has not been succeeded in the past works as the seminal work in George et al. (2009 [23].

  12. Domain imaging in FINEMET ribbons

    Energy Technology Data Exchange (ETDEWEB)

    Silveyra, J.M., E-mail: jsilveyra@fi.uba.a [Laboratorio de Solidos Amorfos, INTECIN, Facultad de Ingenieria, UBA-CONICET, Paseo Colon 850, (C1063ACV) Buenos Aires (Argentina); Vlasak, G.; Svec, P.; Janickovic, D. [Institute of Physics, Slovak Academy of Sciences, Dubravska cesta 9, 845 11 Bratislava (Slovakia); Cremaschi, V.J., E-mail: vcremas@gmail.co [Laboratorio de Solidos Amorfos, INTECIN, Facultad de Ingenieria, UBA-CONICET, Paseo Colon 850, (C1063ACV) Buenos Aires (Argentina); Member of Carrera del Investigador, CONICET (Argentina)

    2010-09-15

    The magnetization behaviour of a ferromagnetic material depends on its domain structure, which in turn is largely determined by magnetic anisotropies. In this work, domain patterns were observed by a quite forgotten but still the simplest and the cheapest technique: the Bitter method. A systematic study of the evolution of the domain structure in FINEMET ribbons after thermal annealing is presented, correlating the results with the crystalline structure, magnetostriction and coercivity measurements.

  13. Discoidin Domain Receptor 1

    Science.gov (United States)

    Song, Sunmi; Shackel, Nicholas A.; Wang, Xin M.; Ajami, Katerina; McCaughan, Geoffrey W.; Gorrell, Mark D.

    2011-01-01

    Discoidin domain receptor 1 (DDR1) is a receptor tyrosine kinase that binds and is activated by collagens. Transcriptional profiling of cirrhosis in human liver using a DNA array and quantitative PCR detected elevated mRNA expression of DDR1 compared with that in nondiseased liver. The present study characterized DDR1 expression in cirrhotic and nondiseased human liver and examined the cellular effects of DDR1 expression. mRNA expression of all five isoforms of DDR1 was detected in human liver, whereas DDR1a demonstrated differential expression in liver with hepatitis C virus and primary biliary cirrhosis compared with nondiseased liver. In addition, immunoblot analysis detected shed fragments of DDR1 more readily in cirrhotic liver than in nondiseased liver. Inasmuch as DDR1 is subject to protease-mediated cleavage after prolonged interaction with collagen, this differential expression may indicate more intense activation of DDR1 protein in cirrhotic compared with nondiseased liver. In situ hybridization and immunofluorescence localized intense DDR1 mRNA and protein expression to epithelial cells including hepatocytes at the portal-parenchymal interface and the luminal aspect of the biliary epithelium. Overexpression of DDR1a altered hepatocyte behavior including increased adhesion and less migration on extracelular matrix substrates. DDR1a regulated extracellular expression of matrix metalloproteinases 1 and 2. These data elucidate DDR1 function pertinent to cirrhosis and indicate the importance of epithelial cell–collagen interactions in chronic liver injury. PMID:21356365

  14. Mapping the Moral Domain

    Science.gov (United States)

    Graham, Jesse; Nosek, Brian A.; Haidt, Jonathan; Iyer, Ravi; Koleva, Spassena; Ditto, Peter H.

    2010-01-01

    The moral domain is broader than the empathy and justice concerns assessed by existing measures of moral competence, and it is not just a subset of the values assessed by value inventories. To fill the need for reliable and theoretically-grounded measurement of the full range of moral concerns, we developed the Moral Foundations Questionnaire (MFQ) based on a theoretical model of five universally available (but variably developed) sets of moral intuitions: Harm/care, Fairness/reciprocity, Ingroup/loyalty, Authority/respect, and Purity/sanctity. We present evidence for the internal and external validity of the scale and the model, and in doing so present new findings about morality: 1. Comparative model fitting of confirmatory factor analyses provides empirical justification for a five-factor structure of moral concerns. 2. Convergent/discriminant validity evidence suggests that moral concerns predict personality features and social group attitudes not previously considered morally relevant. 3. We establish pragmatic validity of the measure in providing new knowledge and research opportunities concerning demographic and cultural differences in moral intuitions. These analyses provide evidence for the usefulness of Moral Foundations Theory in simultaneously increasing the scope and sharpening the resolution of psychological views of morality. PMID:21244182

  15. Ontology development for Sufism domain

    Science.gov (United States)

    Iqbal, Rizwan

    2012-01-01

    Domain ontology is a descriptive representation of any particular domain which in detail describes the concepts in a domain, the relationships among those concepts and organizes them in a hierarchal manner. It is also defined as a structure of knowledge, used as a means of knowledge sharing to the community. An Important aspect of using ontologies is to make information retrieval more accurate and efficient. Thousands of domain ontologies from all around the world are available online on ontology repositories. Ontology repositories like SWOOGLE currently have over 1000 ontologies covering a wide range of domains. It was found that up to date there was no ontology available covering the domain of "Sufism". This unavailability of "Sufism" domain ontology became a motivation factor for this research. This research came up with a working "Sufism" domain ontology as well a framework, design of the proposed framework focuses on the resolution to problems which were experienced while creating the "Sufism" ontology. The development and working of the "Sufism" domain ontology are covered in detail in this research. The word "Sufism" is a term which refers to Islamic mysticism. One of the reasons to choose "Sufism" for ontology creation is its global curiosity. This research has also managed to create some individuals which inherit the concepts from the "Sufism" ontology. The creation of individuals helps to demonstrate the efficient and precise retrieval of data from the "Sufism" domain ontology. The experiment of creating the "Sufism" domain ontology was carried out on a tool called Protégé. Protégé is a tool which is used for ontology creation, editing and it is open source.

  16. Taxonomies of Educational Objective Domain

    OpenAIRE

    Eman Ghanem Nayef; Nik Rosila Nik Yaacob; Hairul Nizam Ismail

    2013-01-01

    This paper highlights an effort to study the educational objective domain taxonomies including Bloom’s taxonomy, Lorin Anderson’s taxonomy, and Wilson’s taxonomy. In this study a comparison among these three taxonomies have been done. Results show that Bloom’s taxonomy is more suitable as an analysis tool to Educational Objective domain.

  17. On Probability Domains

    Science.gov (United States)

    Frič, Roman; Papčo, Martin

    2010-12-01

    Motivated by IF-probability theory (intuitionistic fuzzy), we study n-component probability domains in which each event represents a body of competing components and the range of a state represents a simplex S n of n-tuples of possible rewards-the sum of the rewards is a number from [0,1]. For n=1 we get fuzzy events, for example a bold algebra, and the corresponding fuzzy probability theory can be developed within the category ID of D-posets (equivalently effect algebras) of fuzzy sets and sequentially continuous D-homomorphisms. For n=2 we get IF-events, i.e., pairs ( μ, ν) of fuzzy sets μ, ν∈[0,1] X such that μ( x)+ ν( x)≤1 for all x∈ X, but we order our pairs (events) coordinatewise. Hence the structure of IF-events (where ( μ 1, ν 1)≤( μ 2, ν 2) whenever μ 1≤ μ 2 and ν 2≤ ν 1) is different and, consequently, the resulting IF-probability theory models a different principle. The category ID is cogenerated by I=[0,1] (objects of ID are subobjects of powers I X ), has nice properties and basic probabilistic notions and constructions are categorical. For example, states are morphisms. We introduce the category S n D cogenerated by Sn=\\{(x1,x2,ldots ,xn)in In;sum_{i=1}nxi≤ 1\\} carrying the coordinatewise partial order, difference, and sequential convergence and we show how basic probability notions can be defined within S n D.

  18. Texture of lipid bilayer domains

    DEFF Research Database (Denmark)

    Jensen, Uffe Bernchou; Brewer, Jonathan R.; Midtiby, Henrik Skov;

    2009-01-01

    We investigate the texture of gel (g) domains in binary lipid membranes composed of the phospholipids DPPC and DOPC. Lateral organization of lipid bilayer membranes is a topic of fundamental and biological importance. Whereas questions related to size and composition of fluid membrane domain...... are well studied, the possibility of texture in gel domains has so far not been examined. When using polarized light for two-photon excitation of the fluorescent lipid probe Laurdan, the emission intensity is highly sensitive to the angle between the polarization and the tilt orientation of lipid acyl...... chains. By imaging the intensity variations as a function of the polarization angle, we map the lateral variations of the lipid tilt within domains. Results reveal that gel domains are composed of subdomains with different lipid tilt directions. We have applied a Fourier decomposition method...

  19. Domain wall description of superconductivity

    CERN Document Server

    Brito, F A; Silva, J C M

    2012-01-01

    In the present work we shall address the issue of electrical conductivity in superconductors in the perspective of superconducting domain wall solutions in the realm of field theory. We take our set up made out of a dynamical complex scalar field coupled to gauge field to be responsible for superconductivity and an extra scalar real field that plays the role of superconducting domain walls. The temperature of the system is interpreted as the parameter to move type I to type II domain walls. Alternatively, this means that the domain wall surface is suffering an acceleration as one goes from one type to another. On the other hand, changing from type I to type II state means a formation of a condensate what is in perfect sense of lowering the temperature around the superconductor. One can think of this scenario as an analog of holographic scenarios where this set up is replaced by a black hole near the domain wall.

  20. Phase-domain photoacoustic sensing

    Science.gov (United States)

    Gao, Fei; Zhang, Ruochong; Feng, Xiaohua; Liu, Siyu; Ding, Ran; Kishor, Rahul; Qiu, Lei; Zheng, Yuanjin

    2017-01-01

    As one of the fastest-growing imaging modalities in recent years, photoacoustic imaging has attracted tremendous research interest for various applications including anatomical, functional, and molecular imaging. The majority of the photoacoustic imaging systems are based on the time-domain pulsed photoacoustic method, which utilizes a pulsed laser source to induce a wideband photoacoustic signal, revealing optical absorption contrast. An alternative way is the frequency-domain photoacoustic method utilizing the chirping modulation of laser intensity to achieve lower system cost. In this paper, we report another way of the photoacoustic method, called phase-domain photoacoustic sensing, which explores the phase difference between two consequent intensity-modulated laser pulse induced photoacoustic measurements to reveal the optical properties. The basic principle is introduced, modeled, and experimentally validated in this paper, which opens another potential pathway to perform photoacoustic sensing and imaging, eliminating acoustic detection variations beyond the conventional time-domain and frequency-domain photoacoustic methods.

  1. Mutation of domain III and domain VI in L gene conserved domain of Nipah virus

    Science.gov (United States)

    Jalani, Siti Aishah; Ibrahim, Nazlina

    2016-11-01

    Nipah virus (NiV) is the etiologic agent responsible for the respiratory illness and causes fatal encephalitis in human. NiV L protein subunit is thought to be responsible for the majority of enzymatic activities involved in viral transcription and replication. The L protein which is the viral RNA dependent RNA polymerase has high sequence homology among negative sense RNA viruses. In negative stranded RNA viruses, based on sequence alignment six conserved domain (domain I-IV) have been determined. Each domain is separated on variable regions that suggest the structure to consist concatenated functional domain. To directly address the roles of domains III and VI, site-directed mutations were constructed by the substitution of bases at sequences 2497, 2500, 5528 and 5532. Each mutated L gene can be used in future studies to test the ability for expression on in vitro translation.

  2. Domain Walls in SU(5)

    CERN Document Server

    Poghosian, L E; Pogosian, Levon; Vachaspati, Tanmay

    2000-01-01

    We consider the Grand Unified SU(5) model with a small or vanishing cubic term in the adjoint scalar field in the potential. This gives the model an approximate or exact Z$_2$ symmetry whose breaking leads to domain walls. The simplest domain wall has the structure of a kink across which the Higgs field changes sign ($\\Phi \\to -\\Phi$) and inside which the full SU(5) is restored. The kink is shown to be perturbatively unstable for all parameters. We then construct a domain wall solution that is lighter than the kink and show it to be perturbatively stable for a range of parameters. The symmetry in the core of this domain wall is smaller than that outside. The interactions of the domain wall with magnetic monopole is discussed and it is shown that magnetic monopoles with certain internal space orientations relative to the wall pass through the domain wall. Magnetic monopoles in other relative internal space orientations are likely to be swept away on collision with the domain walls, suggesting a scenario where ...

  3. Predicting domain-domain interaction based on domain profiles with feature selection and support vector machines

    Directory of Open Access Journals (Sweden)

    Liao Li

    2010-10-01

    Full Text Available Abstract Background Protein-protein interaction (PPI plays essential roles in cellular functions. The cost, time and other limitations associated with the current experimental methods have motivated the development of computational methods for predicting PPIs. As protein interactions generally occur via domains instead of the whole molecules, predicting domain-domain interaction (DDI is an important step toward PPI prediction. Computational methods developed so far have utilized information from various sources at different levels, from primary sequences, to molecular structures, to evolutionary profiles. Results In this paper, we propose a computational method to predict DDI using support vector machines (SVMs, based on domains represented as interaction profile hidden Markov models (ipHMM where interacting residues in domains are explicitly modeled according to the three dimensional structural information available at the Protein Data Bank (PDB. Features about the domains are extracted first as the Fisher scores derived from the ipHMM and then selected using singular value decomposition (SVD. Domain pairs are represented by concatenating their selected feature vectors, and classified by a support vector machine trained on these feature vectors. The method is tested by leave-one-out cross validation experiments with a set of interacting protein pairs adopted from the 3DID database. The prediction accuracy has shown significant improvement as compared to InterPreTS (Interaction Prediction through Tertiary Structure, an existing method for PPI prediction that also uses the sequences and complexes of known 3D structure. Conclusions We show that domain-domain interaction prediction can be significantly enhanced by exploiting information inherent in the domain profiles via feature selection based on Fisher scores, singular value decomposition and supervised learning based on support vector machines. Datasets and source code are freely available on

  4. Wavefield extrapolation in pseudodepth domain

    KAUST Repository

    Ma, Xuxin

    2013-02-01

    Wavefields are commonly computed in the Cartesian coordinate frame. Its efficiency is inherently limited due to spatial oversampling in deep layers, where the velocity is high and wavelengths are long. To alleviate this computational waste due to uneven wavelength sampling, we convert the vertical axis of the conventional domain from depth to vertical time or pseudodepth. This creates a nonorthognal Riemannian coordinate system. Isotropic and anisotropic wavefields can be extrapolated in the new coordinate frame with improved efficiency and good consistency with Cartesian domain extrapolation results. Prestack depth migrations are also evaluated based on the wavefield extrapolation in the pseudodepth domain.© 2013 Society of Exploration Geophysicists. All rights reserved.

  5. Structure of axionic domain walls

    Science.gov (United States)

    Huang, M. C.; Sikivie, P.

    1985-09-01

    The structure of axionic domain walls is investigated using the low-energy effective theory of axions and pions. We derive the spatial dependence of the phases of the Peccei-Quinn scalar field and the QCD quark-antiquark condensates inside an axionic domain wall. Thence an accurate estimate of the wall surface energy density is obtained. The equations of motion for axions, photons, leptons, and baryons in the neighborhood of axionic domain walls are written down and estimates are given for the wall reflection and transmission coefficients of these particles. Finally, we discuss the energy dissipation by axionic domain walls oscillating in the early universe due to the reflection of particles in the primordial soup.

  6. Structure of axionic domain walls

    Energy Technology Data Exchange (ETDEWEB)

    Huang, M.C.; Sikivie, P.

    1985-09-15

    The structure of axionic domain walls is investigated using the low-energy effective theory of axions and pions. We derive the spatial dependence of the phases of the Peccei-Quinn scalar field and the QCD quark-antiquark condensates inside an axionic domain wall. Thence an accurate estimate of the wall surface energy density is obtained. The equations of motion for axions, photons, leptons, and baryons in the neighborhood of axionic domain walls are written down and estimates are given for the wall reflection and transmission coefficients of these particles. Finally, we discuss the energy dissipation by axionic domain walls oscillating in the early universe due to the reflection of particles in the primordial soup.

  7. Toeplitz operators on connected domains

    Institute of Scientific and Technical Information of China (English)

    CAO; Guangfu

    2006-01-01

    The proof of the index formula of the Toeplitz operator with a continuous symbol on the Hardy space for the unit circle in the complex plane depends on the Hopftheorem. However,the analogue result of the Hopf theorem does not hold on a general connected domain. Hence,the extension of the index formula of the Toeplitz operator on a general domain needs a method which is different from that for the case of the unit circle. In the present paper, the index formula of the Toeplitz operator with a continuous symbol on the finite complex connected domain in the complex plane is obtained, and the cohomology groups of Toeplitz algebras on general domains are discussed. In addition, the Toeplitz operators with symbols in QC are also discussed.

  8. Concept Convergence in Empirical Domains

    Science.gov (United States)

    Ontañón, Santiago; Plaza, Enric

    How to achieve shared meaning is a significant issue when more than one intelligent agent is involved in the same domain. We define the task of concept convergence, by which intelligent agents can achieve a shared, agreed-upon meaning of a concept (restricted to empirical domains). For this purpose we present a framework that, integrating computational argumentation and inductive concept learning, allows a pair of agents to (1) learn a concept in an empirical domain, (2) argue about the concept's meaning, and (3) reach a shared agreed-upon concept definition. We apply this framework to marine sponges, a biological domain where the actual definitions of concepts such as orders, families and species are currently open to discussion. An experimental evaluation on marine sponges shows that concept convergence is achieved, within a reasonable number of interchanged arguments, and reaching short and accurate definitions (with respect to precision and recall).

  9. Critical SQG in bounded domains

    OpenAIRE

    Constantin, Peter; Ignatova, Mihaela

    2016-01-01

    We consider the critical dissipative SQG equation in bounded domains, with the square root of the Dirichlet Laplacian dissipation. We prove global a priori interior $C^{\\alpha}$ and Lipschitz bounds for large data.

  10. Domain Decomposition Solvers for Frequency-Domain Finite Element Equations

    KAUST Repository

    Copeland, Dylan

    2010-10-05

    The paper is devoted to fast iterative solvers for frequency-domain finite element equations approximating linear and nonlinear parabolic initial boundary value problems with time-harmonic excitations. Switching from the time domain to the frequency domain allows us to replace the expensive time-integration procedure by the solution of a simple linear elliptic system for the amplitudes belonging to the sine- and to the cosine-excitation or a large nonlinear elliptic system for the Fourier coefficients in the linear and nonlinear case, respectively. The fast solution of the corresponding linear and nonlinear system of finite element equations is crucial for the competitiveness of this method. © 2011 Springer-Verlag Berlin Heidelberg.

  11. Z-拟代数Domain%Z-Quasialgebraic Domain

    Institute of Scientific and Technical Information of China (English)

    杨金波; 罗懋康

    2005-01-01

    对一般的子集系统Z,引入Z-拟代数domain的概念,证明了Z-domain P是Z-拟代数的当且仅当P上的Z-Scott拓扑σz(P)在集包含序下是代数的超连续格,即超代数格;Z-拟代数domain P上的Z-Scott拓扑σz(P)是Sober的当且仅当空间(P,σz(P))具有弱Rudin性质.

  12. Domain wall description of superconductivity

    Energy Technology Data Exchange (ETDEWEB)

    Brito, F.A. [Departamento de Física, Universidade Federal de Campina Grande, Caixa Postal 10071, 58109-970 Campina Grande, Paraíba (Brazil); Freire, M.L.F. [Departamento de Física, Universidade Estadual da Paraíba, 58109-753 Campina Grande, Paraíba (Brazil); Mota-Silva, J.C. [Departamento de Física, Universidade Federal de Campina Grande, Caixa Postal 10071, 58109-970 Campina Grande, Paraíba (Brazil); Departamento de Física, Universidade Federal da Paraíba, Caixa Postal 5008, 58051-970 João Pessoa, Paraíba (Brazil)

    2014-01-20

    In the present work we shall address the issue of electrical conductivity in superconductors in the perspective of superconducting domain wall solutions in the realm of field theory. We take our set up made out of a dynamical complex scalar field coupled to gauge field to be responsible for superconductivity and an extra scalar real field that plays the role of superconducting domain walls. The temperature of the system is interpreted through the fact that the soliton following accelerating orbits is a Rindler observer experiencing a thermal bath.

  13. Inferring domain-domain interactions from protein-protein interactions with formal concept analysis.

    Directory of Open Access Journals (Sweden)

    Susan Khor

    Full Text Available Identifying reliable domain-domain interactions will increase our ability to predict novel protein-protein interactions, to unravel interactions in protein complexes, and thus gain more information about the function and behavior of genes. One of the challenges of identifying reliable domain-domain interactions is domain promiscuity. Promiscuous domains are domains that can occur in many domain architectures and are therefore found in many proteins. This becomes a problem for a method where the score of a domain-pair is the ratio between observed and expected frequencies because the protein-protein interaction network is sparse. As such, many protein-pairs will be non-interacting and domain-pairs with promiscuous domains will be penalized. This domain promiscuity challenge to the problem of inferring reliable domain-domain interactions from protein-protein interactions has been recognized, and a number of work-arounds have been proposed. This paper reports on an application of Formal Concept Analysis to this problem. It is found that the relationship between formal concepts provides a natural way for rare domains to elevate the rank of promiscuous domain-pairs and enrich highly ranked domain-pairs with reliable domain-domain interactions. This piggybacking of promiscuous domain-pairs onto less promiscuous domain-pairs is possible only with concept lattices whose attribute-labels are not reduced and is enhanced by the presence of proteins that comprise both promiscuous and rare domains.

  14. Computations of Bergman Kernels on Hua Domains

    Institute of Scientific and Technical Information of China (English)

    殷慰萍; 王安; 赵振刚; 赵晓霞; 管冰辛

    2001-01-01

    @@The Bergman kernel function plays an important ro1e in several complex variables.There exists the Bergman kernel function on any bounded domain in Cn. But we can get the Bergman kernel functions in explicit formulas for a few types of domains only,for example:the bounded homogeneous domains and the egg domain in some cases.

  15. A Method to Examine Content Domain Structures

    Science.gov (United States)

    D'Agostino, Jerome; Karpinski, Aryn; Welsh, Megan

    2011-01-01

    After a test is developed, most content validation analyses shift from ascertaining domain definition to studying domain representation and relevance because the domain is assumed to be set once a test exists. We present an approach that allows for the examination of alternative domain structures based on extant test items. In our example based on…

  16. Domain specific MT in use

    DEFF Research Database (Denmark)

    Offersgaard, Lene; Povlsen, Claus; Almsten, Lisbeth Kjeldgaard

    2008-01-01

    The paper focuses on domain specific use of MT with a special focus on SMT in the workflow of a Language Service Provider (LSP). We report on the feedback of post-editors using fluency/adequacy evaluation and the evaluation metric ’Usability’, understood in this context as where users on a three ...

  17. Ubiquitin domain proteins in disease

    DEFF Research Database (Denmark)

    Klausen, Louise Kjær; Schulze, Andrea; Seeger, Michael;

    2007-01-01

    The human genome encodes several ubiquitin-like (UBL) domain proteins (UDPs). Members of this protein family are involved in a variety of cellular functions and many are connected to the ubiquitin proteasome system, an essential pathway for protein degradation in eukaryotic cells. Despite...... and cancer. Publication history: Republished from Current BioData's Targeted Proteins database (TPdb; http://www.targetedproteinsdb.com)....

  18. Partial domain wall partition functions

    CERN Document Server

    Foda, O

    2012-01-01

    We consider six-vertex model configurations on a rectangular lattice with n (N) horizontal (vertical) lines, and "partial domain wall boundary conditions" defined as 1. all 2n arrows on the left and right boundaries point inwards, 2. n_u (n_l) arrows on the upper (lower) boundary, such that n_u + n_l = N - n, also point inwards, 3. all remaining n+N arrows on the upper and lower boundaries point outwards, and 4. all spin configurations on the upper and lower boundaries are summed over. To generate (n-by-N) "partial domain wall configurations", one can start from A. (N-by-N) configurations with domain wall boundary conditions and delete n_u (n_l) upper (lower) horizontal lines, or B. (2n-by-N) configurations that represent the scalar product of an n-magnon Bethe eigenstate and an n-magnon generic state on an N-site spin-1/2 chain, and delete the n lines that represent the Bethe eigenstate. The corresponding "partial domain wall partition function" is computed in construction {A} ({B}) as an N-by-N (n-by-n) det...

  19. Development in the Food Domain.

    Science.gov (United States)

    Rozin, Paul

    1990-01-01

    Discusses problems of general interest in developmental psychology that can be successfully studied in the domain of food; these include (1) development of food likes and dislikes; (2) establishment of the edible/inedible distinction; (3) disgust and contagion; (4) transgenerational communication of preferences; and (5) transition to food…

  20. Overlap/Domain-wall reweighting

    CERN Document Server

    Fukaya, H; Cossu, G; Hashimoto, S; Kaneko, T; Noaki, J

    2013-01-01

    We investigate the eigenvalues of nearly chiral lattice Dirac operators constructed with five-dimensional implementations. Allowing small violation of the Ginsparg-Wilson relation, the HMC simulation is made much faster while the eigenvalues are not significantly affected. We discuss the possibility of reweighting the gauge configurations generated with domain-wall fermions to those of exactly chiral lattice fermions.

  1. Cellulose binding domain fusion proteins

    Science.gov (United States)

    Shoseyov, Oded; Shpiegl, Itai; Goldstein, Marc A.; Doi, Roy H.

    1998-01-01

    A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

  2. Frequency-Domain Optical Mammogram

    Science.gov (United States)

    2002-10-01

    the tumor. * Combination of the above two points into a composite false-color breast image containing structural information (from the second...Antonangeli, A. Savoia, T. Parasassi, and N. Rosato, " Plastique : a synchrotron radiation beamline for time resolved fluorescence in the frequency domain

  3. Nonlinear Evolution of Ferroelectric Domains

    Institute of Scientific and Technical Information of China (English)

    WeiLU; Dai-NingFANG; 等

    1997-01-01

    The nonlinear evolution of ferroelectric domains is investigated in the paper and amodel is proposed which can be applied to numerical computation.Numerical results show that the model can accurately predict some nonlinear behavior and consist with those experimental results.

  4. Weakly distributive domains(Ⅱ)

    Institute of Scientific and Technical Information of China (English)

    JIANG Ying; ZHANG Guo-Qiang

    2007-01-01

    In our previous work(Inform.and Comput.,2005,202:87-103),we have shown that for any ω-algebraic meet-cpo D,if all higher-order stable function spaces built from D are ω-algebraic,then D is finitary.This accomplishes the first of a possible,two-step process in solving the problem raised(LNCS,1991,530:16-33;Domainsand lambda-calculi,Cambridge Univ.Press,1998)whetherthe category of stable bifinite domains of Amadio-Droste-G(o)bel(LNCS,1991,530:16-33;Theor.Comput.Sci.,1993,111:89-101)is the largest cartesian closed full subcategory within the category of ω-algebraic meet-cpos with stable functions.This paper presents the results of the second step,which is to show that for any ω-algebraic meet-cpo D satisfying axioms M and I to be contained in a cartesian closed full sub-category using ω-algebraic meet-cpos with stable functions,it must not violate M I∞.We introduce a new class of domains called weakly distributive domains and show that for these domains to be in a cartesian closed category using ω-algebraic meet-cpos,property M I must not be violated.Further,we demonstrate that principally distributive domains(those for which each principle ideal is distributive)form a proper subclass of weakly distributive domains,and Birkhoff's M3 and N5(Introduction to Lattices and order,Cambridge Univ.Press,2002)are weakly distributive(but non-distributive).Then,we establish characterization results for weakly distributive domains.We also introduce the notion of meet-generators in constructing stable functions and show that if an ω-algebraic meet-cpo D contains an infinite number of meet-generators,then[D→D]fails I.However,the original problem of Amadio and Curien remains open.

  5. Decomposition and Removability Properties of John Domains

    Indian Academy of Sciences (India)

    M Huang; S Ponnusamy; X Wang

    2008-08-01

    In this paper we characterize John domains in terms of John domain decomposition property. In addition, we also show that a domain in $\\mathbb{R}^n$ is a John domain if and only if $D\\backslash P$ is a John domain, where is a subset of containing finitely many points of . The best possibility and an application of the second result are also discussed.

  6. Diffusion-damped domain wall dynamics

    Energy Technology Data Exchange (ETDEWEB)

    Varga, R; Infante, G [Inst. Phys., Fac. Sci., UPJS, Park Angelinum 9, 04154 Kosice (Slovakia); Badini-Confalonieri, G A; Vazquez, M, E-mail: rvarga@upjs.s [Instituto de Ciencia de Materiales de Madrid, CSIC, Cantoblanco, 28049, Madrid (Spain)

    2010-01-01

    In the given work, the influence of diffusional damping on the domain wall dynamics of heat treated FeSiBP microwires is presented. Two regions of the domain wall dynamics have been found. At low applied fields diffusion damping prevails, keeping the domain wall velocity and mobility low. At higher fields, the diffusional effects are overcomed and domain wall velocity increases steeply and so does the domain wall mobility.

  7. PUBLIC DOMAIN PROTECTION. USES AND REUSES OF PUBLIC DOMAIN WORKS

    OpenAIRE

    Monica Adriana LUPAȘCU

    2015-01-01

    This study tries to highlight the necessity of an awareness of the right of access to the public domain, particularly using the example of works whose protection period has expired, as well as the ones which the law considers to be excluded from protection. Such works are used not only by large libraries from around the world, but also by rights holders, via different means of use, including incorporations into original works or adaptations. However, the reuse that follows these uses often on...

  8. Effect of obesity and exercise on the expression of the novel myokines, Myonectin and Fibronectin type III domain containing 5

    Directory of Open Access Journals (Sweden)

    Jonathan M. Peterson

    2014-09-01

    obesity and/or exercise and would have skewed the results of this study if used to normalize gene expression data. The unstable reference genes include: beta-Actin, beta-2-microglobulin, Non-POU domain containing, octamer-binding, Peptidylprolyl isomerase H, 18S ribosomal RNA, TATA box binding protein and Transferrin receptor.

  9. Effect of obesity and exercise on the expression of the novel myokines, Myonectin and Fibronectin type III domain containing 5

    Science.gov (United States)

    Mart, Ryan; Bond, Cherie E.

    2014-01-01

    /or exercise and would have skewed the results of this study if used to normalize gene expression data. The unstable reference genes include: beta-Actin, beta-2-microglobulin, Non-POU domain containing, octamer-binding, Peptidylprolyl isomerase H, 18S ribosomal RNA, TATA box binding protein and Transferrin receptor. PMID:25289190

  10. The Distributed-SDF Domain

    DEFF Research Database (Denmark)

    Cuadrado, Daniel Lázaro; Ravn, Anders Peter; Koch, Peter

    2005-01-01

    The purpose of the Distributed-SDF domain for Ptolemy II is to allow distributed simulation of SDF models. It builds on top of the existing SDF domain by extending it. From the user’s point of view, using the Distributed-SDF director is sufficient to run the distributed version. It provides options...... (in the form of parameters in the configuration dialog) to generate sequential or parallel schedules and to execute the simulation in a local or distributed manner. The director relies on the Distributed-SDF scheduler (that extends the existing SDF scheduler) to generate parallel schedules...... that will constitute the distributed platform. In order to make this distributed platform dynamic and transparent for the user, we use JINI as a peer discovery protocol. The server processes register with a lookup service and they are discovered by the Distributed-SDF director whenever a simulation is to be performed...

  11. Balanced metrics on Hartogs domains

    CERN Document Server

    Loi, Andrea

    2010-01-01

    An n-dimensional strictly pseudoconvex Hartogs domain $D_F$ can be equipped with a natural Kaehler metric g_F. In this paper we prove that if m_0g_F is balanced for a given positive integer m_0 then m_0>n and (D_F, g_F) is holomorphically isometric to an open subset of the n-dimensional complex hyperbolic space.

  12. A Domain Specific DSP Processor

    OpenAIRE

    Tell, Eric

    2001-01-01

    This thesis describes the design of a domain specific DSP processor. The thesis is divided into two parts. The first part gives some theoretical background, describes the different steps of the design process (both for DSP processors in general and for this project) and motivates the design decisions made for this processor. The second part is a nearly complete design specification. The intended use of the processor is as a platform for hardware acceleration units. Support for this has howe...

  13. Superconductivity in domains with corners

    DEFF Research Database (Denmark)

    Bonnaillie-Noel, Virginie; Fournais, Søren

    2007-01-01

    We study the two-dimensional Ginzburg-Landau functional in a domain with corners for exterior magnetic field strengths near the critical field where the transition from the superconducting to the normal state occurs. We discuss and clarify the definition of this field and obtain a complete...... asymptotic expansion for it in the large $\\kappa$ regime. Furthermore, we discuss nucleation of superconductivity at the boundary....

  14. Subharmonic Fourier domain mode locking.

    Science.gov (United States)

    Eigenwillig, Christoph M; Wieser, Wolfgang; Biedermann, Benjamin R; Huber, Robert

    2009-03-15

    We demonstrate a subharmonically Fourier domain mode-locked wavelength-swept laser source with a substantially reduced cavity fiber length. In contrast to a standard Fourier domain mode-locked configuration, light is recirculated repetitively in the delay line with the optical bandpass filter used as switch. The laser has a fundamental optical round trip frequency of 285 kHz and can be operated at integer fractions thereof (subharmonics). Sweep ranges up to 95 nm full width centred at 1317 nm are achieved at the 1/5th subharmonic. A maximum sensitivity of 116 dB and an axial resolution of 12 microm in air are measured at an average sweep power of 12 mW. A sensitivity roll-off of 11 dB over 4 mm and 25 dB over 10 mm is observed and optical coherence tomography imaging is demonstrated. Besides the advantage of a reduced fiber length, subharmonic Fourier domain mode locking (shFDML) enables simple scaling of the sweep speed by extracting light from the delay part of the resonator. A sweep rate of 570 kHz is achieved. Characteristic features of shFDML operation, such as power leakage during fly-back and cw breakthrough, are investigated.

  15. Assessment of postural stability in patients with a transtibial amputation with various times of prosthesis use [Hodnocení posturální stability pacientů s transtibiální amputací s různou dobou používání protézy

    Directory of Open Access Journals (Sweden)

    Dagmar Kozáková

    2009-09-01

    for COP sways in a mediolateral direction and for COP movement velocity in both anteroposterior and mediolateral directions (p < 0.01, p < 0.05. We did not find differences between all the tested standing modifications (except for the natural bipedal standing position in sways and COP velocity movements. With a prolonged period of waiting for a prosthesis fitting we can observe an enlarged asymmetry of body weight distribution between the legs and also a higher range of COP sway and velocity. CONCLUSIONS: In all measurements in patients with a transtibial amputation, our results show a greater loading on the sound limb compared to the prosthetic one. Faster prosthesis fitting decreases asymmetry from body weight distribution between both of the legs. The basic goal of achieving full value life in patients after lower limb amputation is a tendency towards early prosthesis fitting. [VÝCHODISKA: Ztráta somatosenzorické informace z dolní končetiny způsobená amputací se podílí na vzniku potíží při udržení posturální stability, které zvyšují riziko pádu. Snaha o včasné vybavení protézou, při zohlednění všech působících vlivů (typ amputace, zdravotní stav pacienta, finanční náročnost apod., je nezbytným předpokladem pro návrat osob s amputací do běžného života. CÍLE: Cílem studie bylo zhodnocení vybraných biomechanických parametrů stability stoje u osob s transtibiální amputací s různou dobou používání protézy. Dále posouzení vlivu doby čekání na vybavení protetickou pomůckou na stabilitu stoje v různých situacích. METODIKA: Sledovaný soubor tvořilo 21 pacientů (průměrný věk 64,4 ± 9,18 let s jednostrannou transtibiální amputací. Příčinou amputace bylo u 12 testovaných osob cévní onemocnění, u 8 testovaných osob trauma a u 1 tumor. Průměrná délka používání protézy byla 156,4 ± 359,6 dnů. Pravostrannou transtibiální amputaci mělo 10 pacientů, 11 amputaci levostrannou. K

  16. Beyond cross-domain learning: Multiple-domain nonnegative matrix factorization

    KAUST Repository

    Wang, Jim Jing-Yan

    2014-02-01

    Traditional cross-domain learning methods transfer learning from a source domain to a target domain. In this paper, we propose the multiple-domain learning problem for several equally treated domains. The multiple-domain learning problem assumes that samples from different domains have different distributions, but share the same feature and class label spaces. Each domain could be a target domain, while also be a source domain for other domains. A novel multiple-domain representation method is proposed for the multiple-domain learning problem. This method is based on nonnegative matrix factorization (NMF), and tries to learn a basis matrix and coding vectors for samples, so that the domain distribution mismatch among different domains will be reduced under an extended variation of the maximum mean discrepancy (MMD) criterion. The novel algorithm - multiple-domain NMF (MDNMF) - was evaluated on two challenging multiple-domain learning problems - multiple user spam email detection and multiple-domain glioma diagnosis. The effectiveness of the proposed algorithm is experimentally verified. © 2013 Elsevier Ltd. All rights reserved.

  17. Bergman kernel on generalized exceptional Hua domain

    Institute of Scientific and Technical Information of China (English)

    YIN; weipng(殷慰萍); ZHAO; zhengang(赵振刚)

    2002-01-01

    We have computed the Bergman kernel functions explicitly for two types of generalized exceptional Hua domains, and also studied the asymptotic behavior of the Bergman kernel function of exceptional Hua domain near boundary points, based on Appell's multivariable hypergeometric function.

  18. Emergence of novel domains in proteins

    OpenAIRE

    Toll-Riera, Macarena; Albà Soler, Mar

    2013-01-01

    Background Proteins are composed of a combination of discrete, well-defined, sequence domains, associated with specific functions that have arisen at different times during evolutionary history. The emergence of novel domains is related to protein functional diversification and adaptation. But currently little is known about how novel domains arise and how they subsequently evolve. Results To gain insights into the impact of recently emerged domains in protein evolution we have identified all...

  19. Generic domain models in software engineering

    Science.gov (United States)

    Maiden, Neil

    1992-01-01

    This paper outlines three research directions related to domain-specific software development: (1) reuse of generic models for domain-specific software development; (2) empirical evidence to determine these generic models, namely elicitation of mental knowledge schema possessed by expert software developers; and (3) exploitation of generic domain models to assist modelling of specific applications. It focuses on knowledge acquisition for domain-specific software development, with emphasis on tool support for the most important phases of software development.

  20. Configurable Monitoring for Multi-domain Networks

    OpenAIRE

    Belghith, Aymen; Cousin, Bernard; Lahoud, Samer

    2014-01-01

    International audience; In this paper, we review the state-of-the-art monitoring architectures proposed for multi-domain networks. We establish the five requirements a multi-domain monitoring architecture must fulfilled. We note that these architectures do not support measurement configuration that enables the providers to perform flexible multi-domain measurements. Therefore, we propose a configurable multi-domain network monitoring architecture in order to give more flexibility in monitorin...

  1. The Bergman kernel functions on Hua domains

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    We get the Bergman kernel functions in explicit formulas on four types of Hua domain.There are two key steps: First, we give the holomorphic automorphism groups of four types of Hua domain; second, we introduce the concept of semi-Reinhardt domain and give their complete orthonormal systems. Based on these two aspects we obtain the Bergman kernel function in explicit formulas on Hua domains.

  2. Defining Domain Language of Graphical User Interfaces

    OpenAIRE

    Baciková, Michaela; PORUBÄN Jaroslav; Lakatos, Dominik

    2013-01-01

    Domain-specific languages are computer (programming, modeling, specification) languages devoted to solving problems in a specific domain. The least examined DSL development phases are analysis and design. Various formal methodologies exist, however domain analysis is still done informally most of the time. There are also methodologies of deriving DSLs from existing ontologies but the presumption is to have an ontology for the specific domain. We propose a solution of a user interface driven d...

  3. On the structure of order domains

    DEFF Research Database (Denmark)

    Geil, Olav; Pellikaan, Ruud

    2002-01-01

    The notion of an order domain is generalized. The behaviour of an order domain by taking a subalgebra, the extension of scalars, and the tensor product is studied. The relation of an order domain with valuation theory, Gröbner algebras, and graded structures is given. The theory of Gröbner bases ...

  4. The Private Legal Governance of Domain Names

    DEFF Research Database (Denmark)

    Schovsbo, Jens Hemmingsen

    2016-01-01

    ) and the Danish Complaints Board for Internet Domain Names (the Board) to discuss how and to what extent the domain name system balances interests between trademark owners and other users of domain names and secures the rule of law (legal certainty and predictability) with a special focus on cases where...

  5. A Domain Standard for Land Administration

    NARCIS (Netherlands)

    Lemmen, C.; Van Oosterom, P.; Van der Molen, P.

    2013-01-01

    This paper presents the design of a Domain Model for Land Administration (LA). As a result a formal International Standard is available: ISO 19152 Geographic Information – Land Administration Domain Model (LADM) (ISO, 2012). Domain specific standardisation is needed to capture the semantics of the

  6. Pectin Homogalacturonans: Nanostructural Characterization of Methylesterified Domains

    Science.gov (United States)

    Functionality of pectic hydrocolloids is largely dependent on the two major domains commonly found in their homogalacturonan (HG) regions, i.e., methylester protected domains (MPDs)and non methylesterified domains (NMDs). MPDs can participate in hydrogen bonding and hydrophobic interactions but unli...

  7. Static domain wall in braneworld gravity

    Energy Technology Data Exchange (ETDEWEB)

    Abdalla, M.C.B.; Carlesso, P.F. [UNESP, Universidade Estadual Paulista, Instituto de Fisica Teiorica, Rua Dr. Bento Teobaldo Ferraz 271, Bloco II, Barra-Funda, Caixa Postal 70532-2, Sao Paulo, SP (Brazil); Hoff da Silva, J.M. [UNESP, Universidade Estadual Paulista, Departamento de Fisica e Quimica, Guaratingueta, SP (Brazil)

    2014-01-15

    In this paper we consider a static domain wall inside a 3-brane. Different from the standard achievement obtained in General Relativity, the analysis performed here gives a consistency condition for the existence of static domain walls in a braneworld gravitational scenario. Also the behavior of the domain wall's gravitational field in the newtonian limit is shown. (orig.)

  8. Wavelet transform domain communication systems

    Science.gov (United States)

    Orr, Richard S.; Pike, Cameron; Lyall, Michael J.

    1995-04-01

    In this paper we introduce a new class of communications systems called wavelet transform domain (WTD) systems. WTD systems are transmultiplexer (TMUX) structures in which information to be communicated over a channel is encoded, via an inverse discrete wavelet transform (IDWT), as the wavelet coefficients of the transmitted signal, and extracted at the receiver by a discrete wavelet transform (DWT). WTD constructs can be used for covert, or low probability of intercept/detection (LPI/D) communications, baseband bandwidth efficient communications, or code-division multiple access (CDMA). This paper concentrates on the spread spectrum applications.

  9. Safe domain and elementary geometry

    CERN Document Server

    Richard, J M

    2004-01-01

    A classical problem of mechanics involves a projectile fired from a given point with a given velocity whose direction is varied. This results in a family of trajectories whose envelope defines the border of a 'safe' domain. In the simple cases of a constant force, harmonic potential and Kepler or Coulomb motion, the trajectories are conic curves whose envelope in a plane is another conic section which can be derived either by simple calculus or by geometrical considerations. The case of harmonic forces reveals a subtle property of the maximal sum of distances within an ellipse.

  10. Unsharp Values, Domains and Topoi

    CERN Document Server

    Doering, Andreas

    2011-01-01

    The so-called topos approach provides a radical reformulation of quantum theory. Structurally, quantum theory in the topos formulation is very similar to classical physics. There is a state object, analogous to the state space of a classical system, and a quantity-value object, generalising the real numbers. Physical quantities are maps from the state object to the quantity-value object -- hence the `values' of physical quantities are not just real numbers in this formalism. Rather, they are families of real intervals, interpreted as `unsharp values'. We will motivate and explain these aspects of the topos approach and show that the structure of the quantity-value object can be analysed using tools from domain theory, a branch of order theory that originated in theoretical computer science. Moreover, the base category of the topos associated with a quantum system turns out to be a domain if the underlying von Neumann algebra is a matrix algebra. For general algebras, the base category still is a highly struct...

  11. One Health Core Competency Domains.

    Science.gov (United States)

    Frankson, Rebekah; Hueston, William; Christian, Kira; Olson, Debra; Lee, Mary; Valeri, Linda; Hyatt, Raymond; Annelli, Joseph; Rubin, Carol

    2016-01-01

    The emergence of complex global challenges at the convergence of human, animal, and environmental health has catalyzed a movement supporting "One Health" approaches. Despite recognition of the importance of One Health approaches to address these complex challenges, little effort has been directed at identifying the seminal knowledge, skills, and attitudes necessary for individuals to successfully contribute to One Health efforts. Between 2008 and 2011, three groups independently embarked on separate initiatives to identify core competencies for professionals involved with One Health approaches. Core competencies were considered critically important for guiding curriculum development and continuing professional education, as they describe the knowledge, skills, and attitudes required to be effective. A workshop was convened in 2012 to synthesize the various strands of work on One Health competencies. Despite having different mandates, participants, and approaches, all of these initiatives identified similar core competency domains: management; communication and informatics; values and ethics; leadership; teams and collaboration; roles and responsibilities; and systems thinking. These core competency domains have been used to develop new continuing professional education programs for One Health professionals and help university curricula prepare new graduates to be able to contribute more effectively to One Health approaches.

  12. One Health Core Competency Domains

    Directory of Open Access Journals (Sweden)

    Rebekah Frankson

    2016-09-01

    Full Text Available The emergence of complex global challenges at the convergence of human, animal, and environmental health has catalyzed a movement supporting ‘One Health’ approaches. Despite recognition of the importance of One Health approaches to address these complex challenges, little effort has been directed at identifying the seminal knowledge, skills and attitudes necessary for individuals to successfully contribute to One Health efforts. Between 2008 and 2011, three groups independently embarked on separate initiatives to identify core competencies for professionals involved with One Health approaches. Core competencies were considered critically important for guiding curriculum development and continuing professional education as they describe the knowledge, skills and attitudes required to be effective. A workshop was convened in 2012 to synthesize the various strands of work on One Health competencies. Despite having different mandates, participants, and approaches, all of these initiatives identified similar core competency domains: management; communication and informatics; values and ethics; leadership; teams and collaboration; roles and responsibilities; and systems thinking. These core competency domains have been used to develop new continuing professional education programs for One Health professionals and help university curricula prepare new graduates to be able to contribute more effectively to One Health approaches.

  13. One Health Core Competency Domains

    Science.gov (United States)

    Frankson, Rebekah; Hueston, William; Christian, Kira; Olson, Debra; Lee, Mary; Valeri, Linda; Hyatt, Raymond; Annelli, Joseph; Rubin, Carol

    2016-01-01

    The emergence of complex global challenges at the convergence of human, animal, and environmental health has catalyzed a movement supporting “One Health” approaches. Despite recognition of the importance of One Health approaches to address these complex challenges, little effort has been directed at identifying the seminal knowledge, skills, and attitudes necessary for individuals to successfully contribute to One Health efforts. Between 2008 and 2011, three groups independently embarked on separate initiatives to identify core competencies for professionals involved with One Health approaches. Core competencies were considered critically important for guiding curriculum development and continuing professional education, as they describe the knowledge, skills, and attitudes required to be effective. A workshop was convened in 2012 to synthesize the various strands of work on One Health competencies. Despite having different mandates, participants, and approaches, all of these initiatives identified similar core competency domains: management; communication and informatics; values and ethics; leadership; teams and collaboration; roles and responsibilities; and systems thinking. These core competency domains have been used to develop new continuing professional education programs for One Health professionals and help university curricula prepare new graduates to be able to contribute more effectively to One Health approaches. PMID:27679794

  14. Word Domain Disambiguation via Word Sense Disambiguation

    Energy Technology Data Exchange (ETDEWEB)

    Sanfilippo, Antonio P.; Tratz, Stephen C.; Gregory, Michelle L.

    2006-06-04

    Word subject domains have been widely used to improve the perform-ance of word sense disambiguation al-gorithms. However, comparatively little effort has been devoted so far to the disambiguation of word subject do-mains. The few existing approaches have focused on the development of al-gorithms specific to word domain dis-ambiguation. In this paper we explore an alternative approach where word domain disambiguation is achieved via word sense disambiguation. Our study shows that this approach yields very strong results, suggesting that word domain disambiguation can be ad-dressed in terms of word sense disam-biguation with no need for special purpose algorithms.

  15. Single-domain antibodies for biomedical applications.

    Science.gov (United States)

    Krah, Simon; Schröter, Christian; Zielonka, Stefan; Empting, Martin; Valldorf, Bernhard; Kolmar, Harald

    2016-01-01

    Single-domain antibodies are the smallest antigen-binding units of antibodies, consisting either only of one variable domain or one engineered constant domain that solely facilitates target binding. This class of antibody derivatives comprises naturally occurring variable domains derived from camelids and sharks as well as engineered human variable or constant antibody domains of the heavy or light chain. Because of their high affinity and specificity as well as stability, small size and benefit of multiple re-formatting opportunities, those molecules emerged as promising candidates for biomedical applications and some of these entities have already proven to be successful in clinical development.

  16. Multi-domain proteins in the three kingdoms of life: orphan domains and other unassigned regions.

    Science.gov (United States)

    Ekman, Diana; Björklund, Asa K; Frey-Skött, Johannes; Elofsson, Arne

    2005-04-22

    Comparative studies of the proteomes from different organisms have provided valuable information about protein domain distribution in the kingdoms of life. Earlier studies have been limited by the fact that only about 50% of the proteomes could be matched to a domain. Here, we have extended these studies by including less well-defined domain definitions, Pfam-B and clustered domains, MAS, in addition to Pfam-A and SCOP domains. It was found that a significant fraction of these domain families are homologous to Pfam-A or SCOP domains. Further, we show that all regions that do not match a Pfam-A or SCOP domain contain a significantly higher fraction of disordered structure. These unstructured regions may be contained within orphan domains or function as linkers between structured domains. Using several different definitions we have re-estimated the number of multi-domain proteins in different organisms and found that several methods all predict that eukaryotes have approximately 65% multi-domain proteins, while the prokaryotes consist of approximately 40% multi-domain proteins. However, these numbers are strongly dependent on the exact choice of cut-off for domains in unassigned regions. In conclusion, all eukaryotes have similar fractions of multi-domain proteins and disorder, whereas a high fraction of repeating domain is distinguished only in multicellular eukaryotes. This implies a role for repeats in cell-cell contacts while the other two features are important for intracellular functions.

  17. Interoperable domain models: The ISO land administration domain model LADM and its external classes

    NARCIS (Netherlands)

    Lemmen, C.H.J.; Van Oosterom, P.J.M.; Uitermark, H.T.; Zevenbergen, J.A.; Cooper, A.K.

    2011-01-01

    This paper provides a brief overview of one of the first spatial domain standards: a standard for the domain of Land Administration (LA). This standard is in the draft stage of development now (May 2011). The development of domain standards is a logical follow up after domain-independent standards,

  18. Blocking-resistant communication through domain fronting

    Directory of Open Access Journals (Sweden)

    Fifield David

    2015-06-01

    Full Text Available We describe “domain fronting,” a versatile censorship circumvention technique that hides the remote endpoint of a communication. Domain fronting works at the application layer, using HTTPS, to communicate with a forbidden host while appearing to communicate with some other host, permitted by the censor. The key idea is the use of different domain names at different layers of communication. One domain appears on the “outside” of an HTTPS request—in the DNS request and TLS Server Name Indication—while another domain appears on the “inside”—in the HTTP Host header, invisible to the censor under HTTPS encryption. A censor, unable to distinguish fronted and nonfronted traffic to a domain, must choose between allowing circumvention traffic and blocking the domain entirely, which results in expensive collateral damage. Domain fronting is easy to deploy and use and does not require special cooperation by network intermediaries. We identify a number of hard-to-block web services, such as content delivery networks, that support domain-fronted connections and are useful for censorship circumvention. Domain fronting, in various forms, is now a circumvention workhorse. We describe several months of deployment experience in the Tor, Lantern, and Psiphon circumvention systems, whose domain-fronting transports now connect thousands of users daily and transfer many terabytes per month.

  19. Chromatin domain boundaries: insulators and beyond

    Institute of Scientific and Technical Information of China (English)

    Gong Hong WEI; De Pei LIU; Chih Chuan LIANG

    2005-01-01

    The eukaryotic genome is organized into functionally and structurally distinct domains, representing regulatory units for gene expression and chromosome behavior. DNA sequences that mark the border between adjacent domains are the insulators or boundary elements, which are required in maintenance of the function of different domains. Some insulators need others enable to play insulation activity. Chromatin domains are defined by distinct sets of post-translationally modified histones. Recent studies show that these histone modifications are also involved in establishment of sharp chromatin boundaries in order to prevent the spreading of distinct domains. Additionally, in some loci, the high-order chromatin structures for long-range looping interactions also have boundary activities, suggesting a correlation between insulators and chromatin loop domains. In this review, we will discuss recent progress in the field of chromatin domain boundaries.

  20. Myoelektrické srovnání forehandového úderu ve stolním tenise při použití míčků různých velikostí Myoelectric comparison of table tennis forehand stroke using different ball sizes

    Directory of Open Access Journals (Sweden)

    Vladimir Medved

    2006-02-01

    Full Text Available Cílem této studie bylo prozkoumat rozdíly mezi forehandovými horními točivými údery s 38mm a 40mm míčky ve stolním tenise. Účastník byl při provádění úderů filmován. Za účelem zajištění totožných podmínek při veškerých výkonech (stejné trajektorie přibližujícího se míčku byl použit nahrávací stroj pro stolní tenis. Vzhledem k hráčově pravorukosti byly elektrody umístěny na pravé straně hráčova těla. Absolutní svalové zapojení bylo odhadováno na základě zprůměrovaných EMG signálů (mV měřených ve všech svalech (m. biceps brachii, m. deltoideus, m. pectoralis major. Pro výpočet rozdílů mezi celkovými středními hodnotami zprůměrovaných EMG signálů mezi všemi svaly byla použita analýza rozptylu (ANOVA. Vrcholová amplituda EMG m. deltoideus anterior dosahovala u úderu s 38mm míčkem hodnoty 2,5 mV. U m. deltoideus medialis byly dosaženy s míčky obou velikostí srovnatelné hodnoty kontrakce: vrcholové hodnoty se pohybovaly v rozmezí 2,3 a 2,8 mV u 38mm míčku a v rozmezí 2,2 a 3,0 mV u 40mm míčku. U m. biceps brachii se vrcholová amplituda EMG pohybovala mezi 1 až 2,2 mV u úderů s 38mm míčky a od 1,3 do 2,4 mV u úderů s 40mm míčky. Podobného výsledku bylo dosaženo u kontrakcí m. pectoralis major. U úderů s 38mm míčkem byla dosahována poměrně nerovnoměrná intenzita kontrakcí, a to v rozmezí od 1,5 mV do 2,6 mV. Vyváženějších hodnot bylo dosaženo u úderů s 40mm míčky, kdy se tyto pohybovaly mezi 1,6 až 2,2 mV. Tato zjištění nám ukázala, že u třech sledovaných svalů (m. deltoideus anterior, m. biceps brachii, m. pectoralis major existují významné rozdíly v intenzitě EMG signálů, a můžeme tedy učinit závěr, že hráč při úderu s větším míčkem používá více svalové aktivity a že kontrakce m. pectoralis major je při úderu do většího míčku silnější. The aim of this study was to examine

  1. Reconstituting Protein Interaction Networks Using Parameter-Dependent Domain-Domain Interactions

    Science.gov (United States)

    2013-05-07

    that approximately 80% of eukaryotic proteins and 67% of prokaryotic proteins have multiple domains [13,14]. Most annotation databases characterize...domain annotations, Domain-domain interactions, Protein-protein interaction networks Background The living cell is a dynamic, interconnected system...detailed in Methods. Here, we illustrate its application on a well- annotated single- cell organism. We created a merged set of protein-domain annotations

  2. Domain Building or Risk Taking

    DEFF Research Database (Denmark)

    Hjort, Katrin; Abrahamsen, Marianne

    2012-01-01

    The Nordic Countries are usually seen as the worlds must successful nations when it comes to gender equality, and the Scandinavian population in general appreciates values traditionally labeled feminine as caretaking and the quality of everyday life. However, the inequalities become obvious...... of the relations between gender, values and family obligation but reveals an interesting difference between two strategies for career development: Domain Building and Risk Taking. Both strategies are applied by both men and women. However, one of them seems to be the most effective with regard to achieve...... in school management. Among headmasters in High school in Denmark only 18 % are women despite of the fact that 52 % of the teachers are female. How can we explain that? This article is based on a survey answered by top- and middle level management staff. It rejects all traditional explanations...

  3. Domain Discretization and Circle Packings

    DEFF Research Database (Denmark)

    Dias, Kealey

    A circle packing is a configuration of circles which are tangent with one another in a prescribed pattern determined by a combinatorial triangulation, where the configuration fills a planar domain or a two-dimensional surface. The vertices in the triangulation correspond to centers of circles......, and edges correspond to two circles (having centers corresponding to the endpoints of the edge) being tangent to each other. This circle packing creates a rigid structure having an underlying geometric triangulation, where the centers of circles again correspond to vertices in the triangulation......, and the edges are geodesic segments (Euclidean, hyperbolic, or spherical) connecting centers of circles that are tangent to each other. Three circles that are mutually tangent form a face of the triangulation. Since circle packing is closely related to triangulation, circle packing methods can be applied...

  4. EuPathDomains: the divergent domain database for eukaryotic pathogens.

    Science.gov (United States)

    Ghouila, Amel; Terrapon, Nicolas; Gascuel, Olivier; Guerfali, Fatma Z; Laouini, Dhafer; Maréchal, Eric; Bréhélin, Laurent

    2011-06-01

    Eukaryotic pathogens (e.g. Plasmodium, Leishmania, Trypanosomes, etc.) are a major source of morbidity and mortality worldwide. In Africa, one of the most impacted continents, they cause millions of deaths and constitute an immense economic burden. While the genome sequence of several of these organisms is now available, the biological functions of more than half of their proteins are still unknown. This is a serious issue for bringing to the foreground the expected new therapeutic targets. In this context, the identification of protein domains is a key step to improve the functional annotation of the proteins. However, several domains are missed in eukaryotic pathogens because of the high phylogenetic distance of these organisms from the classical eukaryote models. We recently proposed a method, co-occurrence domain detection (CODD), that improves the sensitivity of Pfam domain detection by exploiting the tendency of domains to appear preferentially with a few other favorite domains in a protein. In this paper, we present EuPathDomains (http://www.atgc-montpellier.fr/EuPathDomains/), an extended database of protein domains belonging to ten major eukaryotic human pathogens. EuPathDomains gathers known and new domains detected by CODD, along with the associated confidence measurements and the GO annotations that can be deduced from the new domains. This database significantly extends the Pfam domain coverage of all selected genomes, by proposing new occurrences of domains as well as new domain families that have never been reported before. For example, with a false discovery rate lower than 20%, EuPathDomains increases the number of detected domains by 13% in Toxoplasma gondii genome and up to 28% in Cryptospordium parvum, and the total number of domain families by 10% in Plasmodium falciparum and up to 16% in C. parvum genome. The database can be queried by protein names, domain identifiers, Pfam or Interpro identifiers, or organisms, and should become a valuable

  5. Protein domain boundary prediction by combining support vector machine and domain guess by size algorithm

    Institute of Scientific and Technical Information of China (English)

    Dong Qiwen; Wang Xiaolong; Lin Lei

    2007-01-01

    Successful prediction of protein domain boundaries provides valuable information not only for the computational structure prediction of multi-domain proteins but also for the experimental structure determination. A novel method for domain boundary prediction has been presented, which combines the support vector machine with domain guess by size algorithm. Since the evolutional information of multiple domains can be detected by position specific score matrix, the support vector machine method is trained and tested using the values of position specific score matrix generated by PSI-BLAST. The candidate domain boundaries are selected from the output of support vector machine, and are then inputted to domain guess by size algorithm to give the final results of domain boundary prediction. The experimental results show that the combined method outperforms the individual method of both support vector machine and domain guess by size.

  6. Domains in Ferroic Crystals and Thin Films

    CERN Document Server

    Tagantsev, Alexander K; Fousek, Jan

    2010-01-01

    Domains in Ferroic Crystals and Thin Films presents experimental findings and theoretical understanding of ferroic (non-magnetic) domains developed during the past 60 years. It addresses the situation by looking specifically at bulk crystals and thin films, with a particular focus on recently-developed microelectronic applications and methods for observation of domains with techniques such as scanning force microscopy, polarized light microscopy, scanning optical microscopy, electron microscopy, and surface decorating techniques. Domains in Ferroic Crystals and Thin Films covers a large area of material properties and effects connected with static and dynamic properties of domains, which are extremely relevant to materials referred to as ferroics. In most solid state physics books, one large group of ferroics is customarily covered: those in which magnetic properties play a dominant role. Numerous books are specifically devoted to magnetic ferroics and cover a wide spectrum of magnetic domain phenomena. In co...

  7. Domain-specific control of selective attention.

    Science.gov (United States)

    Lin, Szu-Hung; Yeh, Yei-Yu

    2014-01-01

    Previous research has shown that loading information on working memory affects selective attention. However, whether the load effect on selective attention is domain-general or domain-specific remains unresolved. The domain-general effect refers to the findings that load in one content (e.g. phonological) domain in working memory influences processing in another content (e.g., visuospatial) domain. Attentional control supervises selection regardless of information domain. The domain-specific effect refers to the constraint of influence only when maintenance and processing operate in the same domain. Selective attention operates in a specific content domain. This study is designed to resolve this controversy. Across three experiments, we manipulated the type of representation maintained in working memory and the type of representation upon which the participants must exert control to resolve conflict and select a target into the focus of attention. In Experiments 1a and 1b, participants maintained digits and nonverbalized objects, respectively, in working memory while selecting a target in a letter array. In Experiment 2, we presented auditory digits with a letter flanker task to exclude the involvement of resource competition within the same input modality. In Experiments 3a and 3b, we replaced the letter flanker task with an object flanker task while manipulating the memory load on object and digit representation, respectively. The results consistently showed that memory load modulated distractibility only when the stimuli of the two tasks were represented in the same domain. The magnitude of distractor interference was larger under high load than under low load, reflecting a lower efficacy of information prioritization. When the stimuli of the two tasks were represented in different domains, memory load did not modulate distractibility. Control of processing priority in selective attention demands domain-specific resources.

  8. Using context to improve protein domain identification

    Directory of Open Access Journals (Sweden)

    Llinás Manuel

    2011-03-01

    Full Text Available Abstract Background Identifying domains in protein sequences is an important step in protein structural and functional annotation. Existing domain recognition methods typically evaluate each domain prediction independently of the rest. However, the majority of proteins are multidomain, and pairwise domain co-occurrences are highly specific and non-transitive. Results Here, we demonstrate how to exploit domain co-occurrence to boost weak domain predictions that appear in previously observed combinations, while penalizing higher confidence domains if such combinations have never been observed. Our framework, Domain Prediction Using Context (dPUC, incorporates pairwise "context" scores between domains, along with traditional domain scores and thresholds, and improves domain prediction across a variety of organisms from bacteria to protozoa and metazoa. Among the genomes we tested, dPUC is most successful at improving predictions for the poorly-annotated malaria parasite Plasmodium falciparum, for which over 38% of the genome is currently unannotated. Our approach enables high-confidence annotations in this organism and the identification of orthologs to many core machinery proteins conserved in all eukaryotes, including those involved in ribosomal assembly and other RNA processing events, which surprisingly had not been previously known. Conclusions Overall, our results demonstrate that this new context-based approach will provide significant improvements in domain and function prediction, especially for poorly understood genomes for which the need for additional annotations is greatest. Source code for the algorithm is available under a GPL open source license at http://compbio.cs.princeton.edu/dpuc/. Pre-computed results for our test organisms and a web server are also available at that location.

  9. The Private Legal Governance of Domain Names

    DEFF Research Database (Denmark)

    Schovsbo, Jens Hemmingsen

    2015-01-01

    . the UDRP (WIPO) and the Danish Complaints Board for Internet Domain Names (the Board) to discuss how and to what extent the domain name system balances interests between trademark owners and other users of domain names and secures the rule of law (legal certainty and predictability) with a special focus...... on cases where trademarks are used as (parts of) domain names to express criticism of the trademark holder or the trademark itself (e.g. “TMsucks.com” / “lorteTM.dk”). The article is part of a research project on “User Generated Law” and uses the methodologies developed as part of this. It is scheduled...

  10. Frequency domain FIR and IIR adaptive filters

    Science.gov (United States)

    Lynn, D. W.

    1990-01-01

    A discussion of the LMS adaptive filter relating to its convergence characteristics and the problems associated with disparate eigenvalues is presented. This is used to introduce the concept of proportional convergence. An approach is used to analyze the convergence characteristics of block frequency-domain adaptive filters. This leads to a development showing how the frequency-domain FIR adaptive filter is easily modified to provide proportional convergence. These ideas are extended to a block frequency-domain IIR adaptive filter and the idea of proportional convergence is applied. Experimental results illustrating proportional convergence in both FIR and IIR frequency-domain block adaptive filters is presented.

  11. Domain wall solutions with Abelian gauge fields

    CERN Document Server

    Rozowsky, J S; Wali, K C

    2004-01-01

    We study kink (domain wall) solutions in a model consisting of two complex scalar fields coupled to two independent Abelian gauge fields in a Lagrangian that has $U(1)\\times U(1)$ gauge plus $\\mathbb{Z}_2$ discrete symmetry. We find consistent solutions such that while the U(1) symmetries of the fields are preserved while in their respective vacua, they are broken on the domain wall. The gauge field solutions show that the domain wall is sandwiched between domains with constant magnetic fields.

  12. Transform domain steganography with blind source separation

    Science.gov (United States)

    Jouny, Ismail

    2015-05-01

    This paper applies blind source separation or independent component analysis for images that may contain mixtures of text, audio, or other images for steganography purposes. The paper focuses on separating mixtures in the transform domain such as Fourier domain or the Wavelet domain. The study addresses the effectiveness of steganography when using linear mixtures of multimedia components and the ability of standard blind sources separation techniques to discern hidden multimedia messages. Mixing in the space, frequency, and wavelet (scale) domains is compared. Effectiveness is measured using mean square error rate between original and recovered images.

  13. Multiple graph regularized protein domain ranking

    KAUST Repository

    Wang, Jim Jing-Yan

    2012-11-19

    Background: Protein domain ranking is a fundamental task in structural biology. Most protein domain ranking methods rely on the pairwise comparison of protein domains while neglecting the global manifold structure of the protein domain database. Recently, graph regularized ranking that exploits the global structure of the graph defined by the pairwise similarities has been proposed. However, the existing graph regularized ranking methods are very sensitive to the choice of the graph model and parameters, and this remains a difficult problem for most of the protein domain ranking methods.Results: To tackle this problem, we have developed the Multiple Graph regularized Ranking algorithm, MultiG-Rank. Instead of using a single graph to regularize the ranking scores, MultiG-Rank approximates the intrinsic manifold of protein domain distribution by combining multiple initial graphs for the regularization. Graph weights are learned with ranking scores jointly and automatically, by alternately minimizing an objective function in an iterative algorithm. Experimental results on a subset of the ASTRAL SCOP protein domain database demonstrate that MultiG-Rank achieves a better ranking performance than single graph regularized ranking methods and pairwise similarity based ranking methods.Conclusion: The problem of graph model and parameter selection in graph regularized protein domain ranking can be solved effectively by combining multiple graphs. This aspect of generalization introduces a new frontier in applying multiple graphs to solving protein domain ranking applications. 2012 Wang et al; licensee BioMed Central Ltd.

  14. Introduction to the Integrated Domain Modeling Toolset

    Directory of Open Access Journals (Sweden)

    Slihte Armands

    2014-12-01

    Full Text Available This paper describes the Integrated Domain Modeling approach and introduces the supporting toolset as a solution to the complex domain-modeling task. This approach integrates artificial intelligence (AI and system analysis by exploiting ontology, natural language processing (NLP, use cases and model-driven architecture (MDA for knowledge engineering and domain modeling. The IDM toolset provides the opportunity to automatically generate the initial AS-IS model from the formally defined domain knowledge. In this paper, we describe in detail the scope, architecture and implementation of the toolset.

  15. Optical time-domain mixer

    Science.gov (United States)

    Valley, George C.; Sefler, George A.

    2010-08-01

    We simulate an optical time-domain mixer that can be used to make a photonic analog-to-digital converter (ADC) or a digital demodulator for high-speed optical communications signals. In the basic mixer, a high frequency RF signal modulates a repetitively chirped optical carrier; this RF/optical waveform then is dispersed in one transverse dimension, and imaged onto a 2-dimensional transparency or spatial light modulator whose pixels are modulated with randomly chosen transmission or reflection coefficients (the optical mixing matrix). Following transmission through or reflection from the mixing matrix, the optical waveform from each row of the matrix is recombined and directed to a photodiode and electronics that integrate over the repetition period of the chirped source. Finally, each of these signals is digitized by an independent ADC sampling at a rate equal to the pulse repetition rate of the chirp source. A digital replica of the input RF signal can be recovered by digital signal processing from the digital output of the ADCs and the values of the transmission or reflection coefficients of the mixing matrix. The effective sampling rate is given by the number of pixels per row of the mixing matrix times the repetition rate of the chirp source while the effective resolution is controlled by the resolution of the electronic ADCs and the distortions introduced by the optical mixing process.

  16. Quantifying information transfer by protein domains: Analysis of the Fyn SH2 domain structure

    DEFF Research Database (Denmark)

    Lenaerts, Tom; Ferkinghoff-Borg, Jesper; Stricher, Francois

    2008-01-01

    distal communication is achieved. We illustrate the approach by analyzing information transfer by the SH2 domain of Fyn tyrosine kinase, obtained from Monte Carlo dynamics simulations. Our analysis reveals that the Fyn SH2 domain forms a noisy communication channel that couples residues located...... in the phosphopeptide and specificity binding sites and a number of residues at the other side of the domain near the linkers that connect the SH2 domain to the SH3 and kinase domains. We find that for this particular domain, communication is affected by a series of contiguous residues that connect distal sites...... by crossing the core of the SH2 domain. Conclusion: As a result, our method provides a means to directly map the exchange of biological information on the structure of protein domains, making it clear how binding triggers conformational changes in the protein structure. As such it provides a structural road...

  17. Hydrogels with micellar hydrophobic (nano)domains

    Science.gov (United States)

    Pekař, Miloslav

    2014-12-01

    Hydrogels containing hydrophobic domains or nanodomains, especially of the micellar type, are reviewed. Examples of the reasons for introducing hydrophobic domains into hydrophilic gels are given; typology of these materials is introduced. Synthesis routes are exemplified and properties of a variety of such hydrogels in relation with their intended applications are described. Future research needs are identified briefly.

  18. BIVARIATE FRACTAL INTERPOLATION FUNCTIONS ON RECTANGULAR DOMAINS

    Institute of Scientific and Technical Information of China (English)

    Xiao-yuan Qian

    2002-01-01

    Non-tensor product bivariate fractal interpolation functions defined on gridded rectangular domains are constructed. Linear spaces consisting of these functions are introduced.The relevant Lagrange interpolation problem is discussed. A negative result about the existence of affine fractal interpolation functions defined on such domains is obtained.

  19. The Domain Specificity of Academic Emotional Experiences

    Science.gov (United States)

    Goetz, Thomas; Frenzel, Anne C.; Pekrun, Reinhard; Hall, Nathan C.

    2006-01-01

    The authors analyzed the domain specificity of emotions and focused on experiences of enjoyment, anxiety, and boredom in the domains of mathematics, Latin, German, and English. On the basis of assumptions in R. Pekrun's (2000; in press) control-value theory and findings of pilot studies, the authors hypothesized the existence of a largely…

  20. Frequency Domain Image Filtering Using CUDA

    Directory of Open Access Journals (Sweden)

    Muhammad Awais Rajput

    2014-10-01

    Full Text Available In this paper, we investigate the implementation of image filtering in frequency domain using NVIDIA?s CUDA (Compute Unified Device Architecture. In contrast to signal and image filtering in spatial domain which uses convolution operations and hence is more compute-intensive for filters having larger spatial extent, the frequency domain filtering uses FFT (Fast Fourier Transform which is much faster and significantly reduces the computational complexity of the filtering. We implement the frequency domain filtering on CPU and GPU respectively and analyze the speed-up obtained from the CUDA?s parallel processing paradigm. In order to demonstrate the efficiency of frequency domain filtering on CUDA, we implement three frequency domain filters, i.e., Butterworth, low-pass and Gaussian for processing different sizes of images on CPU and GPU respectively and perform the GPU vs. CPU benchmarks. The results presented in this paper show that the frequency domain filtering with CUDA achieves significant speed-up over the CPU processing in frequency domain with the same level of (output image quality on both the processing architectures

  1. UBA domain containing proteins in fission yeast

    DEFF Research Database (Denmark)

    Hartmann-Petersen, Rasmus; Semple, Colin A M; Ponting, Chris P;

    2003-01-01

    characterised on both the functional and structural levels. One example of a widespread ubiquitin binding module is the ubiquitin associated (UBA) domain. Here, we discuss the approximately 15 UBA domain containing proteins encoded in the relatively small genome of the fission yeast Schizosaccharomyces pombe...

  2. Deformation of Entire Functions with Baker Domains

    DEFF Research Database (Denmark)

    Fagella, Nuria; Henriksen, Christian

    2006-01-01

    We consider entire transcendental functions f with an invariant (or periodic) Baker Domain. First, we classify these domains into three types (hyperbolic, simply parabolic and doubly parabolic) according to the surface they induce when we take the quotient by the dynamics. Second, we study...

  3. Structural principles governing domain motions in proteins

    NARCIS (Netherlands)

    Hayward, S

    1999-01-01

    With the use of a recently developed method, twenty-four proteins for which two or more X-ray conformers are known have been analyzed to reveal structural principles that govern domain motions in proteins. In all 24 cases, the domain motion is a rotation about a physical axis created through local i

  4. Hydrogels with Micellar Hydrophobic (Nano)Domains

    OpenAIRE

    Pekař, Miloslav

    2015-01-01

    Hydrogels containing hydrophobic domains or nanodomains, especially of the micellar type, are reviewed. Examples of the reasons for introducing hydrophobic domains into hydrophilic gels are given; typology of these materials is introduced. Synthesis routes are exemplified and properties of a variety of such hydrogels in relation with their intended applications are described. Future research needs are identified briefly.

  5. Hydrogels with micellar hydrophobic (nano)domains

    OpenAIRE

    Miloslav ePekař

    2015-01-01

    Hydrogels containing hydrophobic domains or nanodomains, especially of the micellar type, are reviewed. Examples of the reasons for introducing hydrophobic domains into hydrophilic gels are given; typology of these materials is introduced. Synthesis routes are exemplified and properties of a variety of such hydrogels in relation with their intended applications are described. Future research needs are identified briefly.

  6. Domain Wall Propagation through Spin Wave Emission

    NARCIS (Netherlands)

    Wang, X.S.; Yan, P.; Shen, Y.H.; Bauer, G.E.W.; Wang, X.R.

    2012-01-01

    We theoretically study field-induced domain wall motion in an electrically insulating ferromagnet with hard- and easy-axis anisotropies. Domain walls can propagate along a dissipationless wire through spin wave emission locked into the known soliton velocity at low fields. In the presence of damping

  7. A Characterization of Complete Bounded Domain

    Institute of Scientific and Technical Information of China (English)

    殷慰萍; 苏简兵; 赵振刚

    2002-01-01

    @@ 1 IntroductionThis paper is concerned with biholomorphic mappings between two bounded domains D and G both in Cn.Consequently,an important question is whether the domain D is biholomorphic to G? We give an answer for this question under a very weak condition.

  8. Strong diamagnetism for general domains and applications

    DEFF Research Database (Denmark)

    Fournais, Søren; Helffer, Bernard

    2007-01-01

    We consider the Neumann Laplacian with constant magnetic field on a regular domain. Let $B$ be the strength of the magnetic field, and let $\\lambda_1(B)$ be the first eigenvalue of the magnetic Neumann Laplacian on the domain. It is proved that $B \\mapsto \\lambda_1(B)$ is monotone increasing for ...

  9. Evaluation Codes from Order Domain Theory

    DEFF Research Database (Denmark)

    Andersen, Henning Ejnar; Geil, Hans Olav

    2008-01-01

    bound is easily extended to deal with any generalized Hamming weights. We interpret our methods into the setting of order domain theory. In this way we fill in an obvious gap in the theory of order domains. [28] T. Shibuya and K. Sakaniwa, A Dual of Well-Behaving Type Designed Minimum Distance, IEICE...

  10. Time-domain modeling of electromagnetic diffusion with a frequency-domain code

    NARCIS (Netherlands)

    Mulder, W.A.; Wirianto, M.; Slob, E.C.

    2007-01-01

    We modeled time-domain EM measurements of induction currents for marine and land applications with a frequency-domain code. An analysis of the computational complexity of a number of numerical methods shows that frequency-domain modeling followed by a Fourier transform is an attractive choice if a s

  11. Isomorphisms of noncommutative domain algebras II

    CERN Document Server

    Arias, Alvaro

    2010-01-01

    This paper extends the results of the previous work of the authors on the classification on noncommutative domain algebras up to completely isometric isomorphism. Using Sunada's classification of Reinhardt domains in $C^n$, we show that aspherical noncommutative domain algebras are isomorphic if and only if their defining symbols are equivalent, in the sense that one can be obtained from the other via permutation and scaling of the free variables. Our result also shows that the automorphism groups of aspherical noncommutative domain algebras consists of a subgroup of some finite dimensional unitary group. We conclude by illustrating how our methods can be used to extend to noncommutative domain algebras some results from analysis in $C^n$ with the example of Cartan's lemma.

  12. Using ontology for domain specific information retrieval

    Science.gov (United States)

    Shashirekha, H. L.; Murali, S.; Nagabhushan, P.

    2010-02-01

    This paper presents a system for retrieving information from a domain specific document collection made up of data rich unnatural language text documents. Instead of conventional keyword based retrieval, our system makes use of domain ontology to retrieve the information from a collection of documents. The system addresses the problem of representing unnatural language text documents and constructing a classifier model that helps in the efficient retrieval of relevant information. Query to this system may be either the key phrases in terms of concepts or a domain specific unnatural language text document. The classifier used in this system can also be used to assign multiple labels to the previously unseen text document belonging to the same domain. An empirical evaluation of the system is conducted on the domain of text documents describing the classified matrimonial advertisements to determine its performance.

  13. Time Domain Stability Margin Assessment Method

    Science.gov (United States)

    Clements, Keith

    2017-01-01

    The baseline stability margins for NASA's Space Launch System (SLS) launch vehicle were generated via the classical approach of linearizing the system equations of motion and determining the gain and phase margins from the resulting frequency domain model. To improve the fidelity of the classical methods, the linear frequency domain approach can be extended by replacing static, memoryless nonlinearities with describing functions. This technique, however, does not address the time varying nature of the dynamics of a launch vehicle in flight. An alternative technique for the evaluation of the stability of the nonlinear launch vehicle dynamics along its trajectory is to incrementally adjust the gain and/or time delay in the time domain simulation until the system exhibits unstable behavior. This technique has the added benefit of providing a direct comparison between the time domain and frequency domain tools in support of simulation validation.

  14. A domain dictionary of trimeric autotransporter adhesins.

    Science.gov (United States)

    Bassler, Jens; Hernandez Alvarez, Birte; Hartmann, Marcus D; Lupas, Andrei N

    2015-02-01

    Trimeric autotransporter adhesins (TAAs) are modular, highly repetitive outer membrane proteins that mediate adhesion to external surfaces in many Gram-negative bacteria. In recent years, several TAAs have been investigated in considerable detail, also at the structural level. However, in their vast majority, putative TAAs in prokaryotic genomes remain poorly annotated, due to their sequence diversity and changeable domain architecture. In order to achieve an automated annotation of these proteins that is both detailed and accurate we have taken a domain dictionary approach, in which we identify recurrent domains by sequence comparisons, produce bioinformatic descriptors for each domain type, and connect these to structural information where available. We implemented this approach in a web-based platform, daTAA, in 2008 and demonstrated its applicability by reconstructing the complete fiber structure of a TAA conserved in enterobacteria. Here we review current knowledge on the domain structure of TAAs.

  15. Contribution of the CR domain to P-selectin lectin domain allostery by regulating the orientation of the EGF domain.

    Science.gov (United States)

    Lü, Shouqin; Chen, Shenbao; Mao, Debin; Zhang, Yan; Long, Mian

    2015-01-01

    The allostery of P-selectin has been studied extensively with a focus on the Lec and EGF domains, whereas the contribution of the CR domain remains unclear. Here, molecular dynamics simulations (MDS) combined with homology modeling were preformed to investigate the impact of the CR domain on P-selectin allostery. The results indicated that the CR domain plays a role in the allosteric dynamics of P-selectin in two ways. First, the CR1 domain tends to stabilize the low affinity of P-selectin during the equilibration processes with the transition inhibition from the S1 to S1' state by restraining the extension of the bent EGF orientation, or with the relaxation acceleration of the S2 state by promoting the bending of the extended EGF orientation. Second, the existence of CR domain increases intramolecular extension prior to complex separation, increasing the time available for the allosteric shift during forced dissociation with a prolonged bond duration. These findings further our understanding of the structure-function relationship of P-selectin with the enriched micro-structural bases of the CR domain.

  16. Analyses of domains and domain fusions in human proto-oncogenes

    Directory of Open Access Journals (Sweden)

    Wan Ping

    2009-03-01

    Full Text Available Abstract Background Understanding the constituent domains of oncogenes, their origins and their fusions may shed new light about the initiation and the development of cancers. Results We have developed a computational pipeline for identification of functional domains of human genes, prediction of the origins of these domains and their major fusion events during evolution through integration of existing and new tools of our own. An application of the pipeline to 124 well-characterized human oncogenes has led to the identification of a collection of domains and domain pairs that occur substantially more frequently in oncogenes than in human genes on average. Most of these enriched domains and domain pairs are related to tyrosine kinase activities. In addition, our analyses indicate that a substantial portion of the domain-fusion events of oncogenes took place in metazoans during evolution. Conclusion We expect that the computational pipeline for domain identification, domain origin and domain fusion prediction will prove to be useful for studying other groups of genes.

  17. J domain independent functions of J proteins.

    Science.gov (United States)

    Ajit Tamadaddi, Chetana; Sahi, Chandan

    2016-07-01

    Heat shock proteins of 40 kDa (Hsp40s), also called J proteins, are obligate partners of Hsp70s. Via their highly conserved and functionally critical J domain, J proteins interact and modulate the activity of their Hsp70 partners. Mutations in the critical residues in the J domain often result in the null phenotype for the J protein in question. However, as more J proteins have been characterized, it is becoming increasingly clear that a significant number of J proteins do not "completely" rely on their J domains to carry out their cellular functions, as previously thought. In some cases, regions outside the highly conserved J domain have become more important making the J domain dispensable for some, if not for all functions of a J protein. This has profound effects on the evolution of such J proteins. Here we present selected examples of J proteins that perform J domain independent functions and discuss this in the context of evolution of J proteins with dispensable J domains and J-like proteins in eukaryotes.

  18. The domain-specific and domain-general relationships of visuospatial working memory to reasoning ability.

    Science.gov (United States)

    Shipstead, Zach; Yonehiro, Jade

    2016-10-01

    The degree to which visuospatial working memory (VSWM) is separable from working memory in general is an open question. On one hand, the construct is often researched as a unitary, domain-specific system. On the other, there is evidence that VWSM shares a common processing component with verbal memory. One might interpret this shared component as domain-general attention. We used confirmatory factor analysis to demonstrate that VSWM shares a domain-general component with verbal memory tasks and has a domain-specific component that is independent of verbal memory. Furthermore, the domain-general component was found to correlate with reasoning ability in both the visuospatial and verbal domains. The domain-specific component only correlated with reasoning ability when the tests had a strong visuospatial component. We argue that theories of VSWM need to place greater emphasis on its multiply determined nature.

  19. Domain Knowledge Uncertainty and Probabilistic Parameter Constraints

    CERN Document Server

    Mao, Yi

    2012-01-01

    Incorporating domain knowledge into the modeling process is an effective way to improve learning accuracy. However, as it is provided by humans, domain knowledge can only be specified with some degree of uncertainty. We propose to explicitly model such uncertainty through probabilistic constraints over the parameter space. In contrast to hard parameter constraints, our approach is effective also when the domain knowledge is inaccurate and generally results in superior modeling accuracy. We focus on generative and conditional modeling where the parameters are assigned a Dirichlet or Gaussian prior and demonstrate the framework with experiments on both synthetic and real-world data.

  20. Two-Domain DNA Strand Displacement

    CERN Document Server

    Cardelli, Luca

    2010-01-01

    We investigate the computing power of a restricted class of DNA strand displacement structures: those that are made of double strands with nicks (interruptions) in the top strand. To preserve this structural invariant, we impose restrictions on the single strands they interact with: we consider only two-domain single strands consisting of one toehold domain and one recognition domain. We study fork and join signal-processing gates based on these structures, and we show that these systems are amenable to formalization and to mechanical verification.

  1. Indices of Toeplitz tuples on pseudoregular domains

    Institute of Scientific and Technical Information of China (English)

    郭坤宇

    2000-01-01

    This paper proves an index theorem of Toeplitz tuples on pseudoregular domains in Cn. Geometrically, the index of Toeplitz tuple T n is ( -1)n time wrapping number of n around the origin. As one of the applications of the index theorem, we completely characterize the automorphism groups of Toeplitz algebras on Poincare domain. As another application, it is shown that C* (Ω) ≌ C* ( Bn) for every Poincare domain Ω in Cn( n≠2). It is also noticed that C* (Ω) ≌ C* ( B2) if and only if the Poincaré conjecture is true for Ω.

  2. Indices of Toeplitz tuples on pseudoregular domains

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    This paper proves an index theorem of Toeplitz tuples on pseudoregular domains in Cn. Geometrically, the index of Toeplitz tuple TΦn is (-1)n time wrapping number of Φn around the origin. As one of the applications of the index theorem, we completely characterize the automorphism groups of Toeplitz algebras on Poincaré domain. As another application, it is shown that C*(Ω)C*(Bn) for every Poincare domain Ω in Cn(n≠2). It is also noticed that C*(Ω)C*(B2) if and only if the Poincaré conjecture is true for Ω.

  3. On the structure of Fatou domains

    Institute of Scientific and Technical Information of China (English)

    CUI GuiZhen; PENG Wen Juan

    2008-01-01

    Let U be a multiply-connected fixed attracting Fatou domain of a rational map f. We prove that there exist a rational map g and a completely invariant Fatou domain Ⅴ of g such that (f, U)and (g, V) are holomorphically conjugate, and each non-trivial Julia component of g is a quasi-circle which bounds an eventually superattracting Fatou domain of g containing at most one postcritical point of g. Moreover, g is unique up to a holomorphic conjugation.

  4. On the structure of Fatou domains

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    Let U be a multiply-connected fixed attracting Fatou domain of a rational map f.We prove that there exist a rational map g and a completely invariant Fatou domain V of g such that(f,U) and(g,V) are holomorphically conjugate,and each non-trivial Julia component of g is a quasi-circle which bounds an eventually superattracting Fatou domain of g containing at most one postcritical point of g.Moreover,g is unique up to a holomorphic conjugation.

  5. Shape design sensitivity analysis using domain information

    Science.gov (United States)

    Seong, Hwal-Gyeong; Choi, Kyung K.

    1985-01-01

    A numerical method for obtaining accurate shape design sensitivity information for built-up structures is developed and demonstrated through analysis of examples. The basic character of the finite element method, which gives more accurate domain information than boundary information, is utilized for shape design sensitivity improvement. A domain approach for shape design sensitivity analysis of built-up structures is derived using the material derivative idea of structural mechanics and the adjoint variable method of design sensitivity analysis. Velocity elements and B-spline curves are introduced to alleviate difficulties in generating domain velocity fields. The regularity requirements of the design velocity field are studied.

  6. Time-domain nature of group delay

    Institute of Scientific and Technical Information of China (English)

    王建武; 冯正和

    2015-01-01

    The characteristic of group delay is analyzed based on an electronic circuit, and its time-domain nature is studied with time-domain simulation and experiment. The time-domain simulations and experimental results show that group delay is the delay of the energy center of the amplitude-modulated pulse, rather than the propagation delay of the electromagnetic field. As group velocity originates from the definition of group delay and group delay is different from the propagation delay, the superluminality or negativity of group velocity does not mean the superluminal or negative propagation of the electromagnetic field.

  7. System Identification A Frequency Domain Approach

    CERN Document Server

    Pintelon, Rik

    2012-01-01

    System identification is a general term used to describe mathematical tools and algorithms that build dynamical models from measured data. Used for prediction, control, physical interpretation, and the designing of any electrical systems, they are vital in the fields of electrical, mechanical, civil, and chemical engineering. Focusing mainly on frequency domain techniques, System Identification: A Frequency Domain Approach, Second Edition also studies in detail the similarities and differences with the classical time domain approach. It high??lights many of the important steps in the identi

  8. Cross domains Arabic named entity recognition system

    Science.gov (United States)

    Al-Ahmari, S. Saad; Abdullatif Al-Johar, B.

    2016-07-01

    Named Entity Recognition (NER) plays an important role in many Natural Language Processing (NLP) applications such as; Information Extraction (IE), Question Answering (QA), Text Clustering, Text Summarization and Word Sense Disambiguation. This paper presents the development and implementation of domain independent system to recognize three types of Arabic named entities. The system works based on a set of domain independent grammar-rules along with Arabic part of speech tagger in addition to gazetteers and lists of trigger words. The experimental results shown, that the system performed as good as other systems with better results in some cases of cross-domains corpora.

  9. Domain decomposition algorithms and computational fluid dynamics

    Science.gov (United States)

    Chan, Tony F.

    1988-01-01

    Some of the new domain decomposition algorithms are applied to two model problems in computational fluid dynamics: the two-dimensional convection-diffusion problem and the incompressible driven cavity flow problem. First, a brief introduction to the various approaches of domain decomposition is given, and a survey of domain decomposition preconditioners for the operator on the interface separating the subdomains is then presented. For the convection-diffusion problem, the effect of the convection term and its discretization on the performance of some of the preconditioners is discussed. For the driven cavity problem, the effectiveness of a class of boundary probe preconditioners is examined.

  10. NCBI nr-aa BLAST: CBRC-FCAT-01-0707 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-FCAT-01-0707 ref|NP_001081583.1| POU-domain protein [Xenopus laevis] emb|CAA60136.1| POU-60 [Xenopus... laevis] gb|AAH70557.1| LOC397936 protein [Xenopus laevis] NP_001081583.1 1.6 35% ...

  11. Functional dissection of the Oct6 schwann cell enhancer reveals an essential role for dimeric sox10 binding

    NARCIS (Netherlands)

    N.B. Jagalur (Noorjahan ); M. Ghazvini (Mehrnaz); W. Mandemakers (Wim); S. Driegen (Siska); A. Maas (Alex); E.A. Jones (Erin); F.G. Grosveld (Frank); M. Jaegle (Martine); J. Svaren (John); D.N. Meijer (Dies)

    2011-01-01

    textabstractThe POU domain transcription factor Pou3f1 (Oct6/Scip/Tst1) initiates the transition from ensheathing, promyelinating Schwann cells to myelinating cells. Axonal and other extracellular signals regulate Oct6 expression through the Oct6 Schwann cell enhancer (SCE), which is both required a

  12. Separating Cognitive and Content Domains in Mathematical Competence

    Science.gov (United States)

    Harks, Birgit; Klieme, Eckhard; Hartig, Johannes; Leiss, Dominik

    2014-01-01

    The present study investigates the empirical separability of mathematical (a) content domains, (b) cognitive domains, and (c) content-specific cognitive domains. There were 122 items representing two content domains (linear equations vs. theorem of Pythagoras) combined with two cognitive domains (modeling competence vs. technical competence)…

  13. Supporting multiple domains in a single reuse repository

    Science.gov (United States)

    Eichmann, David

    1992-01-01

    Domain analysis typically results in the construction of a domain-specific repository. Such a repository imposes artificial boundaries on the sharing of similar assets between related domains. A lattice-based approach to repository modeling can preserve a reuser's domain specific view of the repository, while avoiding replication of commonly used assets and supporting a more general perspective on domain interrelationships.

  14. Magnified time-domain ghost imaging

    Science.gov (United States)

    Ryczkowski, Piotr; Barbier, Margaux; Friberg, Ari T.; Dudley, John M.; Genty, Goëry

    2017-04-01

    Ghost imaging allows the imaging of an object without directly seeing this object. Originally demonstrated in the spatial domain, it was recently shown that ghost imaging can be transposed into the time domain to detect ultrafast signals, even in the presence of distortion. We propose and experimentally demonstrate a temporal ghost imaging scheme which generates a 5× magnified ghost image of an ultrafast waveform. Inspired by shadow imaging in the spatial domain and building on the dispersive Fourier transform of an incoherent supercontinuum in an optical fiber, the approach overcomes the resolution limit of standard time-domain ghost imaging generally imposed by the detectors speed. The method can be scaled up to higher magnification factors using longer fiber lengths and light source with shorter duration.

  15. Domain wall magneto-Seebeck effect

    Science.gov (United States)

    Krzysteczko, Patryk; Hu, Xiukun; Liebing, Niklas; Sievers, Sibylle; Schumacher, Hans W.

    2015-10-01

    The interplay between charge, spin, and heat currents in magnetic nanostructures subjected to a temperature gradient has led to a variety of novel effects and promising applications studied in the fast-growing field of spin caloritronics. Here, we explore the magnetothermoelectrical properties of an individual magnetic domain wall in a permalloy nanowire. In thermal gradients of the order of few K /μ m along the long wire axis, we find a clear magneto-Seebeck signature due to the presence of a single domain wall. The observed domain wall magneto-Seebeck effect can be explained by the magnetization-dependent Seebeck coefficient of permalloy in combination with the local spin configuration of the domain wall.

  16. Oversampling analysis in fractional Fourier domain

    Institute of Scientific and Technical Information of China (English)

    ZHANG Feng; TAO Ran; WANG Yue

    2009-01-01

    Oversampling is widely used in practical applications of digital signal processing. As the fractional Fourier transform has been developed and applied in signal processing fields, it is necessary to consider the oversampling theorem in the fractional Fourier domain. In this paper, the oversampling theorem in the fractional Fourier domain is analyzed. The fractional Fourier spectral relation between the original oversampled sequence and its subsequences is derived first, and then the expression for exact reconstruction of the missing samples in terms of the subsequences is obtained. Moreover, by taking a chirp signal as an example, it is shown that, reconstruction of the missing samples in the oversampled signal Is suitable in the fractional Fourier domain for the signal whose time-frequency distribution has the minimum support in the fractional Fourier domain.

  17. De novo design of synthetic prion domains.

    Science.gov (United States)

    Toombs, James A; Petri, Michelina; Paul, Kacy R; Kan, Grace Y; Ben-Hur, Asa; Ross, Eric D

    2012-04-24

    Prions are important disease agents and epigenetic regulatory elements. Prion formation involves the structural conversion of proteins from a soluble form into an insoluble amyloid form. In many cases, this structural conversion is driven by a glutamine/asparagine (Q/N)-rich prion-forming domain. However, our understanding of the sequence requirements for prion formation and propagation by Q/N-rich domains has been insufficient for accurate prion propensity prediction or prion domain design. By focusing exclusively on amino acid composition, we have developed a prion aggregation prediction algorithm (PAPA), specifically designed to predict prion propensity of Q/N-rich proteins. Here, we show not only that this algorithm is far more effective than traditional amyloid prediction algorithms at predicting prion propensity of Q/N-rich proteins, but remarkably, also that PAPA is capable of rationally designing protein domains that function as prions in vivo.

  18. Between-domain relations of students' academic emotions and their judgments of school domain similarity

    Science.gov (United States)

    Goetz, Thomas; Haag, Ludwig; Lipnevich, Anastasiya A.; Keller, Melanie M.; Frenzel, Anne C.; Collier, Antonie P. M.

    2014-01-01

    With the aim to deepen our understanding of the between-domain relations of academic emotions, a series of three studies was conducted. We theorized that between-domain relations of trait (i.e., habitual) emotions reflected students' judgments of domain similarities, whereas between-domain relations of state (i.e., momentary) emotions did not. This supposition was based on the accessibility model of emotional self-report, according to which individuals' beliefs tend to strongly impact trait, but not state emotions. The aim of Study 1 (interviews; N = 40; 8th and 11th graders) was to gather salient characteristics of academic domains from students' perspective. In Study 2 (N = 1709; 8th and 11th graders) the 13 characteristics identified in Study 1 were assessed along with academic emotions in four different domains (mathematics, physics, German, and English) using a questionnaire-based trait assessment. With respect to the same domains, state emotions were assessed in Study 3 (N = 121; 8th and 11th graders) by employing an experience sampling approach. In line with our initial assumptions, between-domain relations of trait but not state academic emotions reflected between-domain relations of domain characteristics. Implications for research and practice are discussed. PMID:25374547

  19. Between-Domain Relations of Students’ Academic Emotions and Their Judgments of School Domain Similarity

    Directory of Open Access Journals (Sweden)

    Thomas eGoetz

    2014-10-01

    Full Text Available With the aim to deepen our understanding of the between-domain relations of academic emotions, a series of three studies was conducted. We theorized that between-domain relations of trait (i.e., habitual emotions reflected students’ judgments of domain similarities, whereas between-domain relations of state (i.e., momentary emotions did not. This supposition was based on the accessibility model of emotional self-report, according to which individuals’ beliefs tend to strongly impact trait, but not state emotions. The aim of Study 1 (interviews; N = 40; 8th and 11th graders was to gather salient characteristics of academic domains from students’ perspective. In Study 2 (N=1709; 8th and 11th graders the 13 characteristics identified in Study 1 were assessed along with academic emotions in four different domains (mathematics, physics, German, and English using a questionnaire-based trait assessment. With respect to the same domains, state emotions were assessed in Study 3 (N = 121; 8th and 11th graders by employing an experience sampling approach. In line with our initial assumptions, between-domain relations of trait but not state academic emotions reflected between-domain relations of domain characteristics. Implications for research and practice are discussed.

  20. Univalent Biharmonic Mappings and Linearly Connected Domains

    Directory of Open Access Journals (Sweden)

    Zayid Abdulhadi

    2015-11-01

    Full Text Available A four times continuously differentiable complex valued function F = u + iv in a simply connected domain Ω is biharmonic if the laplacian of F is harmonic. Every biharmonic mapping F in Ω has the representation F = |z|^2 G + K, where G and K are harmonic in Ω. This paper investigates the relationship between the univalence of F and of K using the concept of linearly connected domains.

  1. Domain Wall Evolution in Phase Transforming Oxides

    Science.gov (United States)

    2015-01-14

    PERFORMING ORGANIZATION NAMES AND ADDRESSES 8. PERFORMI:N’G ORGANIZATION REPORT University ofFioridaOffice ofEngineering NUMBER 339 Wei I Hall ...surveillance, navigation, tlrreat identification, target acquisition, and missile guidance. Domain wall motion, or the planar defects separating regions of...surveillance, navigation, threat identification, target acquisition, and missile guidance. Domain wall motion, or the planar defects separating regions of

  2. Neural network models of protein domain evolution

    OpenAIRE

    Sylvia Nagl

    2000-01-01

    Protein domains are complex adaptive systems, and here a novel procedure is presented that models the evolution of new functional sites within stable domain folds using neural networks. Neural networks, which were originally developed in cognitive science for the modeling of brain functions, can provide a fruitful methodology for the study of complex systems in general. Ethical implications of developing complex systems models of biomolecules are discussed, with particular reference to molecu...

  3. Domain Decomposition Based High Performance Parallel Computing

    CERN Document Server

    Raju, Mandhapati P

    2009-01-01

    The study deals with the parallelization of finite element based Navier-Stokes codes using domain decomposition and state-ofart sparse direct solvers. There has been significant improvement in the performance of sparse direct solvers. Parallel sparse direct solvers are not found to exhibit good scalability. Hence, the parallelization of sparse direct solvers is done using domain decomposition techniques. A highly efficient sparse direct solver PARDISO is used in this study. The scalability of both Newton and modified Newton algorithms are tested.

  4. Canonical metrics on Cartan--Hartogs domains

    CERN Document Server

    Zedda, Michela

    2011-01-01

    In this paper we address two problems concerning a family of domains $M_{\\Omega}(\\mu) \\subset \\C^n$, called Cartan-Hartogs domains, endowed with a natural Kaehler metric $g(\\mu)$. The first one is determining when the metric $g(\\mu)$ is extremal (in the sense of Calabi), while the second one studies when the coefficient $a_2$ in the Engli\\v{s} expansion of Rawnsley $\\epsilon$-function associated to $g(\\mu)$ is constant.

  5. Barriers to Critical Thinking Across Domains

    OpenAIRE

    Geertsen, Reed

    2013-01-01

    The transfer of critical thinking across domains presents both a significant challenge and meaningful opportunity for college education as well as programs of continuing education and · efforts to encourage lifelong learning. After examining different approaches to teaching critical thinking, this paper examines some of the barriers to transfer across domains using an interactionist perspective. This perspective underscores the fact that developing and using critical thinking i...

  6. Domain Specific Languages for Interactive Web Services

    DEFF Research Database (Denmark)

    Brabrand, Claus

    This dissertation shows how domain specific languages may be applied to the domain of interactive Web services to obtain flexible, safe, and efficient solutions. We show how each of four key aspects of interactive Web services involving sessions, dynamic creation of HTML/XML documents, form field......, , that supports virtually all aspects of the development of interactive Web services and provides flexible, safe, and efficient solutions....

  7. Targeting Discoidin Domain Receptors in Prostate Cancer

    Science.gov (United States)

    2016-08-01

    1 AWARD NUMBER: W81XWH-15-1-0226 TITLE: Targeting Discoidin Domain Receptors in Prostate Cancer PRINCIPAL INVESTIGATOR: Dr. Rafael Fridman...4. TITLE AND SUBTITLE 5a. CONTRACT NUMBER W81XWH-15-1-0226 Targeting Discoidin Domain Receptors in Prostate Cancer 5b. GRANT NUMBER W81XWH-15...DDRs in prostate cancer . During the first funding period, we conducted immunohistochemical studies by staining a 200 case Grade/Stage tissue

  8. Multi-domain training enhances attentional control.

    Science.gov (United States)

    Binder, Julia C; Martin, Mike; Zöllig, Jacqueline; Röcke, Christina; Mérillat, Susan; Eschen, Anne; Jäncke, Lutz; Shing, Yee Lee

    2016-06-01

    Multi-domain training potentially increases the likelihood of overlap in processing components with transfer tasks and everyday life, and hence is a promising training approach for older adults. To empirically test this, 84 healthy older adults aged 64 to 75 years were randomly assigned to one of three single-domain training conditions (inhibition, visuomotor function, spatial navigation) or to the simultaneous training of all three cognitive functions (multi-domain training condition). All participants trained on an iPad at home for 50 training sessions. Before and after the training, and at a 6-month follow-up measurement, cognitive functioning and training transfer were assessed with a neuropsychological test battery including tests targeting the trained functions (near transfer) and transfer to executive functions (far transfer: attentional control, working memory, speed). Participants in all four training groups showed a linear increase in training performance over the 50 training sessions. Using a latent difference score model, the multi-domain training group, compared with the single-domain training groups, showed more improvement on the far transfer attentional control composite. Individuals with initially lower baseline performance showed higher training-related improvements, indicating that training compensated for lower initial cognitive performance. At the 6-month follow-up, performance on the cognitive test battery remained stable. This is one of the first studies to investigate systematically multi-domain training including comparable single-domain training conditions. Our findings suggest that multi-domain training enhances attentional control involved in handling several different tasks at the same time, an aspect in everyday life that is particularly challenging for older people. (PsycINFO Database Record

  9. Pleckstrin homology domains and the cytoskeleton.

    Science.gov (United States)

    Lemmon, Mark A; Ferguson, Kathryn M; Abrams, Charles S

    2002-02-20

    Pleckstrin homology (PH) domains are 100-120 amino acid protein modules best known for their ability to bind phosphoinositides. All possess an identical core beta-sandwich fold and display marked electrostatic sidedness. The binding site for phosphoinositides lies in the center of the positively charged face. In some cases this binding site is well defined, allowing highly specific and strong ligand binding. In several of these cases the PH domains specifically recognize 3-phosphorylated phosphoinositides, allowing them to drive membrane recruitment in response to phosphatidylinositol 3-kinase activation. Examples of these PH domain-containing proteins include certain Dbl family guanine nucleotide exchange factors, protein kinase B, PhdA, and pleckstrin-2. PH domain-mediated membrane recruitment of these proteins contributes to regulated actin assembly and cell polarization. Many other PH domain-containing cytoskeletal proteins, such as spectrin, have PH domains that bind weakly, and to all phosphoinositides. In these cases, the individual phosphoinositide interactions may not be sufficient for membrane association, but appear to require self-assembly of their host protein and/or cooperation with other anchoring motifs within the same molecule to drive membrane attachment.

  10. Constant domain-regulated antibody catalysis.

    Science.gov (United States)

    Sapparapu, Gopal; Planque, Stephanie; Mitsuda, Yukie; McLean, Gary; Nishiyama, Yasuhiro; Paul, Sudhir

    2012-10-19

    Some antibodies contain variable (V) domain catalytic sites. We report the superior amide and peptide bond-hydrolyzing activity of the same heavy and light chain V domains expressed in the IgM constant domain scaffold compared with the IgG scaffold. The superior catalytic activity of recombinant IgM was evident using two substrates, a small model peptide that is hydrolyzed without involvement of high affinity epitope binding, and HIV gp120, which is recognized specifically by noncovalent means prior to the hydrolytic reaction. The catalytic activity was inhibited by an electrophilic phosphonate diester, consistent with a nucleophilic catalytic mechanism. All 13 monoclonal IgMs tested displayed robust hydrolytic activities varying over a 91-fold range, consistent with expression of the catalytic functions at distinct levels by different V domains. The catalytic activity of polyclonal IgM was superior to polyclonal IgG from the same sera, indicating that on average IgMs express the catalytic function at levels greater than IgGs. The findings indicate a favorable effect of the remote IgM constant domain scaffold on the integrity of the V-domain catalytic site and provide a structural basis for conceiving antibody catalysis as a first line immune function expressed at high levels prior to development of mature IgG class antibodies.

  11. Functional domains of the poliovirus receptor

    Energy Technology Data Exchange (ETDEWEB)

    Koike, Satoshi; Ise, Iku; Nomoto, Akio (Tokyo Metropolitan Institute of Medical Science (Japan))

    1991-05-15

    A number of mutant cDNAs of the human poliovirus receptor were constructed to identify essential regions of the molecule as the receptor. All mutant cDNAs carrying the sequence coding for the entire N-terminal immunoglobulin-like domain (domain I) confer permissiveness for poliovirus to mouse L cells, but a mutant cDNA lacking the sequence for domain I does not. The transformants permissive for poliovirus were able to bind the virus and were also recognized by monoclonal antibody D171, which competes with poliovirus for the cellular receptor. These results strongly suggest that the poliovirus binding site resides in domain I of the receptor. Mutant cDNAs for the sequence encoding the intracellular peptide were also constructed and expressed in mouse L cells. Susceptibility of these cells to poliovirus revealed that the entire putative cytoplasmic domain is not essential for virus infection. Thus, the cytoplasmic domain of the molecule appears not to play a role in the penetration of poliovirus.

  12. Robust ferromagnetism carried by antiferromagnetic domain walls

    Science.gov (United States)

    Hirose, Hishiro T.; Yamaura, Jun-Ichi; Hiroi, Zenji

    2017-02-01

    Ferroic materials, such as ferromagnetic or ferroelectric materials, have been utilized as recording media for memory devices. A recent trend for downsizing, however, requires an alternative, because ferroic orders tend to become unstable for miniaturization. The domain wall nanoelectronics is a new developing direction for next-generation devices, in which atomic domain walls, rather than conventional, large domains themselves, are the active elements. Here we show that atomically thin magnetic domain walls generated in the antiferromagnetic insulator Cd2Os2O7 carry unusual ferromagnetic moments perpendicular to the wall as well as electron conductivity: the ferromagnetic moments are easily polarized even by a tiny field of 1 mT at high temperature, while, once cooled down, they are surprisingly robust even in an inverse magnetic field of 7 T. Thus, the magnetic domain walls could serve as a new-type of microscopic, switchable and electrically readable magnetic medium which is potentially important for future applications in the domain wall nanoelectronics.

  13. Mechanical Properties of Nanoscopic Lipid Domains.

    Science.gov (United States)

    Nickels, Jonathan D; Cheng, Xiaolin; Mostofian, Barmak; Stanley, Christopher; Lindner, Benjamin; Heberle, Frederick A; Perticaroli, Stefania; Feygenson, Mikhail; Egami, Takeshi; Standaert, Robert F; Smith, Jeremy C; Myles, Dean A A; Ohl, Michael; Katsaras, John

    2015-12-23

    The lipid raft hypothesis presents insights into how the cell membrane organizes proteins and lipids to accomplish its many vital functions. Yet basic questions remain about the physical mechanisms that lead to the formation, stability, and size of lipid rafts. As a result, much interest has been generated in the study of systems that contain similar lateral heterogeneities, or domains. In the current work we present an experimental approach that is capable of isolating the bending moduli of lipid domains. This is accomplished using neutron scattering and its unique sensitivity to the isotopes of hydrogen. Combining contrast matching approaches with inelastic neutron scattering, we isolate the bending modulus of ∼13 nm diameter domains residing in 60 nm unilamellar vesicles, whose lipid composition mimics the mammalian plasma membrane outer leaflet. Importantly, the bending modulus of the nanoscopic domains differs from the modulus of the continuous phase surrounding them. From additional structural measurements and all-atom simulations, we also determine that nanoscopic domains are in-register across the bilayer leaflets. Taken together, these results inform a number of theoretical models of domain/raft formation and highlight the fact that mismatches in bending modulus must be accounted for when explaining the emergence of lateral heterogeneities in lipid systems and biological membranes.

  14. Structured hints : extracting and abstracting domain expertise.

    Energy Technology Data Exchange (ETDEWEB)

    Hereld, M.; Stevens, R.; Sterling, T.; Gao, G. R.; Mathematics and Computer Science; California Inst. of Tech.; Louisiana State Univ.; Univ. of Delaware

    2009-03-16

    We propose a new framework for providing information to help optimize domain-specific application codes. Its design addresses problems that derive from the widening gap between the domain problem statement by domain experts and the architectural details of new and future high-end computing systems. The design is particularly well suited to program execution models that incorporate dynamic adaptive methodologies for live tuning of program performance and resource utilization. This new framework, which we call 'structured hints', couples a vocabulary of annotations to a suite of performance metrics. The immediate target is development of a process by which a domain expert describes characteristics of objects and methods in the application code that would not be readily apparent to the compiler; the domain expert provides further information about what quantities might provide the best indications of desirable effect; and the interactive preprocessor identifies potential opportunities for the domain expert to evaluate. Our development of these ideas is progressing in stages from case study, through manual implementation, to automatic or semi-automatic implementation. In this paper we discuss results from our case study, an examination of a large simulation of a neural network modeled after the neocortex.

  15. Controllability of vortex domain structure in ferroelectric nanodot: fruitful domain patterns and transformation paths.

    Science.gov (United States)

    Wu, C M; Chen, W J; Zheng, Yue; Ma, D C; Wang, B; Liu, J Y; Woo, C H

    2014-02-04

    Ferroelectric vortex domain structure which exists in low-dimensional ferroelectrics is being intensively researched for future applications in functional nanodevices. Here we demonstrate that adjusting surface charge screening in combination with temperature can provide an efficient way to gain control of vortex domain structure in ferroelectric nanodot. Systematical simulating experiments have been conducted to reveal the stability and evolution mechanisms of domain structure in ferroelectric nanodot under various conditions, including processes of cooling-down/heating-up under different surface charge screening conditions, and increasing/decreasing surface charge screening at different temperatures. Fruitful phase diagrams as functions of surface screening and temperature are presented, together with evolution paths of various domain patterns. Calculations discover up to 25 different kinds of domain patterns and 22 typical evolution paths of phase transitions. The fruitful controllability of vortex domain structure by surface charge screening in combination with temperature should shed light on prospective nanodevice applications of low-dimensional ferroelectric nanostructures.

  16. Human-computer interface incorporating personal and application domains

    Science.gov (United States)

    Anderson, Thomas G.

    2011-03-29

    The present invention provides a human-computer interface. The interface includes provision of an application domain, for example corresponding to a three-dimensional application. The user is allowed to navigate and interact with the application domain. The interface also includes a personal domain, offering the user controls and interaction distinct from the application domain. The separation into two domains allows the most suitable interface methods in each: for example, three-dimensional navigation in the application domain, and two- or three-dimensional controls in the personal domain. Transitions between the application domain and the personal domain are under control of the user, and the transition method is substantially independent of the navigation in the application domain. For example, the user can fly through a three-dimensional application domain, and always move to the personal domain by moving a cursor near one extreme of the display.

  17. Eukaryotic protein domains as functional units of cellular evolution

    DEFF Research Database (Denmark)

    Jin, Jing; Xie, Xueying; Chen, Chen;

    2009-01-01

    domain compositions and functional properties, termed "domain clubs," which we use to compare multiple eukaryotic proteomes. This analysis shows that different domain types can take distinct evolutionary trajectories, which correlate with the conservation, gain, expansion, or decay of particular...... of different domain types to assess the molecular compartment occupied by each domain. This reveals that specific subsets of domains demarcate particular cellular processes, such as growth factor signaling, chromatin remodeling, apoptotic and inflammatory responses, or vesicular trafficking. We suggest...

  18. A Review of Domain Modelling and Domain Imaging Techniques in Ferroelectric Crystals

    Directory of Open Access Journals (Sweden)

    John E. Huber

    2011-02-01

    Full Text Available The present paper reviews models of domain structure in ferroelectric crystals, thin films and bulk materials. Common crystal structures in ferroelectric materials are described and the theory of compatible domain patterns is introduced. Applications to multi-rank laminates are presented. Alternative models employing phase-field and related techniques are reviewed. The paper then presents methods of observing ferroelectric domain structure, including optical, polarized light, scanning electron microscopy, X-ray and neutron diffraction, atomic force microscopy and piezo-force microscopy. Use of more than one technique for unambiguous identification of the domain structure is also described.

  19. Low energy electron imaging of domains and domain walls in magnesium-doped lithium niobate

    Science.gov (United States)

    Nataf, G. F.; Grysan, P.; Guennou, M.; Kreisel, J.; Martinotti, D.; Rountree, C. L.; Mathieu, C.; Barrett, N.

    2016-01-01

    The understanding of domain structures, specifically domain walls, currently attracts a significant attention in the field of (multi)-ferroic materials. In this article, we analyze contrast formation in full field electron microscopy applied to domains and domain walls in the uniaxial ferroelectric lithium niobate, which presents a large 3.8 eV band gap and for which conductive domain walls have been reported. We show that the transition from Mirror Electron Microscopy (MEM – electrons reflected) to Low Energy Electron Microscopy (LEEM – electrons backscattered) gives rise to a robust contrast between domains with upwards (Pup) and downwards (Pdown) polarization, and provides a measure of the difference in surface potential between the domains. We demonstrate that out-of-focus conditions of imaging produce contrast inversion, due to image distortion induced by charged surfaces, and also carry information on the polarization direction in the domains. Finally, we show that the intensity profile at domain walls provides experimental evidence for a local stray, lateral electric field. PMID:27608605

  20. Conversion of Dielectric Data from the Time Domain to the Frequency Domain

    Directory of Open Access Journals (Sweden)

    Vladimir Durman

    2005-01-01

    Full Text Available Polarisation and conduction processes in dielectric systems can be identified by the time domain or the frequency domain measurements. If the systems is a linear one, the results of the time domain measurements can be transformed into the frequency domain, and vice versa. Commonly, the time domain data of the absorption conductivity are transformed into the frequency domain data of the dielectric susceptibility. In practice, the relaxation are mainly evaluated by the frequency domain data. In the time domain, the absorption current measurement were prefered up to now. Recent methods are based on the recovery voltage measurements. In this paper a new method of the recovery data conversion from the time the frequency domain is proposed. The method is based on the analysis of the recovery voltage transient based on the Maxwell equation for the current density in a dielectric. Unlike the previous published solutions, the Laplace fransform was used to derive a formula suitable for practical purposes. the proposed procedure allows also calculating of the insulation resistance and separating the polarisation and conduction losses.

  1. Domain structure of Lassa virus L protein.

    Science.gov (United States)

    Brunotte, Linda; Lelke, Michaela; Hass, Meike; Kleinsteuber, Katja; Becker-Ziaja, Beate; Günther, Stephan

    2011-01-01

    The 200-kDa L protein of arenaviruses plays a central role in viral genome replication and transcription. This study aimed at providing evidence for the domain structure of L protein by combining bioinformatics with a stepwise mutagenesis approach using the Lassa virus minireplicon system. Potential interdomain linkers were predicted using various algorithms. The prediction was challenged by insertion of flexible sequences into the predicted linkers. Insertion of 5 or 10 amino acid residues was tolerated at seven sites (S407, G446, G467, G774, G939, S1952, and V2074 in Lassa virus AV). At two of these sites, G467 and G939, L protein could be split into an N-terminal and a C-terminal part, which were able to trans-complement each other and reconstitute a functional complex upon coexpression. Coimmunoprecipitation studies revealed physical interaction between the N- and C-terminal domains, irrespective of whether L protein was split at G467 or G939. In confocal immunofluorescence microscopy, the N-terminal domains showed a dot-like, sometimes perinuclear, cytoplasmic distribution similar to that of full-length L protein, while the C-terminal domains were homogenously distributed in cytoplasm. The latter were redistributed into the dot-like structures upon coexpression with the corresponding N-terminal domain. In conclusion, this study demonstrates two interdomain linkers in Lassa virus L protein, at G467 and G939, suggesting that L protein is composed of at least three structural domains spanning residues 1 to 467, 467 to 939, and 939 to 2220. The first domain seems to mediate accumulation of L protein into cytoplasmic dot-like structures.

  2. Wavefield Extrapolation in Pseudo-depth Domain

    KAUST Repository

    Ma, Xuxin

    2011-12-11

    Wave-equation based seismic migration and inversion tools are widely used by the energy industry to explore hydrocarbon and mineral resources. By design, most of these techniques simulate wave propagation in a space domain with the vertical axis being depth measured from the surface. Vertical depth is popular because it is a straightforward mapping of the subsurface space. It is, however, not computationally cost-effective because the wavelength changes with local elastic wave velocity, which in general increases with depth in the Earth. As a result, the sampling per wavelength also increases with depth. To avoid spatial aliasing in deep fast media, the seismic wave is oversampled in shallow slow media and therefore increase the total computation cost. This issue is effectively tackled by using the vertical time axis instead of vertical depth. This is because in a vertical time representation, the "wavelength" is essentially time period for vertical rays. This thesis extends the vertical time axis to the pseudo-depth axis, which features distance unit while preserving the properties of the vertical time representation. To explore the potentials of doing wave-equation based imaging in the pseudo-depth domain, a Partial Differential Equation (PDE) is derived to describe acoustic wave in this new domain. This new PDE is inherently anisotropic because the use of a constant vertical velocity to convert between depth and vertical time. Such anisotropy results in lower reflection coefficients compared with conventional space domain modeling results. This feature is helpful to suppress the low wavenumber artifacts in reverse-time migration images, which are caused by the widely used cross-correlation imaging condition. This thesis illustrates modeling acoustic waves in both conventional space domain and pseudo-depth domain. The numerical tool used to model acoustic waves is built based on the lowrank approximation of Fourier integral operators. To investigate the potential

  3. The Popeye domain-containing gene family.

    Science.gov (United States)

    Brand, Thomas

    2005-01-01

    The Popeye domain-containing gene family has been isolated on the basis of a subtractive screen aiming at the identification of novel genes with a heart-restricted gene expression pattern. The gene family codes for membrane proteins containing three transmembrane domains. The carboxy-terminal part of the protein is localized to the cytoplasm and contains a protein domain with high sequence conservation named the Popeye domain. This domain is involved in protein homo dimerization. The gene family is expressed in heart and skeletal muscle cells as well as smooth muscle cells. In addition, Popdc genes are expressed in other cell types such as neuronal cells in restricted areas of the brain, spinal cord, and dorsal root ganglia, and in various epithelial cells. Recently, it has been proposed that Popdc proteins may function as a novel family of adhesion proteins. That the expression pattern has been conserved during evolution and is very similar in all vertebrate classes and also in basal chordates suggests that Popdc proteins play an important role in cardiac and skeletal muscle.

  4. Direct measurement of antiferromagnetic domain fluctuations.

    Energy Technology Data Exchange (ETDEWEB)

    Shpyrko, O. G.; Isaacs, E. D.; Logan, J. M.; Feng, Y.; Aeppli, G.; Jaramillo, R.; Kim, H. C.; Rosenbaum, T. F.; Zschack, P.; Sprung, M.; Narayanan, S.; Sandy, A.; Univ. of Chicago; Univ. College London

    2007-05-03

    Measurements of magnetic noise emanating from ferromagnets owing to domain motion were first carried out nearly 100 years ago1, and have underpinned much science and technology2, 3. Antiferromagnets, which carry no net external magnetic dipole moment, yet have a periodic arrangement of the electron spins extending over macroscopic distances, should also display magnetic noise. However, this must be sampled at spatial wavelengths of the order of several interatomic spacings, rather than the macroscopic scales characteristic of ferromagnets. Here we present a direct measurement of the fluctuations in the nanometer-scale superstructure of spin- and charge-density waves associated with antiferromagnetism in elemental chromium. The technique used is X-ray photon correlation spectroscopy, where coherent X-ray diffraction produces a speckle pattern that serves as a 'fingerprint' of a particular magnetic domain configuration. The temporal evolution of the patterns corresponds to domain walls advancing and retreating over micrometer distances. This work demonstrates a useful measurement tool for antiferromagnetic domain wall engineering, but also reveals a fundamental finding about spin dynamics in the simplest antiferromagnet: although the domain wall motion is thermally activated at temperatures above 100 K, it is not so at lower temperatures, and indeed has a rate that saturates at a finite value--consistent with quantum fluctuations--on cooling below 40 K.

  5. Cross domains Arabic named entity recognition system

    KAUST Repository

    Al-Ahmari, S. Saad

    2016-07-11

    Named Entity Recognition (NER) plays an important role in many Natural Language Processing (NLP) applications such as; Information Extraction (IE), Question Answering (QA), Text Clustering, Text Summarization and Word Sense Disambiguation. This paper presents the development and implementation of domain independent system to recognize three types of Arabic named entities. The system works based on a set of domain independent grammar-rules along with Arabic part of speech tagger in addition to gazetteers and lists of trigger words. The experimental results shown, that the system performed as good as other systems with better results in some cases of cross-domains corpora. © (2016) COPYRIGHT Society of Photo-Optical Instrumentation Engineers (SPIE). Downloading of the abstract is permitted for personal use only.

  6. Anomalous feedback and negative domain wall resistance

    Science.gov (United States)

    Cheng, Ran; Zhu, Jian-Gang; Xiao, Di

    2016-11-01

    Magnetic induction can be regarded as a negative feedback effect, where the motive-force opposes the change of magnetic flux that generates the motive-force. In artificial electromagnetics emerging from spintronics, however, this is not necessarily the case. By studying the current-induced domain wall dynamics in a cylindrical nanowire, we show that the spin motive-force exerting on electrons can either oppose or support the applied current that drives the domain wall. The switching into the anomalous feedback regime occurs when the strength of the dissipative torque β is about twice the value of the Gilbert damping constant α. The anomalous feedback manifests as a negative domain wall resistance, which has an analogy with the water turbine.

  7. Work-domain knowledge in usability evaluation

    DEFF Research Database (Denmark)

    Følstad, Asbjørn; Hornbæk, Kasper

    2010-01-01

    whether such interpretation phases improve the relevance of usability evaluations in the development of work-domain specific systems. The study included two development cases. We conclude that the interpretation phases generate additional insight and redesign suggestions related to observed usability...... impact on the software development process. The benefits of the interpretation phases may be explained by the access these provide both to the test participants’ work-domain knowledge and to their experiences as users. .......Usability evaluation helps to determine whether interactive systems support users in their work tasks. However, knowledge about those tasks and, more generally, about the work-domain is difficult to bring to bear on the processes and outcome of usability evaluation. One way to include such work...

  8. Quasiconformal Mappings and Weakly John Domains

    Institute of Scientific and Technical Information of China (English)

    褚玉明

    2003-01-01

    @@ Let D be a bounded domain in R2 and c (≥ 1) be a constant. We say that D is a c-Johndomain if there exists x0 ∈ D such that for any x ∈ D, there must be a rectifiable curve γ C D,which joins x and x0, satisfying l(γ(x, y)) ≤ cd(y, D) for any y ∈γ, where l(γ(x, y)) denotesthe Euclidean length of the subcurve γ between x and y, d(y, D) is the Euclidean distance fromy to the boundary D of D. We say that D is a John domain if D is a c-John domain for somec (≥ 1).

  9. Domain Theory, Its Models and Concepts

    DEFF Research Database (Denmark)

    Andreasen, Mogens Myrup; Howard, Thomas J.; Bruun, Hans Peter Lomholt

    2014-01-01

    Domain Theory is a systems approach for the analysis and synthesis of products. Its basic idea is to view a product as systems of activities, organs and parts and to define structure, elements, behaviour and function in these domains. The theory is a basis for a long line of research contributions...... and industrial applications especially for the DFX areas (not reported here) and for product modelling. The theory therefore contains a rich ontology of interrelated concepts. The Domain Theory is not aiming to create normative methods but the creation of a collection of concepts related to design phenomena......, which can support design work and to form elements of designers’ mindsets and thereby their practice. The theory is a model-based theory, which means it is composed of concepts and models, which explains certain design phenomena. Many similar theories are described in the literature with differences...

  10. Matters of fiber size and myonuclear domain

    DEFF Research Database (Denmark)

    Karlsen, Anders; Couppé, Christian; Andersen, Jesper L.;

    2015-01-01

    INTRODUCTION: The relationship between fiber size and myonuclear content is understood poorly. METHODS: Biopsy cross-sections from young and old trained and untrained healthy individuals were analyzed for fiber area and myonuclei, and 2 fiber size-dependent cluster analyses were performed. RESULTS......: Comparing fibers of similar size, no effect of training or age was found for myonuclear domain. There was a linear relationship between fiber area and myonuclei per fiber (r=0.99; Pfiber area and domain (r=0.97-0.99; P... in fibers fibers below 3,000 μm(2) was observed in the old. DISCUSSION: These findings suggest that age-related reductions in myonuclear domain size could be explained by a larger proportion of small fibers and highlight the usefulness of fiber size...

  11. Collaborative Detection of Fast Flux Phishing Domains

    Directory of Open Access Journals (Sweden)

    Chenfeng Vincent Zhou

    2009-02-01

    Full Text Available Phishing is a significant security threat to users of Internet services. Nowadays, phishing has become more resilient to detection and trace-back with the invention of Fast Flux (FF service networks. We propose two approaches to correlate evidence from multiple DNS servers and multiple suspect FF domains. Real-world experiments show that our correlation approaches speed-up FF domain detection, based on an analytical model that we propose to quantify the number of DNS queries needed to confirm a FF domain. We also show how our correlation scheme can be implemented on a large scale by using a decentralized publish-subscribe correlation model called LarSID, which is more scalable than a fully centralized architecture.

  12. Hallucinating face in the DCT domain.

    Science.gov (United States)

    Zhang, Wei; Cham, Wai-Kuen

    2011-10-01

    In this paper, we propose a novel learning-based face hallucination framework built in the DCT domain, which can produce a high-resolution face image from a single low-resolution one. The problem is formulated as inferring the DCT coefficients in frequency domain instead of estimating pixel intensities in spatial domain. Our study shows that DC coefficients can be estimated fairly accurately by simple interpolation-based methods. AC coefficients, which contain the information of local features of face image, cannot be estimated well using interpolation. A simple but effective learning-based inference model is proposed to infer the ac coefficients. Experiments have been conducted to demonstrate the effectiveness of the proposed method in producing high quality hallucinated face images.

  13. On thick domain walls in general relativity

    Science.gov (United States)

    Goetz, Guenter; Noetzold, Dirk

    1989-01-01

    Planar scalar field configurations in general relativity differ considerably from those in flat space. It is shown that static domain walls of finite thickness in curved space-time do not possess a reflection symmetry. At infinity, the space-time tends to the Taub vacuum on one side of the wall and to the Minkowski vacuum (Rindler space-time) on the other. Massive test particles are always accelerated towards the Minkowski side, i.e., domain walls are attractive on the Taub side, but repulsive on the Minkowski side (Taub-vacuum cleaner). It is also proved that the pressure in all directions is always negative. Finally, a brief comment is made concerning the possibility of infinite, i.e., bigger than horizon size, domain walls in our universe. All of the results are independent of the form of the potential V(phi) greater than or equal to 0 of the scalar field phi.

  14. Design PID controllers for desired time-domain or frequency-domain response.

    Science.gov (United States)

    Zhang, Weidong; Xi, Yugeng; Yang, Genke; Xu, Xiaoming

    2002-10-01

    Practical requirements on the design of control systems, especially process control systems, are usually specified in terms of time-domain response, such as overshoot and rise time, or frequency-domain response, such as resonance peak and stability margin. Although numerous methods have been developed for the design of the proportional-integral-derivative (PID) controller, little work has been done in relation to the quantitative time-domain and frequency-domain responses. In this paper, we study the following problem: Given a nominal stable process with time delay, we design a suboptimal PID controller to achieve the required time-domain response or frequency-domain response for the nominal system or the uncertain system. An H(infinity) PID controller is developed based on optimal control theory and the parameters are derived analytically. Its properties are investigated and compared with that of two developed suboptimal controllers: an H2 PID controller and a Maclaurin PID controller. It is shown that all three controllers can provide the quantitative time-domain and frequency-domain responses.

  15. Thermal Loss of High-Q Antennas in Time Domain vs. Frequency Domain Solver

    DEFF Research Database (Denmark)

    Bahramzy, Pevand; Pedersen, Gert Frølund

    2014-01-01

    High-Q structures pose great challenges to their loss simulations in Time Domain Solvers (TDS). Therefore, in this work the thermal loss of high-Q antennas is calculated both in TDS and Frequency Domain Solver (FDS), which are then compared with each other and with the actual measurements...

  16. Impact of Domain Modeling Techniques on the Quality of Domain Model: An Experiment

    Directory of Open Access Journals (Sweden)

    Hiqmat Nisa

    2016-10-01

    Full Text Available The unified modeling language (UML is widely used to analyze and design different software development artifacts in an object oriented development. Domain model is a significant artifact that models the problem domain and visually represents real world objects and relationships among them. It facilitates the comprehension process by identifying the vocabulary and key concepts of the business world. Category list technique identifies concepts and associations with the help of pre defined categories, which are important to business information systems. Whereas noun phrasing technique performs grammatical analysis of use case description to recognize concepts and associations. Both of these techniques are used for the construction of domain model, however, no empirical evidence exists that evaluates the quality of the resultant domain model constructed via these two basic techniques. A controlled experiment was performed to investigate the impact of category list and noun phrasing technique on quality of the domain model. The constructed domain model is evaluated for completeness, correctness and effort required for its design. The obtained results show that category list technique is better than noun phrasing technique for the identification of concepts as it avoids generating unnecessary elements i.e. extra concepts, associations and attributes in the domain model. The noun phrasing technique produces a comprehensive domain model and requires less effort as compared to category list. There is no statistically significant difference between both techniques in case of correctness.

  17. Impact of Domain Modeling Techniques on the Quality of Domain Model: An Experiment

    Directory of Open Access Journals (Sweden)

    Hiqmat Nisa

    2016-11-01

    Full Text Available The unified modeling language (UML is widely used to analyze and design different software development artifacts in an object oriented development. Domain model is a significant artifact that models the problem domain and visually represents real world objects and relationships among them. It facilitates the comprehension process by identifying the vocabulary and key concepts of the business world. Category list technique identifies concepts and associations with the help of pre defined categories, which are important to business information systems. Whereas noun phrasing technique performs grammatical analysis of use case description to recognize concepts and associations. Both of these techniques are used for the construction of domain model, however, no empirical evidence exists that evaluates the quality of the resultant domain model constructed via these two basic techniques. A controlled experiment was performed to investigate the impact of category list and noun phrasing technique on quality of the domain model. The constructed domain model is evaluated for completeness, correctness and effort required for its design. The obtained results show that category list technique is better than noun phrasing technique for the identification of concepts as it avoids generating unnecessary elements i.e. extra concepts, associations and attributes in the domain model. The noun phrasing technique produces a comprehensive domain model and requires less effort as compared to category list. There is no statistically significant difference between both techniques in case of correctness.

  18. PTEN-PDZ domain interactions: Binding of PTEN to PDZ domains of PTPN13.

    NARCIS (Netherlands)

    Sotelo, N.S.; Schepens, J.T.G.; Valiente, M.; Hendriks, W.J.A.J.; Pulido, R.

    2015-01-01

    Protein modular interactions mediated by PDZ domains are essential for the establishment of functional protein networks controlling diverse cellular functions. The tumor suppressor PTEN possesses a C-terminal PDZ-binding motif (PDZ-BM) that is recognized by a specific set of PDZ domains from scaffol

  19. SH3 Domains Differentially Stimulate Distinct Dynamin I Assembly Modes and G Domain Activity.

    Directory of Open Access Journals (Sweden)

    Sai Krishnan

    Full Text Available Dynamin I is a highly regulated GTPase enzyme enriched in nerve terminals which mediates vesicle fission during synaptic vesicle endocytosis. One regulatory mechanism involves its interactions with proteins containing Src homology 3 (SH3 domains. At least 30 SH3 domain-containing proteins bind dynamin at its proline-rich domain (PRD. Those that stimulate dynamin activity act by promoting its oligomerisation. We undertook a systematic parallel screening of 13 glutathione-S-transferase (GST-tagged endocytosis-related SH3 domains on dynamin binding, GTPase activity and oligomerisation. No correlation was found between dynamin binding and their potency to stimulate GTPase activity. There was limited correlation between the extent of their ability to stimulate dynamin activity and the level of oligomerisation, indicating an as yet uncharacterised allosteric coupling of the PRD and G domain. We examined the two variants, dynamin Iab and Ibb, which differ in the alternately splice middle domain α2 helix. They responded differently to the panel of SH3s, with the extent of stimulation between the splice variants varying greatly between the SH3s. This study reveals that SH3 binding can act as a heterotropic allosteric regulator of the G domain via the middle domain α2 helix, suggesting an involvement of this helix in communicating the PRD-mediated allostery. This indicates that SH3 binding both stabilises multiple conformations of the tetrameric building block of dynamin, and promotes assembly of dynamin-SH3 complexes with distinct rates of GTP hydrolysis.

  20. Electric-field-driven dynamics of magnetic domain walls in magnetic nanowires patterned on ferroelectric domains

    Science.gov (United States)

    Van de Wiele, Ben; Leliaert, Jonathan; Franke, Kévin J. A.; van Dijken, Sebastiaan

    2016-03-01

    Strong coupling of magnetic domain walls onto straight ferroelastic boundaries of a ferroelectric layer enables full and reversible electric-field control of magnetic domain wall motion. In this paper, the dynamics of this new driving mechanism is analyzed using micromagnetic simulations. We show that transverse domain walls with a near-180° spin structure are stabilized in magnetic nanowires and that electric fields can move these walls with high velocities. Above a critical velocity, which depends on material parameters, nanowire geometry and the direction of domain wall motion, the magnetic domain walls depin abruptly from the ferroelastic boundaries. Depinning evolves either smoothly or via the emission and annihilation of a vortex or antivortex core (Walker breakdown). In both cases, the magnetic domain wall slows down after depinning in an oscillatory fashion and eventually comes to a halt. The simulations provide design rules for hybrid ferromagnetic-ferroelectric domain-wall-based devices and indicate that material disorder and structural imperfections only influence Walker-breakdown-like depinning at high domain wall velocities.

  1. Changing domains in human capital measurement

    Directory of Open Access Journals (Sweden)

    Pharny D. Chrysler-Fox

    2014-02-01

    Full Text Available Orientation: The management context is dynamic; this is especially evident in human capital as the primary source of value creation as opposed to physical and natural resources. In response, measurement methodologies have moved from a transactional approach (strategy implementation to a transformational approach (human capital contribution paradigm, as well as diverging into different purposes. To date, there has been little overlap on recent domains to consider in managing and measuring the contribution of the human resource function and employees, and how to unlock and add value.Research purpose: The aim of the study was to explore and describe changing domains within human capital management to be managed and measured.Motivation for the study: The motivation was to advance the understanding of changing measurement domains to aid practitioners to manage and measure the contribution of the human resource function and employees, in order to unlock and add value and ultimately contribute to the success of an organisation.Research design, approach and method: Unstructured, in-depth interview data of purposively selected cases from a selected panel of human resource practitioners specialising in human capital measurement was thematically analysed in this exploratory-descriptive investigation.Main findings: Findings suggested that seven domains should be managed and measured. These domains highlight new areas of impact and levels of management. In addition, crossdomain relationships in measurement allow for an understanding of the impact and potential value on which to capitalise.Practical/managerial implications: New domains to manage and measure focus the attention of practitioners beyond the transactional performance management paradigm to a transformational approach to influence the business strategy. Higher education institutions need to develop students’ cognitive skills to facilitate systems thinking.Contribution: This study suggests a new

  2. Clojure for domain-specific languages

    CERN Document Server

    Kelker, Ryan D

    2013-01-01

    An example-oriented approach to develop custom domain-specific languages.If you've already developed a few Clojure applications and wish to expand your knowledge on Clojure or domain-specific languages in general, then this book is for you. If you're an absolute Clojure beginner, then you may only find the detailed examples of the core Clojure components of value. If you've developed DSLs in other languages, this Lisp and Java-based book might surprise you with the power of Clojure.

  3. Patient Centric Ontology for Telehealth Domain

    DEFF Research Database (Denmark)

    Jørgensen, Daniel Bjerring; Hallenborg, Kasper; Demazeau, Yves

    2015-01-01

    to the needs, habits, and personality of the patient through user modeling and context awareness. The ontology will be our foundation for user modeling of patients in the telehealth domain, and hence it is one of the initial steps toward our vision. Compared to other ontologies within the domain, ours has...... explicit focus on: 1) personality traits of the patient, which is vital for fulfillment of our vision in term of adaptability, and 2) use of international standards to describe diseases, func-tioning and physiological measurement – ICD, ICF and SNOMED respectively – to promote interoperability...

  4. Magnetic domains the analysis of magnetic microstructures

    CERN Document Server

    Hubert, Alex

    1998-01-01

    The book gives a systematic and comprehensive survey of the complete area of magnetic microstructures. It reaches from micromagnetism of nanoparticles to complex structures of extended magnetic materials. The book starts with a comprehensive evaluation of traditional and modern experimental methods for the observation of magnetic domains and continues with the treatment of important methods for the theoretical analysis of magnetic microcstructures. A survey of the necessary techniques in materials characterization is given. The book offers an observation and analysis of magnetic domains in all

  5. [Development of domain specific search engines].

    Science.gov (United States)

    Takai, T; Tokunaga, M; Maeda, K; Kaminuma, T

    2000-01-01

    As cyber space exploding in a pace that nobody has ever imagined, it becomes very important to search cyber space efficiently and effectively. One solution to this problem is search engines. Already a lot of commercial search engines have been put on the market. However these search engines respond with such cumbersome results that domain specific experts can not tolerate. Using a dedicate hardware and a commercial software called OpenText, we have tried to develop several domain specific search engines. These engines are for our institute's Web contents, drugs, chemical safety, endocrine disruptors, and emergent response for chemical hazard. These engines have been on our Web site for testing.

  6. Skyrmions from Instantons inside Domain Walls

    CERN Document Server

    Eto, M; Ohashi, K; Tong, D; Eto, Minoru; Nitta, Muneto; Ohashi, Keisuke; Tong, David

    2005-01-01

    Some years ago, Atiyah and Manton described a method to construct approximate Skyrmion solutions from Yang-Mills instantons. Here we present a dynamical realization of this construction using domain walls in a five-dimensional gauge theory. The non-abelian gauge symmetry is broken in each vacuum but restored in the core of the domain wall, allowing instantons to nestle inside the wall. We show that the worldvolume dynamics of the wall is given by the Skyrme model, including the four-derivative term, and the instantons appear as Skyrmions.

  7. Load Estimation by Frequency Domain Decomposition

    DEFF Research Database (Denmark)

    Pedersen, Ivar Chr. Bjerg; Hansen, Søren Mosegaard; Brincker, Rune;

    2007-01-01

    When performing operational modal analysis the dynamic loading is unknown, however, once the modal properties of the structure have been estimated, the transfer matrix can be obtained, and the loading can be estimated by inverse filtering. In this paper loads in frequency domain are estimated...... by analysis of simulated responses of a 4 DOF system, for which the exact modal parameters are known. This estimation approach entails modal identification of the natural eigenfrequencies, mode shapes and damping ratios by the frequency domain decomposition technique. Scaled mode shapes are determined by use...

  8. Convergence Analysis of a Domain Decomposition Paradigm

    Energy Technology Data Exchange (ETDEWEB)

    Bank, R E; Vassilevski, P S

    2006-06-12

    We describe a domain decomposition algorithm for use in several variants of the parallel adaptive meshing paradigm of Bank and Holst. This algorithm has low communication, makes extensive use of existing sequential solvers, and exploits in several important ways data generated as part of the adaptive meshing paradigm. We show that for an idealized version of the algorithm, the rate of convergence is independent of both the global problem size N and the number of subdomains p used in the domain decomposition partition. Numerical examples illustrate the effectiveness of the procedure.

  9. Multigrid Algorithms for Domain-Wall Fermions

    CERN Document Server

    Cohen, Saul D; Clark, M A; Osborn, J C

    2012-01-01

    We describe an adaptive multigrid algorithm for solving inverses of the domain-wall fermion operator. Our multigrid algorithm uses an adaptive projection of near-null vectors of the domain-wall operator onto coarser four-dimensional lattices. This extension of multigrid techniques to a chiral fermion action will greatly reduce overall computation cost, and the elimination of the fifth dimension in the coarse space reduces the relative cost of using chiral fermions compared to discarding this symmetry. We demonstrate near-elimination of critical slowing as the quark mass is reduced and small volume dependence, which may be suppressed by taking advantage of the recursive nature of the algorithm.

  10. Small domain-size multiblock copolymer electrolytes

    Energy Technology Data Exchange (ETDEWEB)

    Pistorino, Jonathan; Eitouni, Hany Basam

    2016-09-20

    New block polymer electrolytes have been developed which have higher conductivities than previously reported for other block copolymer electrolytes. The new materials are constructed of multiple blocks (>5) of relatively low domain size. The small domain size provides greater protection against formation of dendrites during cycling against lithium in an electrochemical cell, while the large total molecular weight insures poor long range alignment, which leads to higher conductivity. In addition to higher conductivity, these materials can be more easily synthesized because of reduced requirements on the purity level of the reagents.

  11. Software Ecosystems for the Life Sciences Application Domains

    NARCIS (Netherlands)

    Tekinerdogan, B.; Scholten, H.

    2015-01-01

    Software ecosystems (SECOs) are gaining importance in and have been applied to different application domains. In this paper we focus on the needs for SECOs for the life science application domains. Similar to other domains the life science application domains also witnesses the emergence and applica

  12. On the Approaching Domain Obtained by Finite Element Method

    Institute of Scientific and Technical Information of China (English)

    邹青松; 李永海

    2002-01-01

    The use of finite element method leads to replacing the initial domain by an approaching domain,Under some appropriate assumptions,we prove that there exists a W1,+∞-diffeomorphism from the original domain to the approaching domain.

  13. Towards ontology based search and knowledgesharing using domain ontologies

    DEFF Research Database (Denmark)

    Zambach, Sine

    This paper reports on work in progress. We present work on domain specific verbs and their role as relations in domain ontologies. The domain ontology which is in focus for our research is modeled in cooperation with the Danish biotech company Novo Nordic. Two of the main purposes of domain...

  14. Cyberspace at the Operational Level: Warfighting In All Five Domains

    Science.gov (United States)

    2016-05-13

    connects all four of these domains to the people on our planet? Cyberspace, the fifth domain of warfare, is now so ubiquitous and that any military...connects all four of these domains to the people on our planet? Cyberspace, the fifth domain of warfare, is now so ubiquitous that any military commander

  15. A NONOVERLAPPING DOMAIN DECOMPOSITION METHOD FOR EXTERIOR 3-D PROBLEM

    Institute of Scientific and Technical Information of China (English)

    De-hao Yu; Ji-ming Wu; Ji-ming Wu

    2001-01-01

    In this paper, a nonoverlapping domain decomposition method, which is based on the natural boundary reduction(cf. [4, 13, 15]), is developed to solve the boundary value problem in exterior three-dimensional domain of general shape. Convergence analyses both for the exterior spherical domain and the general exterior domain are made. Some numerical examples are also provided to illustrate the method.

  16. Survivability-enhancing routing scheme for multi-domain networks

    DEFF Research Database (Denmark)

    Li, Xiaohua; Ruepp, Sarah Renée; Manolova, Anna Vasileva

    2008-01-01

    domain level disjoint paths. Our work is based on the aggregated representation of transit domains. The aggregated scheme we use is obtaining the shortest path between each pair of border routers for the associated domain. We also propose to use a single node to represent the destination domain, thereby......, while intra-domain link failures can be repaired by neighboring nodes, border routers or at domain level. The intra-domain repair methods are compared by simulation and based on the results border router repairing is recommended....

  17. Nucleic acids encoding a cellulose binding domain

    Energy Technology Data Exchange (ETDEWEB)

    Shoseyov, Oded (Karmey Yosef, IL); Shpiegl, Itai (Rehovot, IL); Goldstein, Marc A. (Davis, CA); Doi, Roy H. (Davis, CA)

    1996-01-01

    A cellulose binding domain (CBD) having a high affinity for crystalline cellulose and chitin is disclosed, along with methods for the molecular cloning and recombinant production thereof. Fusion products comprising the CBD and a second protein are likewise described. A wide range of applications are contemplated for both the CBD and the fusion products, including drug delivery, affinity separations, and diagnostic techniques.

  18. ISO 19512: The land administration domain model

    NARCIS (Netherlands)

    Lemmen, C.H.J.; Van Oosterom, P.J.M.

    2011-01-01

    Focus of this paper is on the Land Administration Domain Model which is under development as an International Standard at ISO. This development is an initiative of the International Federation of Surveyors – FIG. The International Standard is expected to be published in 2012. Why is this development

  19. Digital Watermarking in Wavelet Transform Domain

    Directory of Open Access Journals (Sweden)

    D. Levicky

    2001-06-01

    Full Text Available This paper presents a technique for the digital watermarking ofstill images based on the wavelet transform. The watermark (binaryimage is embedded into original image in its wavelet domain. Theoriginal unmarked image is required for watermark extraction. Themethod of embedding of digital watermarks in wavelet transform domainwas analyzed and verified on grey scale static images.

  20. Is It Kingdom or Domains? Confusion & Solutions

    Science.gov (United States)

    Blackwell, Will H.

    2004-01-01

    A confusion regarding the number of kingdoms that should be recognized and the inclusion of domains in the traditional kingdom-based classification found in the higher levels of classification of organisms is presented. Hence, it is important to keep in mind future modifications that may occur in the classification systems and to recognize…

  1. Domain wall partition functions and KP

    CERN Document Server

    Foda, O; Zuparic, M

    2009-01-01

    We observe that the partition function of the six vertex model on a finite square lattice with domain wall boundary conditions is (a restriction of) a KP tau function and express it as an expectation value of charged free fermions (up to an overall normalization).

  2. JavaScript domain-driven design

    CERN Document Server

    Fehre, Philipp

    2015-01-01

    If you are an experienced JavaScript developer who wants to improve the design of his or her applications, or find yourself in a situation to implement an application in an unfamiliar domain, this book is for you. Prior knowledge of JavaScript is required and prior experience with Node.js will also be helpful.

  3. Domain Adaptation: Overfitting and Small Sample Statistics

    CERN Document Server

    Foster, Dean; Salakhutdinov, Ruslan

    2011-01-01

    We study the prevalent problem when a test distribution differs from the training distribution. We consider a setting where our training set consists of a small number of sample domains, but where we have many samples in each domain. Our goal is to generalize to a new domain. For example, we may want to learn a similarity function using only certain classes of objects, but we desire that this similarity function be applicable to object classes not present in our training sample (e.g. we might seek to learn that "dogs are similar to dogs" even though images of dogs were absent from our training set). Our theoretical analysis shows that we can select many more features than domains while avoiding overfitting by utilizing data-dependent variance properties. We present a greedy feature selection algorithm based on using T-statistics. Our experiments validate this theory showing that our T-statistic based greedy feature selection is more robust at avoiding overfitting than the classical greedy procedure.

  4. INVARIANT RANDOM APPROXIMATION IN NONCONVEX DOMAIN

    Directory of Open Access Journals (Sweden)

    R. Shrivastava

    2012-05-01

    Full Text Available Random fixed point results in the setup of compact and weakly compact domain of Banach spaces which is not necessary starshaped have been obtained in the present work. Invariant random approximation results have also been determined asits application. In this way, random version of invariant approximation results due toMukherjee and Som [13] and Singh [17] have been given.

  5. Learning and Reasoning in Unknown Domains

    Science.gov (United States)

    Strannegård, Claes; Nizamani, Abdul Rahim; Juel, Jonas; Persson, Ulf

    2016-12-01

    In the story Alice in Wonderland, Alice fell down a rabbit hole and suddenly found herself in a strange world called Wonderland. Alice gradually developed knowledge about Wonderland by observing, learning, and reasoning. In this paper we present the system Alice In Wonderland that operates analogously. As a theoretical basis of the system, we define several basic concepts of logic in a generalized setting, including the notions of domain, proof, consistency, soundness, completeness, decidability, and compositionality. We also prove some basic theorems about those generalized notions. Then we model Wonderland as an arbitrary symbolic domain and Alice as a cognitive architecture that learns autonomously by observing random streams of facts from Wonderland. Alice is able to reason by means of computations that use bounded cognitive resources. Moreover, Alice develops her belief set by continuously forming, testing, and revising hypotheses. The system can learn a wide class of symbolic domains and challenge average human problem solvers in such domains as propositional logic and elementary arithmetic.

  6. Modeling Multiple Risks: Hidden Domain of Attraction

    CERN Document Server

    Mitra, Abhimanyu

    2011-01-01

    Hidden regular variation is a sub-model of multivariate regular variation and facilitates accurate estimation of joint tail probabilities. We generalize the model of hidden regular variation to what we call hidden domain of attraction. We exhibit examples that illustrate the need for a more general model and discuss detection and estimation techniques.

  7. The Land Administration Domain Model Standard

    NARCIS (Netherlands)

    Lemmen, C.H.J.; Van Oosterom, P.J.M.

    2013-01-01

    LADM is a international standard for the land administration domain. It will stimulate the development of software applications and will accelerate the implementation of proper land administration systems that will support sustainable development. The LADM covers basic information-related components

  8. Scalable Domain Decomposed Monte Carlo Particle Transport

    Energy Technology Data Exchange (ETDEWEB)

    O' Brien, Matthew Joseph [Univ. of California, Davis, CA (United States)

    2013-12-05

    In this dissertation, we present the parallel algorithms necessary to run domain decomposed Monte Carlo particle transport on large numbers of processors (millions of processors). Previous algorithms were not scalable, and the parallel overhead became more computationally costly than the numerical simulation.

  9. Measuring the global domain name system

    NARCIS (Netherlands)

    Casalicchio, E.; Caselli, M.; Coletta, A.; Shen, Xuemin

    2013-01-01

    The Internet is a worldwide distributed critical infrastructure, and it is composed of many vital components. While IP routing is the most important service, today the Domain Name System can be classified as the second most important, and has been defined as a critical infrastructure as well. DNS en

  10. Qp-spaces on bounded symmetric domains

    Directory of Open Access Journals (Sweden)

    Jonathan Arazy

    2008-01-01

    Full Text Available We generalize the theory of Qp spaces, introduced on the unit disc in 1995 by Aulaskari, Xiao and Zhao, to bounded symmetric domains in Cd, as well as to analogous Moebius-invariant function spaces and Bloch spaces defined using higher order derivatives; the latter generalization contains new results even in the original context of the unit disc.

  11. Optimised Design of Transparent Optical Domains

    DEFF Research Database (Denmark)

    Hanik, N.; Caspar, C.; Schmidt, F.;

    2000-01-01

    Three different design concepts for transparent, dispersion compensated, optical WDM transmission links are optimised numerically and experimentally for 10 Gbit/s data rate per channel. It is shown that robust transparent domains of 1,500 km in diameter can be realised using simple design rutes....

  12. Efficient integration method for fictitious domain approaches

    Science.gov (United States)

    Duczek, Sascha; Gabbert, Ulrich

    2015-10-01

    In the current article, we present an efficient and accurate numerical method for the integration of the system matrices in fictitious domain approaches such as the finite cell method (FCM). In the framework of the FCM, the physical domain is embedded in a geometrically larger domain of simple shape which is discretized using a regular Cartesian grid of cells. Therefore, a spacetree-based adaptive quadrature technique is normally deployed to resolve the geometry of the structure. Depending on the complexity of the structure under investigation this method accounts for most of the computational effort. To reduce the computational costs for computing the system matrices an efficient quadrature scheme based on the divergence theorem (Gauß-Ostrogradsky theorem) is proposed. Using this theorem the dimension of the integral is reduced by one, i.e. instead of solving the integral for the whole domain only its contour needs to be considered. In the current paper, we present the general principles of the integration method and its implementation. The results to several two-dimensional benchmark problems highlight its properties. The efficiency of the proposed method is compared to conventional spacetree-based integration techniques.

  13. Metric domains, holomorphic mappings and nonlinear semigroups

    Directory of Open Access Journals (Sweden)

    Simeon Reich

    1998-01-01

    Full Text Available We study nonlinear semigroups of holomorphic mappings on certain domains in complex Banach spaces. We examine, in particular, their differentiability and their representations by exponential and other product formulas. In addition, we also construct holomorphic retractions onto the stationary point sets of such semigroups.

  14. Entanglement versus negative domains of Wigner functions

    DEFF Research Database (Denmark)

    Dahl, Jens Peder; Mack, H.; Wolf, A.;

    2006-01-01

    We show that s waves, that is wave functions that only depend on a hyperradius, are entangled if and only if the corresponding Wigner functions exhibit negative domains. We illustrate this feature using a special class of s waves which allows us to perform the calculations analytically. This class...

  15. An English language interface for constrained domains

    Science.gov (United States)

    Page, Brenda J.

    1989-01-01

    The Multi-Satellite Operations Control Center (MSOCC) Jargon Interpreter (MJI) demonstrates an English language interface for a constrained domain. A constrained domain is defined as one with a small and well delineated set of actions and objects. The set of actions chosen for the MJI is from the domain of MSOCC Applications Executive (MAE) Systems Test and Operations Language (STOL) directives and contains directives for signing a cathode ray tube (CRT) on or off, calling up or clearing a display page, starting or stopping a procedure, and controlling history recording. The set of objects chosen consists of CRTs, display pages, STOL procedures, and history files. Translation from English sentences to STOL directives is done in two phases. In the first phase, an augmented transition net (ATN) parser and dictionary are used for determining grammatically correct parsings of input sentences. In the second phase, grammatically typed sentences are submitted to a forward-chaining rule-based system for interpretation and translation into equivalent MAE STOL directives. Tests of the MJI show that it is able to translate individual clearly stated sentences into the subset of directives selected for the prototype. This approach to an English language interface may be used for similarly constrained situations by modifying the MJI's dictionary and rules to reflect the change of domain.

  16. Noise Tracking Using DFT Domain Subspace Decompositions

    NARCIS (Netherlands)

    Hendriks, R.C.; Jensen, J.; Heusdens, R.

    2008-01-01

    All discrete Fourier transform (DFT) domain-based speech enhancement gain functions rely on knowledge of the noise power spectral density (PSD). Since the noise PSD is unknown in advance, estimation from the noisy speech signal is necessary. An overestimation of the noise PSD will lead to a loss in

  17. User Requirements and Domain Model Engineering

    NARCIS (Netherlands)

    Specht, Marcus; Glahn, Christian

    2006-01-01

    Specht, M., & Glahn, C. (2006). User requirements and domain model engineering. Presentation at International Workshop in Learning Networks for Lifelong Competence Development. March, 30-31, 2006. Sofia, Bulgaria: TENCompetence Conference. Retrieved June 30th, 2006, from http://dspace.learningnetwor

  18. Ecological Automation Design, Extending Work Domain Analysis

    NARCIS (Netherlands)

    Amelink, M.H.J.

    2010-01-01

    In high–risk domains like aviation, medicine and nuclear power plant control, automation has enabled new capabilities, increased the economy of operation and has greatly contributed to safety. However, automation increases the number of couplings in a system, which can inadvertently lead to more com

  19. The Hardy Space of a Slit Domain

    CERN Document Server

    Aleman, Alexandru

    2009-01-01

    Beginning with an exposition of Hardy spaces of slit domains, this book proceeds to several descriptions of the invariant subspaces of the operator multiplication by z. It also discusses and characterizes the nearly invariant subspaces of these Hardy spaces and examines conditions for z-invariant subspaces to be cyclic.

  20. The Fourth Domain of Educational Objectives: Induction.

    Science.gov (United States)

    Holleman, Wes

    1985-01-01

    Tests the claim to comprehensiveness of Bloom's taxonomy of educational objectives by analyzing educational objectives of some freshmen orientation programs and those connected with human developmental tasks. It is concluded that the taxonomy should be enlarged with a fourth domain: actual induction into tasks for which students are being…

  1. Domain adaptation of statistical machine translation with domain-focused web crawling.

    Science.gov (United States)

    Pecina, Pavel; Toral, Antonio; Papavassiliou, Vassilis; Prokopidis, Prokopis; Tamchyna, Aleš; Way, Andy; van Genabith, Josef

    In this paper, we tackle the problem of domain adaptation of statistical machine translation (SMT) by exploiting domain-specific data acquired by domain-focused crawling of text from the World Wide Web. We design and empirically evaluate a procedure for automatic acquisition of monolingual and parallel text and their exploitation for system training, tuning, and testing in a phrase-based SMT framework. We present a strategy for using such resources depending on their availability and quantity supported by results of a large-scale evaluation carried out for the domains of environment and labour legislation, two language pairs (English-French and English-Greek) and in both directions: into and from English. In general, machine translation systems trained and tuned on a general domain perform poorly on specific domains and we show that such systems can be adapted successfully by retuning model parameters using small amounts of parallel in-domain data, and may be further improved by using additional monolingual and parallel training data for adaptation of language and translation models. The average observed improvement in BLEU achieved is substantial at 15.30 points absolute.

  2. Revised domain structure of ulvan lyase and characterization of the first ulvan binding domain

    Science.gov (United States)

    Melcher, Rebecca L. J.; Neumann, Marten; Fuenzalida Werner, Juan Pablo; Gröhn, Franziska; Moerschbacher, Bruno M.

    2017-01-01

    Biomass waste products from green algae have recently been given new life, as these polysaccharides have potential applications in industry, agriculture, and medicine. One such polysaccharide group called ulvans displays many different, potentially useful properties that arise from their structural versatility. Hence, performing structural analyses on ulvan is crucial for future applications. However, chemical reaction–based analysis methods cannot fully characterize ulvan and tend to alter its structure. Thus, better methods require well-characterized ulvan-degrading enzymes. Therefore, we analysed a previously sequenced ulvan lyase (GenebankTM reference number JN104480) and characterized its domains. We suggest that the enzyme consists of a shorter than previously described catalytic domain, a newly identified substrate binding domain, and a C-terminal type 9 secretion system signal peptide. By separately expressing the two domains in E. coli, we confirmed that the binding domain is ulvan specific, having higher affinity for ulvan than most lectins for their ligands (affinity constant: 105 M−1). To our knowledge, this is the first description of an ulvan-binding domain. Overall, identifying this new binding domain is one step towards engineering ulvan enzymes that can be used to characterize ulvan, e.g. through enzymatic/mass spectrometric fingerprinting analyses, and help unlock its full potential. PMID:28327560

  3. Structure of a double-domain phosphagen kinase reveals an asymmetric arrangement of the tandem domains.

    Science.gov (United States)

    Wang, Zhiming; Qiao, Zhu; Ye, Sheng; Zhang, Rongguang

    2015-04-01

    Tandem duplications and fusions of single genes have led to magnificent expansions in the divergence of protein structures and functions over evolutionary timescales. One of the possible results is polydomain enzymes with interdomain cooperativities, few examples of which have been structurally characterized at the full-length level to explore their innate synergistic mechanisms. This work reports the crystal structures of a double-domain phosphagen kinase in both apo and ligand-bound states, revealing a novel asymmetric L-shaped arrangement of the two domains. Unexpectedly, the interdomain connections are not based on a flexible hinge linker but on a rigid secondary-structure element: a long α-helix that tethers the tandem domains in relatively fixed positions. Besides the connective helix, the two domains also contact each other directly and form an interdomain interface in which hydrogen bonds and hydrophobic interactions further stabilize the L-shaped domain arrangement. Molecular-dynamics simulations show that the interface is generally stable, suggesting that the asymmetric domain arrangement crystallographically observed in the present study is not a conformational state simply restrained by crystal-packing forces. It is possible that the asymmetrically arranged tandem domains could provide a structural basis for further studies of the interdomain synergy.

  4. Framing Effects: Dynamics and Task Domains

    Science.gov (United States)

    Wang

    1996-11-01

    The author examines the mechanisms and dynamics of framing effects in risky choices across three distinct task domains (i.e., life-death, public property, and personal money). The choice outcomes of the problems presented in each of the three task domains had a binary structure of a sure thing vs a gamble of equal expected value; the outcomes differed in their framing conditions and the expected values, raging from 6000, 600, 60, to 6, numerically. It was hypothesized that subjects would become more risk seeking, if the sure outcome was below their aspiration level (the minimum requirement). As predicted, more subjects preferred the gamble when facing the life-death choice problems than facing the counterpart problems presented in the other two task domains. Subjects' risk preference varied categorically along the group size dimension in the life-death domain but changed more linearly over the expected value dimension in the monetary domain. Framing effects were observed in 7 of 13 pairs of problems, showing a positive frame-risk aversion and negative frame-risk seeking relationship. In addition, two types of framing effects were theoretically defined and empirically identified. A bidirectional framing effect involves a reversal in risk preference, and occurs when a decision maker's risk preference is ambiguous or weak. Four bidirectional effects were observed; in each case a majority of subjects preferred the sure outcome under a positive frame but the gamble under a negative frame. In contrast, a unidirectional framing effect refers to a preference shift due to the framing of choice outcomes: A majority of subjects preferred one choice outcome (either the sure thing or the gamble) under both framing conditions, with positive frame augmented the preference for the sure thing and negative frame augmented the preference for the gamble. These findings revealed some dynamic regularities of framing effects and posed implications for developing predictive and testable

  5. Organization Domain Modeling (ODM): Extending systematic D-AME beyond software domains

    Energy Technology Data Exchange (ETDEWEB)

    Simos, M.A. [Organon Motives, Inc., Belmont, MA (United States)

    1996-12-31

    The emerging discipline of domain analysis, modeling, and engineering, or D-AME, has received most attention from the field of systematic software reuse, where the term {open_quotes}domain{close_quotes} usually denotes a well-scoped area of functionality within a set or class of software systems. A central challenge in D-AME research has been in defining processes and representations sufficiently general to apply in the diverse organizational and technical environments in which D-AME can make useful contribution. The systematic reuse community has established ambitious goals for what a D-AME process should address, such as the ability to support design for reuse for all products and processes of the software life cycle, and applicability beyond software domains: e.g., to domains such as business processes, product variability models, or more generally, domains of shared knowledge about particular technical areas of expertise. In practice, though, the search for generalized domain analysis processes and methods has been fraught. with difficulties. Obstacles include: adoption of a too-narrow conception of the nature of {open_quotes}domains{close_quotes}; tight coupling of D-AME process and methods with software engineering representations; and a consequent lack of understanding of the unique aspects of D-AME as a qualitative process. This paper discusses the goals for the extensibility of D-AME, the primary barriers to achieving these goals, and specific features of the Organization Domain Modeling (ODM) methodology that address these issues. ODM is structured as a core life cycle process model which is broadly applicable to diverse domains and organizational contexts. The core process is augmented by a set of supporting methods which facilitate tailorability, for example, by encapsulating commitments to specific software design representations and processes.

  6. Robust phase-domain transmission line representation based on time-domain fitting

    Energy Technology Data Exchange (ETDEWEB)

    Nobre, Diana M.; Neves, Washington L.A. [Federal University of Campina Grande (UFCG), Electrical Engineering Department, Av Aprigio Veloso, 882 Campina Grande, PB 58.109-970 (Brazil); Boaventura, Wallace do C. [Federal University of Minas Gerais (UFMG), Electrical Engineering Department, Av Antonio Carlos, 6627 Pampulha, Belo Horizonte, MG 31.270-010 (Brazil)

    2006-05-15

    This work presents a methodology for deriving a phase-domain transmission line representation based on time-domain fitting. A polynomial matrix in the discrete-time domain describes the resulting model. The robustness of the representation, its stability and passivity, is attained by imbedding a set of constraints in the solution of the fitting equations, which are solved using quadratic programming. Results demonstrating from transient simulations the features of the derived representation are presented for the case of an asymmetric, untransposed two-phase transmission line. (author)

  7. A mixed finite element domain decomposition method for nearly elastic wave equations in the frequency domain

    Energy Technology Data Exchange (ETDEWEB)

    Feng, Xiaobing [Univ. of Tennessee, Knoxville, TN (United States)

    1996-12-31

    A non-overlapping domain decomposition iterative method is proposed and analyzed for mixed finite element methods for a sequence of noncoercive elliptic systems with radiation boundary conditions. These differential systems describe the motion of a nearly elastic solid in the frequency domain. The convergence of the iterative procedure is demonstrated and the rate of convergence is derived for the case when the domain is decomposed into subdomains in which each subdomain consists of an individual element associated with the mixed finite elements. The hybridization of mixed finite element methods plays a important role in the construction of the discrete procedure.

  8. THE OVERLAPPING DOMAIN DECOMPOSITION METHOD FOR HARMONIC EQUATION OVER EXTERIOR THREE-DIMENSIONAL DOMAIN

    Institute of Scientific and Technical Information of China (English)

    Ji-ming Wu; De-hao Yu

    2000-01-01

    In this paper, the overlapping domain decomposition method, which is based on the natural boundary reduction[1] and first suggested in [2], is applied to slove the exterior boundary value problem of harmonic equation over three-dimensional domain. The convergence and error estimates both for the continuous case and the discrete case are given. The contraction factor for the exterior spherical domain is also discussed. Moreover, numerical results are given which show that the accuracy and the convergence are in accord with the theoretical analyses.

  9. The intracellular domain of the low affinity p75 nerve growth factor receptor is a death effector domain.

    Science.gov (United States)

    Park, Hyun H

    2009-01-01

    The death domain superfamily, comprising the death domain, death effector domain, caspase recruitment domain and pyrin domain subfamilies, is one of the largest classes of protein interaction modules, and plays a particularly critical function in the assembly and activation of apoptotic and inflammatory complexes. Members of the death domain superfamily share a common structural feature, the 6-helical bundle fold. However, individual subfamilies exhibit distinct structural and sequence characteristics. The most distinct feature identified in structural studies is that only the death effector domain contains a charge triad, which is formed by the E/D-RxDL motif. However, using sequence alignment and structural comparison, in the present study we found that the p75-NGFR death domain also contains a charge triad. We therefore suggest that the p75-NGFR death domain should be classified as belonging to the death effector domain.

  10. Creating and Manipulating a Domain-Specific Formal Object Base to Support a Domain-Oriented Application Composition System

    Science.gov (United States)

    1992-12-01

    and add new attributes as needed (11:129). 2.2.3.2 Feature Oriented Domain Analysis In their Feature-Oriented Domain Analysis ( FODA ) study, the...problems within the domain 3. Architecture Modeling - Create software architecture(s) to implement a solution in the problem domain. The FODA study also...dissertation, The University of Texas at Austin, Austin Texas, 1990. 12. Kang, Kyo C. and others. Feature-Oriented Domain Analysis ( FODA ) Feasibil- ity Study

  11. Semi-Supervised Single- and Multi-Domain Regression with Multi-Domain Training

    CERN Document Server

    Michaeli, Tomer; Sapiro, Guillermo

    2012-01-01

    We address the problems of multi-domain and single-domain regression based on distinct and unpaired labeled training sets for each of the domains and a large unlabeled training set from all domains. We formulate these problems as a Bayesian estimation with partial knowledge of statistical relations. We propose a worst-case design strategy and study the resulting estimators. Our analysis explicitly accounts for the cardinality of the labeled sets and includes the special cases in which one of the labeled sets is very large or, in the other extreme, completely missing. We demonstrate our estimators in the context of removing expressions from facial images and in the context of audio-visual word recognition, and provide comparisons to several recently proposed multi-modal learning algorithms.

  12. 14-3-3 Proteins, FHA Domains and BRCT Domains in the DNA Damage Response

    OpenAIRE

    Mohammad, Duaa H.; Yaffe, Michael B.

    2009-01-01

    The DNA damage response depends on the concerted activity of protein serine/threonine kinases and modular phosphoserine/threonine binding domains to relay the damage signal and recruit repair proteins. The PIKK family of protein kinases, which includes ATM/ATR/DNA-PK, preferentially phosphorylate Ser-Gln sites, while their basophilic downstream effecter kinases, Chk1/Chk2/MK2 preferentially phosphorylate hydrophobic-X-Arg-X-X-Ser/Thr-hydrophobic sites. A subset of tandem BRCT domains act as p...

  13. I-mfa domain proteins specifically interact with SERTA domain proteins and repress their transactivating functions.

    Science.gov (United States)

    Kusano, Shuichi; Shiimura, Yuki; Eizuru, Yoshito

    2011-09-01

    The I-mfa domain proteins I-mfa and HIC are considered to be candidate tumor suppressor genes and have been shown to be involved in transcriptional regulation. We show here that I-mfa and HIC specifically interact with SEI-1 through their C-terminal I-mfa domains in vivo. This interaction affects the intracellular localization of I-mfa and requires the region of SEI-1 between 30 and 90 amino acids, which includes its SERTA domain, and results in repression of its intrinsic transcriptional activity. I-mfa also decreases the levels of the SEI-1·DP-1 complex and endogenous Fbxw7 mRNA, the expression of which is coregulated by E2F·DP-1 and SEI-1 in an interaction-dependent manner in vitro. In addition, I-mfa also specifically interacts with other SERTA domain-containing proteins, including SEI-2, SEI-3, SERTAD3 and SERTAD4, through its I-mfa domain in vivo. This interaction also affects the intracellular localization of I-mfa and represses the intrinsic transcriptional activities of SEI-2 and SERTAD3, which are also involved in the E2F-dependent transcription. These data reveal for the first time that I-mfa domain proteins interact with SERTA domain proteins and negatively regulate their transcriptional activity. Because SEI-1, SEI-2 and SERTAD3, whose intrinsic transcriptional activities are repressed by I-mfa, are suggested to be oncogenes, I-mfa domain proteins may be involved in their oncogenic functions by negatively regulating their transcriptional activities.

  14. Translation of overlay models of student knowledge for relative domains based on domain ontology mapping

    DEFF Research Database (Denmark)

    Sosnovsky, Sergey; Dolog, Peter; Henze, Nicola;

    2007-01-01

    argue that the implementation of underlying knowledge models in a sharable format, as domain ontologies - along with application of automatic ontology mapping techniques for model alignment - can help to overcome the "new-user" problem and will greatly widen opportunities for student model translation....... Moreover, it then becomes possible for systems from relevant domains to rely on knowledge transfer and reuse those portions of the student models that are related to overlapping concepts....

  15. Diligence of Domain Engineering in Accounting Management System

    Directory of Open Access Journals (Sweden)

    Mukesh Arya

    2012-07-01

    Full Text Available This paper presents on domain feature modeling, domain architecture design and domain implementation in an enterprise. This paper demonstrates the accounting management feature modeling based on the extended (Feature-Oriented Domain Analysis FODA method and system architecture of accounting management domain, integrates Aspect Object Oriented Programming technology with domain implementation, and designs a whippersnapper AOP framework based on the object proxy pattern to separates crosscutting concerns in the domain implementation phrase. Research result shows this method can effectively seal insulate and abstract variability in requirements of accounting management domain, instruct the designing and implementation of accounting management components, get the requirement of software reuse, resource sharing and collaboration in accounting management domain.

  16. Fast domain wall dynamics in amorphous and nanocrystalline magnetic microwires

    Energy Technology Data Exchange (ETDEWEB)

    Varga, R., E-mail: rvarga@upjs.sk [Institute of Physics, Faculty of Science, UPJS, Park Angelinum 9, 041 54, Kosice (Slovakia); Klein, P.; Richter, K. [Institute of Physics, Faculty of Science, UPJS, Park Angelinum 9, 041 54, Kosice (Slovakia); Zhukov, A. [Dept. Fisica de Materiales, Fac. Quimica, UPV/EHU, San Sebastian (Spain); Vazquez, M. [Instituto de Ciencia de Materiales de Madrid, CSIC, Sor Juana Ines de la Cruz 3, 28049 Cantoblanco, Madrid (Spain)

    2012-10-15

    We have studied the effect of thermal treatment on the domain wall dynamics of FeSiB and FeCoMoB microwires. It was shown that annealing in transversal magnetic field increases the domain wall mobility as well as the domain wall velocity. Annealing under the tensile stress hinders the appearance of the monodomain structure but application of tensile stress leads to the magnetic bistability having the domain wall mobility twice higher that in as-cast state. Further increase of the tensile stress reduces the domain wall mobility but the domain wall velocity increases as a result of the decrease of critical propagation field. Annealing of the FeCoMoB microwire by Joule heating leads to introduction of the circular anisotropy that favors the vortex domain wall. Such treatment increases the domain wall mobility as well as the maximum domain wall velocity.

  17. Ribosomal small subunit domains radiate from a central core

    Science.gov (United States)

    Gulen, Burak; Petrov, Anton S.; Okafor, C. Denise; Vander Wood, Drew; O'Neill, Eric B.; Hud, Nicholas V.; Williams, Loren Dean

    2016-02-01

    The domain architecture of a large RNA can help explain and/or predict folding, function, biogenesis and evolution. We offer a formal and general definition of an RNA domain and use that definition to experimentally characterize the rRNA of the ribosomal small subunit. Here the rRNA comprising a domain is compact, with a self-contained system of molecular interactions. A given rRNA helix or stem-loop must be allocated uniquely to a single domain. Local changes such as mutations can give domain-wide effects. Helices within a domain have interdependent orientations, stabilities and interactions. With these criteria we identify a core domain (domain A) of small subunit rRNA. Domain A acts as a hub, linking the four peripheral domains and imposing orientational and positional restraints on the other domains. Experimental characterization of isolated domain A, and mutations and truncations of it, by methods including selective 2‧OH acylation analyzed by primer extension and circular dichroism spectroscopy are consistent with our architectural model. The results support the utility of the concept of an RNA domain. Domain A, which exhibits structural similarity to tRNA, appears to be an essential core of the small ribosomal subunit.

  18. Ribosomal small subunit domains radiate from a central core

    Science.gov (United States)

    Gulen, Burak; Petrov, Anton S.; Okafor, C. Denise; Vander Wood, Drew; O’Neill, Eric B.; Hud, Nicholas V.; Williams, Loren Dean

    2016-01-01

    The domain architecture of a large RNA can help explain and/or predict folding, function, biogenesis and evolution. We offer a formal and general definition of an RNA domain and use that definition to experimentally characterize the rRNA of the ribosomal small subunit. Here the rRNA comprising a domain is compact, with a self-contained system of molecular interactions. A given rRNA helix or stem-loop must be allocated uniquely to a single domain. Local changes such as mutations can give domain-wide effects. Helices within a domain have interdependent orientations, stabilities and interactions. With these criteria we identify a core domain (domain A) of small subunit rRNA. Domain A acts as a hub, linking the four peripheral domains and imposing orientational and positional restraints on the other domains. Experimental characterization of isolated domain A, and mutations and truncations of it, by methods including selective 2′OH acylation analyzed by primer extension and circular dichroism spectroscopy are consistent with our architectural model. The results support the utility of the concept of an RNA domain. Domain A, which exhibits structural similarity to tRNA, appears to be an essential core of the small ribosomal subunit. PMID:26876483

  19. Purification and Structural Analysis of LEM-Domain Proteins.

    Science.gov (United States)

    Herrada, Isaline; Bourgeois, Benjamin; Samson, Camille; Buendia, Brigitte; Worman, Howard J; Zinn-Justin, Sophie

    2016-01-01

    LAP2-emerin-MAN1 (LEM)-domain proteins are modular proteins characterized by the presence of a conserved motif of about 50 residues. Most LEM-domain proteins localize at the inner nuclear membrane, but some are also found in the endoplasmic reticulum or nuclear interior. Their architecture has been analyzed by predicting the limits of their globular domains, determining the 3D structure of these domains and in a few cases calculating the 3D structure of specific domains bound to biological targets. The LEM domain adopts an α-helical fold also found in SAP and HeH domains of prokaryotes and unicellular eukaryotes. The LEM domain binds to BAF (barrier-to-autointegration factor; BANF1), which interacts with DNA and tethers chromatin to the nuclear envelope. LAP2 isoforms also share an N-terminal LEM-like domain, which binds DNA. The structure and function of other globular domains that distinguish LEM-domain proteins from each other have been characterized, including the C-terminal dimerization domain of LAP2α and C-terminal WH and UHM domains of MAN1. LEM-domain proteins also have large intrinsically disordered regions that are involved in intra- and intermolecular interactions and are highly regulated by posttranslational modifications in vivo.

  20. Interaction between Functional Domains of Bacillus thuringiensis Insecticidal Crystal Proteins

    Science.gov (United States)

    Rang, Cécile; Vachon, Vincent; de Maagd, Ruud A.; Villalon, Mario; Schwartz, Jean-Louis; Bosch, Dirk; Frutos, Roger; Laprade, Raynald

    1999-01-01

    Interactions among the three structural domains of Bacillus thuringiensis Cry1 toxins were investigated by functional analysis of chimeric proteins. Hybrid genes were prepared by exchanging the regions coding for either domain I or domain III among Cry1Ab, Cry1Ac, Cry1C, and Cry1E. The activity of the purified trypsin-activated chimeric toxins was evaluated by testing their effects on the viability and plasma membrane permeability of Sf9 cells. Among the parental toxins, only Cry1C was active against these cells and only chimeras possessing domain II from Cry1C were functional. Combination of domain I from Cry1E with domains II and III from Cry1C, however, resulted in an inactive toxin, indicating that domain II from an active toxin is necessary, but not sufficient, for activity. Pores formed by chimeric toxins in which domain I was from Cry1Ab or Cry1Ac were slightly smaller than those formed by toxins in which domain I was from Cry1C. The properties of the pores formed by the chimeras are therefore likely to result from an interaction between domain I and domain II or III. Domain III appears to modulate the activity of the chimeric toxins: combination of domain III from Cry1Ab with domains I and II of Cry1C gave a protein which was more strongly active than Cry1C. PMID:10388684

  1. Broadband Beamspace DOA Estimation: Frequency-Domain and Time-Domain Processing Approaches

    Directory of Open Access Journals (Sweden)

    Yan Shefeng

    2007-01-01

    Full Text Available Frequency-domain and time-domain processing approaches to direction-of-arrival (DOA estimation for multiple broadband far field signals using beamspace preprocessing structures are proposed. The technique is based on constant mainlobe response beamforming. A set of frequency-domain and time-domain beamformers with constant (frequency independent mainlobe response and controlled sidelobes is designed to cover the spatial sector of interest using optimal array pattern synthesis technique and optimal FIR filters design technique. These techniques lead the resulting beampatterns higher mainlobe approximation accuracy and yet lower sidelobes. For the scenario of strong out-of-sector interfering sources, our approaches can form nulls or notches in the direction of them and yet guarantee that the mainlobe response of the beamformers is constant over the design band. Numerical results show that the proposed time-domain processing DOA estimator has comparable performance with the proposed frequency-domain processing method, and that both of them are able to resolve correlated source signals and provide better resolution at lower signal-to-noise ratio (SNR and lower root-mean-square error (RMSE of the DOA estimate compared with the existing method. Our beamspace DOA estimators maintain good DOA estimation and spatial resolution capability in the scenario of strong out-of-sector interfering sources.

  2. Time-domain and frequency-domain approaches to identification of bridge flutter derivatives

    Institute of Scientific and Technical Information of China (English)

    Zhengqing CHEN

    2009-01-01

    Flutter derivatives are essential for flutter analysis of long-span bridges, and they are generally identified from the vibration testing data of a sectional model suspended in a wind tunnel. Making use of the forced vibration testing data of three sectional models,namely, a thin-plate model, a nearly streamlined model,and a bluff-body model, a comparative study was made to identify the flutter derivatives of each model by using a time-domain method and a frequency-domain method. It was shown that all the flutter derivatives of the thin-plate model identified with the frequency-domain method and time-domain method, respectively, agree very well. Moreover, some of the flutter derivatives of each of the other two models identified with the two methods deviate to some extent. More precisely, the frequency-domain method usually results in smooth curves of the flutter derivatives.The formulation of time-domain method makes the identification results of flutter derivatives relatively sensitive to the signal phase lag between vibration state vector and aerodynamic forces and also prone to be disturbed by noise and nonlinearity.

  3. Skyrmion domain wall collision and domain wall-gated skyrmion logic

    Science.gov (United States)

    Xing, Xiangjun; Pong, Philip W. T.; Zhou, Yan

    2016-08-01

    Skyrmions and domain walls are significant spin textures of great technological relevance to magnetic memory and logic applications, where they can be used as carriers of information. The unique topology of skyrmions makes them display emergent dynamical properties as compared with domain walls. Some studies have demonstrated that the two topologically inequivalent magnetic objects could be interconverted by using cleverly designed geometric structures. Here, we numerically address the skyrmion domain wall collision in a magnetic racetrack by introducing relative motion between the two objects based on a specially designed junction. An electric current serves as the driving force that moves a skyrmion toward a trapped domain wall pair. We see different types of collision dynamics depending on the driving parameters. Most importantly, the modulation of skyrmion transport using domain walls is realized in this system, allowing a set of domain wall-gated logical NOT, NAND, and NOR gates to be constructed. This work provides a skyrmion-based spin-logic architecture that is fully compatible with racetrack memories.

  4. Wavelet domain hidden markovian bayesian document segmentation

    Institute of Scientific and Technical Information of China (English)

    Sun Junxi; Xiao Changyan; Zhang Su; Chen Yazhu

    2005-01-01

    A novel algorithm for Bayesian document segmentation is proposed based on the wavelet domain hidden Markov tree (HMT) model. Once the parameters of model are known, according to the sequential maximum a posterior probability (SMAP) rule, firstly, the likelihood probability of HMT model for each pattern is computed from fine to coarse procedure. Then, the interscale state transition probability is solved using Expectation Maximum (EM) algorithm based on hybrid-quadtree and multiscale context information is fused from coarse to fine procedure. In order to get pixellevel segmentation, the redundant wavelet domain Gaussian mixture model (GMM) is employed to formulate pixel-level statistical property. The experiment results show that the proposed scheme is feasible and robust.

  5. Domain Decomposition Methods for Hyperbolic Problems

    Indian Academy of Sciences (India)

    Pravir Dutt; Subir Singh Lamba

    2009-04-01

    In this paper a method is developed for solving hyperbolic initial boundary value problems in one space dimension using domain decomposition, which can be extended to problems in several space dimensions. We minimize a functional which is the sum of squares of the 2 norms of the residuals and a term which is the sum of the squares of the 2 norms of the jumps in the function across interdomain boundaries. To make the problem well posed the interdomain boundaries are made to move back and forth at alternate time steps with sufficiently high speed. We construct parallel preconditioners and obtain error estimates for the method. The Schwarz waveform relaxation method is often employed to solve hyperbolic problems using domain decomposition but this technique faces difficulties if the system becomes characteristic at the inter-element boundaries. By making the inter-element boundaries move faster than the fastest wave speed associated with the hyperbolic system we are able to overcome this problem.

  6. LHC RF System Time-Domain Simulation

    Energy Technology Data Exchange (ETDEWEB)

    Mastorides, T.; Rivetta, C.; /SLAC

    2010-09-14

    Non-linear time-domain simulations have been developed for the Positron-Electron Project (PEP-II) and the Large Hadron Collider (LHC). These simulations capture the dynamic behavior of the RF station-beam interaction and are structured to reproduce the technical characteristics of the system (noise contributions, non-linear elements, and more). As such, they provide useful results and insight for the development and design of future LLRF feedback systems. They are also a valuable tool for the study of diverse longitudinal beam dynamics effects such as coupled-bunch impedance driven instabilities and single bunch longitudinal emittance growth. Results from these studies and related measurements from PEP-II and LHC have been presented in multiple places. This report presents an example of the time-domain simulation implementation for the LHC.

  7. Domain decomposition for implicit solvation models.

    Science.gov (United States)

    Cancès, Eric; Maday, Yvon; Stamm, Benjamin

    2013-08-07

    This article is the first of a series of papers dealing with domain decomposition algorithms for implicit solvent models. We show that, in the framework of the COSMO model, with van der Waals molecular cavities and classical charge distributions, the electrostatic energy contribution to the solvation energy, usually computed by solving an integral equation on the whole surface of the molecular cavity, can be computed more efficiently by using an integral equation formulation of Schwarz's domain decomposition method for boundary value problems. In addition, the so-obtained potential energy surface is smooth, which is a critical property to perform geometry optimization and molecular dynamics simulations. The purpose of this first article is to detail the methodology, set up the theoretical foundations of the approach, and study the accuracies and convergence rates of the resulting algorithms. The full efficiency of the method and its applicability to large molecular systems of biological interest is demonstrated elsewhere.

  8. Magnetic domain-wall racetrack memory.

    Science.gov (United States)

    Parkin, Stuart S P; Hayashi, Masamitsu; Thomas, Luc

    2008-04-11

    Recent developments in the controlled movement of domain walls in magnetic nanowires by short pulses of spin-polarized current give promise of a nonvolatile memory device with the high performance and reliability of conventional solid-state memory but at the low cost of conventional magnetic disk drive storage. The racetrack memory described in this review comprises an array of magnetic nanowires arranged horizontally or vertically on a silicon chip. Individual spintronic reading and writing nanodevices are used to modify or read a train of approximately 10 to 100 domain walls, which store a series of data bits in each nanowire. This racetrack memory is an example of the move toward innately three-dimensional microelectronic devices.

  9. Nuclear domains and the nuclear matrix.

    Science.gov (United States)

    van Driel, R; Wansink, D G; van Steensel, B; Grande, M A; Schul, W; de Jong, L

    1995-01-01

    This overview describes the spatial distribution of several enzymatic machineries and functions in the interphase nucleus. Three general observations can be made. First, many components of the different nuclear machineries are distributed in the nucleus in a characteristic way for each component. They are often found concentrated in specific domains. Second, nuclear machineries for the synthesis and processing of RNA and DNA are associated with an insoluble nuclear structure, called nuclear matrix. Evidently, handling of DNA and RNA is done by immobilized enzyme systems. Finally, the nucleus seems to be divided in two major compartments. One is occupied by compact chromosomes, the other compartment is the space between the chromosomes. In the latter, transcription takes place at the surface of chromosomal domains and it houses the splicing machinery. The relevance of nuclear organization for efficient gene expression is discussed.

  10. Digital Switching in the Quantum Domain

    CERN Document Server

    Tsai, I M

    2002-01-01

    In this paper, we present an architecture and implementation algorithm such that digital data can be switched in the quantum domain. First we define the connection digraph which can be used to describe the behavior of a switch at a given time, then we show how a connection digraph can be implemented using elementary quantum gates. The proposed mechanism supports unicasting as well as multicasting, and is strict-sense non-blocking. It can be applied to perform either circuit switching or packet switching. Compared with a traditional space or time domain switch, the proposed switching mechanism is more scalable. Assuming an n-by-n quantum switch, the space consumption grows linearly, i.e. O(n), while the time complexity is O(1) for unicasting, and O(log n) for multicasting. Based on these advantages, a high throughput switching device can be built simply by increasing the number of I/O ports.

  11. Multiple Shooting and Time Domain Decomposition Methods

    CERN Document Server

    Geiger, Michael; Körkel, Stefan; Rannacher, Rolf

    2015-01-01

    This book offers a comprehensive collection of the most advanced numerical techniques for the efficient and effective solution of simulation and optimization problems governed by systems of time-dependent differential equations. The contributions present various approaches to time domain decomposition, focusing on multiple shooting and parareal algorithms.  The range of topics covers theoretical analysis of the methods, as well as their algorithmic formulation and guidelines for practical implementation. Selected examples show that the discussed approaches are mandatory for the solution of challenging practical problems. The practicability and efficiency of the presented methods is illustrated by several case studies from fluid dynamics, data compression, image processing and computational biology, giving rise to possible new research topics.  This volume, resulting from the workshop Multiple Shooting and Time Domain Decomposition Methods, held in Heidelberg in May 2013, will be of great interest to applied...

  12. Cross-domain inhibition of TACE ectodomain

    DEFF Research Database (Denmark)

    Tape, Christopher J; Willems, Sofie H; Dombernowsky, Sarah L;

    2011-01-01

    Proteolytic release from the cell surface is an essential activation event for many growth factors and cytokines. TNF-a converting enzyme (TACE) is a membrane-bound metalloprotease responsible for solubilizing many pathologically significant membrane substrates and is an attractive therapeutic...... target for the treatment of cancer and arthritis. Prior attempts to antagonize cell-surface TACE activity have focused on small-molecule inhibition of the metalloprotease active site. Given the highly conserved nature of metalloprotease active sites, this paradigm has failed to produce a truly specific...... individual antibody variable domains to desired epitopes. The resulting "cross-domain" human antibody is a previously undescribed selective TACE antagonist and provides a unique alternative to small-molecule metalloprotease inhibition....

  13. Space Domain Awareness for Manned GEO Servicing

    Science.gov (United States)

    Blake, T.

    2010-09-01

    The Defense Advanced Research Projects Agency (DARPA) is embarking on a joint program to service spacecraft in Geosynchronous (GEO) Orbit. This ambitious program, known as R5 (Rendezvous, Refuel, Refurbish, Repair, and Reposition), will develop the technologies required to extend the life of billions of dollars of invested in building, launching and operating GEO spacecraft. Inherent in the R5 program, is the need for high quality awareness of the space domain at GEO. Servicing non-operational spacecraft in GEO will require enhanced debris detect/track and space weather monitoring for crew safety, as well as high resolution characterization of the spacecraft to understand the status of the spacecraft to manifest the repair mission. This paper will briefly describe the GEO space domain sensor and data processing requirements to support the R5 program and outline DARPA’s program plans to develop these capabilities. Distribution Statement A (Approved for Public Release, Distribution Unlimited). DISTAR case 15410.

  14. Domain growth kinetics in stratifying foam films

    Science.gov (United States)

    Zhang, Yiran; Sharma, Vivek

    2015-11-01

    Baking bread, brewing cappuccino, pouring beer, washing dishes, shaving, shampooing, whipping eggs and blowing bubbles all involve creation of aqueous foam films. Typical foam films consist of two surfactant-laden surfaces that are ~ 5 nm - 10 micron apart. Sandwiched between these interfacial layers is a fluid that drains primarily under the influence of viscous and interfacial forces, including disjoining pressure. Interestingly, a layered ordering of micelles inside the foam films (thickness growth regimes with characteristic scaling laws. Though several studies have focused on the expansion dynamics of isolated domains that exhibit a diffusion-like scaling, the change in expansion kinetics observed after domains contact with the Plateau border has not been reported and analyzed before.

  15. Dynamics of Nonlinear Waves on Bounded Domains

    CERN Document Server

    Maliborski, Maciej

    2016-01-01

    This thesis is concerned with dynamics of conservative nonlinear waves on bounded domains. In general, there are two scenarios of evolution. Either the solution behaves in an oscillatory, quasiperiodic manner or the nonlinear effects cause the energy to concentrate on smaller scales leading to a turbulent behaviour. Which of these two possibilities occurs depends on a model and the initial conditions. In the quasiperiodic scenario there exist very special time-periodic solutions. They result for a delicate balance between dispersion and nonlinear interaction. The main body of this dissertation is concerned with construction (by means of perturbative and numerical methods) of time-periodic solutions for various nonlinear wave equations on bounded domains. While turbulence is mainly associated with hydrodynamics, recent research in General Relativity has also revealed turbulent phenomena. Numerical studies of a self-gravitating massless scalar field in spherical symmetry gave evidence that anti-de Sitter space ...

  16. Modeling Network Traffic in Wavelet Domain

    Directory of Open Access Journals (Sweden)

    Sheng Ma

    2004-12-01

    Full Text Available This work discovers that although network traffic has the complicated short- and long-range temporal dependence, the corresponding wavelet coefficients are no longer long-range dependent. Therefore, a "short-range" dependent process can be used to model network traffic in the wavelet domain. Both independent and Markov models are investigated. Theoretical analysis shows that the independent wavelet model is sufficiently accurate in terms of the buffer overflow probability for Fractional Gaussian Noise traffic. Any model, which captures additional correlations in the wavelet domain, only improves the performance marginally. The independent wavelet model is then used as a unified approach to model network traffic including VBR MPEG video and Ethernet data. The computational complexity is O(N for developing such wavelet models and generating synthesized traffic of length N, which is among the lowest attained.

  17. The different roles of aggrecan interaction domains

    DEFF Research Database (Denmark)

    Aspberg, Anders

    2012-01-01

    is vital in that it binds the proteoglycan to hyaluronan in ternary complex with link protein, retaining the proteoglycan in the tissue. The importance of the C-terminal G3 domain interactions has recently been emphasized by two different human hereditary disorders: autosomal recessive aggrecan......The aggregating proteoglycans of the lectican family are important components of extracellular matrices. Aggrecan is the most well studied of these and is central to cartilage biomechanical properties and skeletal development. Key to its biological function is the fixed charge of the many......-type spondyloepimetaphyseal dysplasia and autosomal dominant familial osteochondritis dissecans. In these two conditions, different missense mutations in the aggrecan C-type lectin repeat have been described. The resulting amino acid replacements affect the ligand interactions of the G3 domain, albeit with widely different...

  18. Domain-Specific Modelling Languages in Bigraphs

    DEFF Research Database (Denmark)

    Perrone, Gian David

    " of models, in order to improve the utility of the models we build, and to ease the process of model construction by moving the languages we use to express such models closer to their respective domains. This thesis is concerned with the study of bigraphical reactive systems as a host for domain......-specic modelling languages. We present a number of novel technical developments, including a new complete meta-calculus presentation of bigraphical reactive systems, an abstract machine that instantiates to an abstract machine for any instance calculus, and a mechanism for dening declarative sorting predicates...... that always give rise to wellbehaved sortings. We explore bigraphical renement relations that permit formalisation of the relationship between dierent languages instantiated as bigraphical reactive systems. We detail a prototype verication tool for instance calculi, and provide a tractable heuristic...

  19. Structural and Histone Binding Ability Characterizations of Human PWWP Domains

    Energy Technology Data Exchange (ETDEWEB)

    Wu, Hong; Zeng, Hong; Lam, Robert; Tempel, Wolfram; Amaya, Maria F.; Xu, Chao; Dombrovski, Ludmila; Qiu, Wei; Wang, Yanming; Min, Jinrong (Toronto); (Penn)

    2013-09-25

    The PWWP domain was first identified as a structural motif of 100-130 amino acids in the WHSC1 protein and predicted to be a protein-protein interaction domain. It belongs to the Tudor domain 'Royal Family', which consists of Tudor, chromodomain, MBT and PWWP domains. While Tudor, chromodomain and MBT domains have long been known to bind methylated histones, PWWP was shown to exhibit histone binding ability only until recently. The PWWP domain has been shown to be a DNA binding domain, but sequence analysis and previous structural studies show that the PWWP domain exhibits significant similarity to other 'Royal Family' members, implying that the PWWP domain has the potential to bind histones. In order to further explore the function of the PWWP domain, we used the protein family approach to determine the crystal structures of the PWWP domains from seven different human proteins. Our fluorescence polarization binding studies show that PWWP domains have weak histone binding ability, which is also confirmed by our NMR titration experiments. Furthermore, we determined the crystal structures of the BRPF1 PWWP domain in complex with H3K36me3, and HDGF2 PWWP domain in complex with H3K79me3 and H4K20me3. PWWP proteins constitute a new family of methyl lysine histone binders. The PWWP domain consists of three motifs: a canonical {beta}-barrel core, an insertion motif between the second and third {beta}-strands and a C-terminal {alpha}-helix bundle. Both the canonical {beta}-barrel core and the insertion motif are directly involved in histone binding. The PWWP domain has been previously shown to be a DNA binding domain. Therefore, the PWWP domain exhibits dual functions: binding both DNA and methyllysine histones.

  20. Domain adaptation for Alzheimer's disease diagnostics.

    Science.gov (United States)

    Wachinger, Christian; Reuter, Martin

    2016-10-01

    With the increasing prevalence of Alzheimer's disease, research focuses on the early computer-aided diagnosis of dementia with the goal to understand the disease process, determine risk and preserving factors, and explore preventive therapies. By now, large amounts of data from multi-site studies have been made available for developing, training, and evaluating automated classifiers. Yet, their translation to the clinic remains challenging, in part due to their limited generalizability across different datasets. In this work, we describe a compact classification approach that mitigates overfitting by regularizing the multinomial regression with the mixed ℓ1/ℓ2 norm. We combine volume, thickness, and anatomical shape features from MRI scans to characterize neuroanatomy for the three-class classification of Alzheimer's disease, mild cognitive impairment and healthy controls. We demonstrate high classification accuracy via independent evaluation within the scope of the CADDementia challenge. We, furthermore, demonstrate that variations between source and target datasets can substantially influence classification accuracy. The main contribution of this work addresses this problem by proposing an approach for supervised domain adaptation based on instance weighting. Integration of this method into our classifier allows us to assess different strategies for domain adaptation. Our results demonstrate (i) that training on only the target training set yields better results than the naïve combination (union) of source and target training sets, and (ii) that domain adaptation with instance weighting yields the best classification results, especially if only a small training component of the target dataset is available. These insights imply that successful deployment of systems for computer-aided diagnostics to the clinic depends not only on accurate classifiers that avoid overfitting, but also on a dedicated domain adaptation strategy.

  1. Compact decoupling for thermoviscoelasticity in irregular domains

    Directory of Open Access Journals (Sweden)

    El Mustapha Ait Ben Hassi

    2011-05-01

    Full Text Available Our goal is to prove the compactness of the difference between the thermoviscoelasticity semigroup and its decoupled semigroup. To show this, we prove the norm continuity of this difference, the compactness of the difference of their resolvents and use Theorem 2.3 in Huang [4]. We generalize a result by Liu [5]. An illustrative example of a thermoviscoelastic system with Neumann Laplacian on a Jelly Roll domain is given.

  2. Time Domain Aperture Antenna Study. Volume 1

    Science.gov (United States)

    1974-10-01

    Introduction 96 6.2 Special Case, Inpul",e - 97 6.3 Sjwcial Case, :mpulse :.xcitation, R =0, g,ý1 99 6.4 Gene Excitation, Proadside Direcion (e:90), R -O...can be calculated in a simple, closed form, with relative ease using only cime -domain techniques (almost a "back-of-the- envelope" type of calculation

  3. Gradient Domain Mesh Deformation - A Survey

    Institute of Scientific and Technical Information of China (English)

    Wei-Wei Xu; Kun Zhou

    2009-01-01

    This survey reviews the recent development of gradient domain mesh deformation method. Different to other deformation methods, the gradient domain deformation method is a surface-based, variational optimization method. It directly encodes the geometric details in differential coordinates, which are also called Laplacian coordinates in literature. By preserving the Laplacian coordinates, the mesh details can be well preserved during deformation. Due to the locality of the Laplacian coordinates, the variational optimization problem can be casted into a sparse linear system. Fast sparse linear solver can be adopted to generate deformation result interactively, or even in real-time. The nonlinear nature of gradient domain mesh deformation leads to the development of two categories of deformation methods: linearization methods and nonlinear optimization methods. Basically, the linearization methods only need to solve the linear least-squares system once. They are fast, easy to understand and control, while the deformation result might be suboptimal. Nonlinear optimization methods can reach optimal solution of deformation energy function by iterative updating. Since the computation of nonlinear methods is expensive, reduced deformable models should be adopted to achieve interactive performance. The nonlinear optimization methods avoid the user burden to input transformation at deformation handles, and they can be extended to incorporate various nonlinear constraints, like volume constraint, skeleton constraint, and so on. We review representative methods and related approaches of each category comparatively and hope to help the user understand the motivation behind the algorithms. Finally, we discuss the relation between physical simulation and gradient domain mesh deformation to reveal why it can achieve physically plausible deformation result.

  4. Singular integral on bounded strictly pseudoconvex domain

    Institute of Scientific and Technical Information of China (English)

    GONG Ding-dong

    2008-01-01

    Kytmanov and Myslivets gave a special Cauchy principal value of the singular integral on the bounded strictly pseudoconvex domain with smooth boundary. By means of this Cauchy integral principal value, the corresponding singular integral and a composition formula are obtained. This composition formula is quite different from usual ones in form. As an application, the corresponding singular integral equation and the system of singular integral equations are discussed as well.

  5. On fictitious domain formulations for Maxwell's equations

    DEFF Research Database (Denmark)

    Dahmen, W.; Jensen, Torben Klint; Urban, K.

    2003-01-01

    We consider fictitious domain-Lagrange multiplier formulations for variational problems in the space H(curl: Omega) derived from Maxwell's equations. Boundary conditions and the divergence constraint are imposed weakly by using Lagrange multipliers. Both the time dependent and time harmonic...... formulations of the Maxwell's equations are considered. and we derive well-posed formulations for both cases. The variational problem that arises can be discretized by functions that do not satisfy an a-priori divergence constraint....

  6. 2015 Cross-Domain Deterrence Seminar Bibliography

    Energy Technology Data Exchange (ETDEWEB)

    Juarez, Anthony [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2016-02-04

    In November 2015, the Center for Global Security Research, NSO, and Global Security program jointly sponsored a seminar investigating questions related to cross-domain deterrence at Lawrence Livermore National Laboratory. At the seminar, experts were asked to moderate discussion based on the four topics below. For each of these topics, we have compiled a short list of literature that will help analysts develop a baseline understanding of the issue.

  7. Learning Domain Theories via Analogical Transfer

    Science.gov (United States)

    2007-01-01

    Shive & Weber 1982). In the linear kinematics section of the textbook used for this study ( Giancoli 1991), there are eight worked out examples...is analogous to the dynamics of linear motion” (p. 197, Giancoli 1991). This is common practice in textbooks, and analogies between domains form the...and Worked Solution All problems and worked solutions used in this work were taken from the same physics textbook ( Giancoli 1991). Problems are

  8. Domain-Specific Ontology of Botany

    Institute of Scientific and Technical Information of China (English)

    Fang Gu; Cun-Gen Cao; Yue-Fei Sui; Wen Tian

    2004-01-01

    Domain-specific ontologies are greatly useful in knowledge acquisition, sharing and analysis. In this paper, botany-specific ontology for acquiring and analyzing botanical knowledge is presented. The ontology is represented in a set of well-defined categories, and each concept is viewed as an instance of certain category. The authors also introduce botany-specific axioms, an integral part of the ontology, for checking and reasoning with the acquired knowledge. Consistency, completeness and redundancy of the axioms are discussed.

  9. Domain decomposition methods for mortar finite elements

    Energy Technology Data Exchange (ETDEWEB)

    Widlund, O.

    1996-12-31

    In the last few years, domain decomposition methods, previously developed and tested for standard finite element methods and elliptic problems, have been extended and modified to work for mortar and other nonconforming finite element methods. A survey will be given of work carried out jointly with Yves Achdou, Mario Casarin, Maksymilian Dryja and Yvon Maday. Results on the p- and h-p-version finite elements will also be discussed.

  10. Structural Time Domain Identification Toolbox User's Guide

    DEFF Research Database (Denmark)

    Andersen, P.; Kirkegaard, Poul Henning; Brincker, Rune

    This manual describes the Structural Time Domain Identification toolbox for use with MA TLAB. This version of the tool box has been developed using the PC-based MA TLAB version 4.2c, but is compatible with prior versions of MATLAB and UNIX-based versions. The routines of the toolbox are the so-ca......-called m-files that can be executed from the MA TLAB command line prompt or built into other m-files....

  11. Domain wall magneto-Seebeck effect

    OpenAIRE

    Krzysteczko, Patryk; Hu, Xiukun; Liebing, Niklas; Sievers, Sibylle; Schumacher, Hans W.

    2014-01-01

    The interplay between charge, spin, and heat currents in magnetic nano systems subjected to a temperature gradient has lead to a variety of novel effects and promising applications studied in the fast-growing field of spincaloritronics. Here we explore the magnetothermoelectrical properties of an individual magnetic domain wall in a permalloy nanowire. In thermal gradients of the order of few Kelvin per micrometer along the long wire axis, we find a clear magneto-Seebeck signature due to the ...

  12. Time Domain Switched Accelerometer Design and Fabrication

    Science.gov (United States)

    2014-09-01

    report is conducted at a low temperature and can be used to vacuum pack the devices on wafer, v  CONTENTS INTRODUCTION...metallization. The HF etch must not blister or peal the metallizations on either side of the proof-mass wafer. Thermally evaporated metallization holds up...used to vacuum pack the devices on wafer, Mission Area: Advanced Integrated Circuit Technology time-domain switching accelerometer

  13. Dynamics on the SU(2) fundamental domain

    CERN Document Server

    Van den Heuvel, B; van den Heuvel, Bas; van Baal, Pierre

    1994-01-01

    For SU(2) gauge theory on the three-sphere we focus on a subspace of modes of the gauge field that contains the tunnelling paths and the sphalerons and on which the energy functional is degenerate to second order in the fields. The ultimate goal is to study the \\theta-dependence of the low-lying states for this model by imposing boundary conditions on the fundamental domain.

  14. Image sharpening in the JPEG domain.

    Science.gov (United States)

    Konstantinides, K; Bhaskaran, V; Beretta, G

    1999-01-01

    We present a new technique for sharpening compressed images in the discrete-cosine-transform domain. For images compressed using the JPEG standard, image sharpening is achieved by suitably scaling each element of the encoding quantization table to enhance the high-frequency characteristics of the image. The modified version of the encoding table is then transmitted in lieu of the original. Experimental results with scanned images show improved text and image quality with no additional computation cost and without affecting compressibility.

  15. Unmanned Aerial Vehicle Domain: Areas of Research

    Directory of Open Access Journals (Sweden)

    Kadir Alpaslan Demir

    2015-07-01

    Full Text Available Unmanned aerial vehicles (UAVs domain has seen rapid developments in recent years. As the number of UAVs increases and as the missions involving UAVs vary, new research issues surface. An overview of the existing research areas in the UAV domain has been presented including the nature of the work categorised under different groups. These research areas are divided into two main streams: Technological and operational research areas. The research areas in technology are divided into onboard and ground technologies. The research areas in operations are divided into organization level, brigade level, user level, standards and certifications, regulations and legal, moral, and ethical issues. This overview is intended to serve as a starting point for fellow researchers new to the domain, to help researchers in positioning their research, identifying related research areas, and focusing on the right issues.Defence Science Journal, Vol. 65, No. 4, July 2015, pp. 319-329, DOI: http://dx.doi.org/10.14429/dsj.65.8631

  16. Metastable magnetic domain walls in cylindrical nanowires

    Energy Technology Data Exchange (ETDEWEB)

    Ferguson, C.A.; MacLaren, D.A.; McVitie, S., E-mail: Stephen.McVitie@glasgow.ac.uk

    2015-05-01

    The stability of the asymmetric domain wall (ATDW) in soft magnetic cylindrical nanowires and nanotubes is investigated using micromagnetic simulations. Our calculated phase diagram shows that for cylindrical permalloy nanowires, the transverse domain wall (TDW) is the ground state for radii below 20 nm whilst the Bloch point wall (BPW) is favoured in thicker wires. The ATDW stabilises only as a metastable state but with energy close to that of the BPW. Characterisation of the DW spin structures reveals that the ATDW has a vortex-like surface spin state, in contrast to the divergent surface spins of the TDW. This results in lowering of surface charge above the critical radius. For both cylindrical nanotubes and nanowires we find that ATDWs only appear to exist as metastable static states and are particularly suppressed in nanotubes due to an increase in magnetostatic energy. - Highlights: • We simulate the micromagnetic structures of domain walls in cylindrical nanowires. • A phase diagram identifies ground and metastable states. • Asymmetric transverse walls are metastable in nanowires but suppressed in tubes. • Unrolling surface magnetisation aids visualisation of asymmetry and chirality. • We predict experimental discrimination based on magnetic charge distribution.

  17. Interactions between domain walls and spin currents

    Science.gov (United States)

    Klaui, M.; Laufenberg, M.; Backes, D.; Buhrer, W.; Rudiger, U.; Vila, L.; Vouille, C.; Faini, G.

    2006-03-01

    A promising novel approach for switching magnetic nanostructures is current-induced domain wall propagation (CIDP), where due to a spin torque effect, electrons transfer angular momentum to a head-to-head domain wall and thereby push it in the direction of the electron flow without any externally applied fields. This effect has been observed with a variety of techniques including MFM [1] and spin polarized scanning electron microscopy [2] to directly observe current-induced domain wall propagation in ferromagnetic nanostructures and magnetoresistance measurements to systematically probe the critical current densities as a function of the geometry [3]. The observed wall velocities and critical current densities, where wall motion sets in at room temperature, do not agree well with theoretical 0K calculations [4]. We have therefore measured the critical current densities as a function of the sample temperature. We find that the spin torque effect becomes more efficient at low temperatures, which could account for some of the observed discrepancies between the 300K experiment and the 0K simulation. [1] A. Yamaguchi et al., Phys. Rev. Lett. 92, 77205 (2004); [2] M. Klaui et al., PRL 95, 26601 (2005); [3] M. Klaui et al., PRL 94, 106601 (2005); [4] A. Thiaville et al., EPL 69, 990 (2005); G. Tatara et al., APL 86, 252509 (2005);

  18. Bregmanized Domain Decomposition for Image Restoration

    KAUST Repository

    Langer, Andreas

    2012-05-22

    Computational problems of large-scale data are gaining attention recently due to better hardware and hence, higher dimensionality of images and data sets acquired in applications. In the last couple of years non-smooth minimization problems such as total variation minimization became increasingly important for the solution of these tasks. While being favorable due to the improved enhancement of images compared to smooth imaging approaches, non-smooth minimization problems typically scale badly with the dimension of the data. Hence, for large imaging problems solved by total variation minimization domain decomposition algorithms have been proposed, aiming to split one large problem into N > 1 smaller problems which can be solved on parallel CPUs. The N subproblems constitute constrained minimization problems, where the constraint enforces the support of the minimizer to be the respective subdomain. In this paper we discuss a fast computational algorithm to solve domain decomposition for total variation minimization. In particular, we accelerate the computation of the subproblems by nested Bregman iterations. We propose a Bregmanized Operator Splitting-Split Bregman (BOS-SB) algorithm, which enforces the restriction onto the respective subdomain by a Bregman iteration that is subsequently solved by a Split Bregman strategy. The computational performance of this new approach is discussed for its application to image inpainting and image deblurring. It turns out that the proposed new solution technique is up to three times faster than the iterative algorithm currently used in domain decomposition methods for total variation minimization. © Springer Science+Business Media, LLC 2012.

  19. Birdsong dialect patterns explained using magnetic domains

    Science.gov (United States)

    Burridge, James; Kenney, Steven

    2016-06-01

    The songs and calls of many bird species, like human speech, form distinct regional dialects. We suggest that the process of dialect formation is analogous to the physical process of magnetic domain formation. We take the coastal breeding grounds of the Puget Sound white crowned sparrow as an example. Previous field studies suggest that birds of this species learn multiple songs early in life, and when establishing a territory for the first time, retain one of these dialects in order to match the majority of their neighbors. We introduce a simple lattice model of the process, showing that this matching behavior can produce single dialect domains provided the death rate of adult birds is sufficiently low. We relate death rate to thermodynamic temperature in magnetic materials, and calculate the critical death rate by analogy with the Ising model. Using parameters consistent with the known behavior of these birds we show that coastal dialect domain shapes may be explained by viewing them as low-temperature "stripe states."

  20. BPS domain walls from backreacted orientifolds

    CERN Document Server

    Blåbäck, Johan; Van Riet, Thomas; Vercnocke, Bert

    2013-01-01

    Compactifications with D-brane and orientifold sources lead to standard gauged supergravity theories if the sources are smeared over the internal directions. It is therefore of interest to find how the solutions described by the gauged supergravity are altered by properly localising the sources. In this paper we analyse this for BPS domain wall solutions in the seven-dimensional gauged supergravity obtained from an O6 toroidal orientifold compactification in massive IIA supergravity. This is one of the simplest no-scale supergravities that can be constructed and analysed in full detail. We find and discuss the BPS domain walls both when the O6 planes are smeared and localised. When the O6 planes are localised the domain wall solutions live in a warped compactification. In order to get explicit expressions we also consider the non-compact versions of the solutions for which the O6 planes have been traded for D6 branes. Through T-duality we obtain partially localised solutions for compactifications to four dime...

  1. Masked object registration in the Fourier domain.

    Science.gov (United States)

    Padfield, Dirk

    2012-05-01

    Registration is one of the most common tasks of image analysis and computer vision applications. The requirements of most registration algorithms include large capture range and fast computation so that the algorithms are robust to different scenarios and can be computed in a reasonable amount of time. For these purposes, registration in the Fourier domain using normalized cross-correlation is well suited and has been extensively studied in the literature. Another common requirement is masking, which is necessary for applications where certain regions of the image that would adversely affect the registration result should be ignored. To address these requirements, we have derived a mathematical model that describes an exact form for embedding the masking step fully into the Fourier domain so that all steps of translation registration can be computed efficiently using Fast Fourier Transforms. We provide algorithms and implementation details that demonstrate the correctness of our derivations. We also demonstrate how this masked FFT registration approach can be applied to improve the Fourier-Mellin algorithm that calculates translation, rotation, and scale in the Fourier domain. We demonstrate the computational efficiency, advantages, and correctness of our algorithm on a number of images from real-world applications. Our framework enables fast, global, parameter-free registration of images with masked regions.

  2. PREFACE: Domain wall dynamics in nanostructures Domain wall dynamics in nanostructures

    Science.gov (United States)

    Marrows, C. H.; Meier, G.

    2012-01-01

    Domain structures in magnetic materials are ubiquitous and have been studied for decades. The walls that separate them are topological defects in the magnetic order parameter and have a wide variety of complex forms. In general, their investigation is difficult in bulk materials since only the domain structure on the surface of a specimen is visible. Cutting the sample to reveal the interior causes a rearrangement of the domains into a new form. As with many other areas of magnetism, the study of domain wall physics has been revitalised by the advent of nanotechnology. The ability to fabricate nanoscale structures has permitted the formation of simplified and controlled domain patterns; the development of advanced microscopy methods has permitted them to be imaged and then modelled; subjecting them to ultrashort field and current pulses has permitted their dynamics to be explored. The latest results from all of these advances are described in this special issue. Not only has this led to results of great scientific beauty, but also to concepts of great applicability to future information technologies. In this issue the reader will find the latest results for these domain wall dynamics and the high-speed processes of topological structures such as domain walls and magnetic vortices. These dynamics can be driven by the application of magnetic fields, or by flowing currents through spintronic devices using the novel physics of spin-transfer torque. This complexity has been studied using a wide variety of experimental techniques at the edge of the spatial and temporal resolution currently available, and can be described using sophisticated analytical theory and computational modelling. As a result, the dynamics can be engineered to give rise to finely controlled memory and logic devices with new functionality. Moreover, the field is moving to study not only the conventional transition metal ferromagnets, but also complex heterostructures, novel magnets and even other

  3. The Bergman Kernels on Generalized Exceptional Hua Domains

    Institute of Scientific and Technical Information of China (English)

    殷慰萍; 赵振刚

    2001-01-01

    @@Yin Weiping introduce four types of Hua domain which are built on four types of Cartan domain and the Bergman kernels on these four types of Hua domain can be computed in explicit formulas[1]. In this paper, two types of domains defined by (10), (11) (see below) are introduced which are built on two exceptional Cartan domains. And We compute Bergman Kernels explicitly for these two domains. We also study the asymptotic behavior of the Bergman kernel function near boundary points, drawing on Appell's multivariable hypergeometric function.

  4. Anisotropic domain structure of KTiOPO4 crystals

    Science.gov (United States)

    Urenski, P.; Lesnykh, M.; Rosenwaks, Y.; Rosenman, G.; Molotskii, M.

    2001-08-01

    Highly anisotropic ferroelectric domain structure is observed in KTiOPO4 (KTP) crystals reversed by low electric field. The applied Miller-Weinreich model for sidewise motion of domain walls indicates that this anisotropy results from the peculiarities of KTP crystal lattice. The domain nuclei of dozen nanometer size, imaged by atomic force microscopy method, demonstrate regular hexagonal forms. The orientation of domain walls of the elementary nuclei coincides with the orientation of the facets of macroscopic KTP crystals. The observed strong domain elongation along one principal crystal axis allows us to improve tailoring of ferroelectric domain engineered structures for nonlinear optical converters.

  5. Antiferromagnetic domain wall motion driven by spin-orbit torques

    Science.gov (United States)

    Shiino, Takayuki; Oh, Se-Hyeok; Haney, Paul M.; Lee, Seo-Won; Go, Gyungchoon; Park, Byong-Guk; Lee, Kyung-Jin

    2016-01-01

    We theoretically investigate dynamics of antiferromagnetic domain walls driven by spin-orbit torques in antiferromagnet/heavy metal bilayers. We show that spin-orbit torques drive antiferromagnetic domain walls much faster than ferromagnetic domain walls. As the domain wall velocity approaches the maximum spin-wave group velocity, the domain wall undergoes Lorentz contraction and emits spin-waves in the terahertz frequency range. The interplay between spin-orbit torques and the relativistic dynamics of antiferromagnetic domain walls leads to the efficient manipulation of antiferromagnetic spin textures and paves the way for the generation of high frequency signals from antiferromagnets. PMID:27588878

  6. Thermomagnetic Stability in Pseudo Single Domain Grains

    Science.gov (United States)

    Nagy, Lesleis; Williams, Wyn; Muxworthy, Adrian; Fabian, Karl; Conbhuí, Pádraig Ó.

    2016-04-01

    The reliability of paleomagnetic remanences are well understood for fine grains of magnetite that are single-domain (SD, uniformly magnetized). In particular Néel's theory [1] outlined the thermal energies required to block and unblock magnetic remanences. This lead to determination of thermal stability for magnetization in fine grains as outlined in Pullaiah et. al. [2] and a comprehensive understanding of SD paleomagnetic recordings. It has been known for some time that single domain magnetite is possible only in the grain size range 30 - 80nm, which may only account for a small fraction of the grain size distribution in any rock sample. Indeed rocks are often dominated by grains in the pseudo single domain (PSD) size range, at approximately 80 - 1000nm. Toward the top end of this range multi-domain features begin to dominate. In order to determine thermomagnetic stability in PSD grains we need to identify the energy barriers between all possible pairs of local energy minima (LEM) domain states as a function of both temperature and grain size. We have attempted to do this using the nudged elastic band (NEB) method [3] which searches for minimum energy paths between any given pair of LEM states. Using this technique we have determined, for the first time, complete thermomagnetic stability curves for PSD magnetite. The work presented is at a preliminary stage. However it can be shown that PSD grains of magnetite with simple geometries (e.g. cubes or cuboctahedra) have very few low energy transition paths and the stability is likely to be similar to that observed for SD grains (as expected form experimental observations). The results will provide a basis for a much more rigorous understanding of the fidelity of paleomagnetic signals in assemblages of PSD grains and their ability to retain ancient recordings of the geomagnetic field. References: [1] Néel, Louis. "Théorie du traînage magnétique des ferromagnétiques en grains fins avec applications aux terres

  7. A SIMPLIFIED MODEL FOR DOMAIN SWITCHING OF FERROELECTRIC CRYSTAL

    Institute of Scientific and Technical Information of China (English)

    HeYansong; FanJinghong

    2004-01-01

    Domain switching is the main source of nonlinear characteristics in ferroelectrics. According to crystal plasticity theory, the domains and domain switching systems for perovskitetype structure ferroelectrics are defined. Considering the traverse motion performance of domain wall, a rather simplified form of evolution law about incremental of volume fraction during domain switching has been developed. The main factors, which exert an influence on domain switching, such as material parameters, domain wall motion history, kind of domain switching (180° or 90°) and volume fraction, could be addressed. The hysteresis loops of spontaneous electric polarization as a function of electric field, the butterfly shaped strain versus electric field curve and the platform relations between spontaneous polarization and stress, as well as the longitudinal strain and stress, are well simulated and discussed.

  8. Properties of squeezing functions and geometry of bounded domains

    CERN Document Server

    Deng, Fusheng; Zhang, Liyou

    2012-01-01

    In this article we continue the study of properties of squeezing functions and geometry of bounded domains. The limit of squeezing functions of a sequence of bounded domains is studied. We give comparisons of intrinsic positive forms and metrics on bounded domains in terms of squeezing functions. To study the boundary behavior of squeezing functions, we introduce the notions of (intrinsic) ball pinching radius, and give boundary estimate of squeezing functions in terms of these datum. Finally, we use these results to study geometric and analytic properties of some interesting domains, including planar domains, Cartan-Hartogs domains, and a strongly pseudoconvex Reinhardt domain which is not convex. As a corollary, all Cartan-Hartogs domains are homogenous regular, i.e., their squeezing functions admit positive lower bounds.

  9. Domain Endurants: An Analysis and Description Process Model

    DEFF Research Database (Denmark)

    Bjørner, Dines

    2014-01-01

    We present a summary, Sect. 2, of a structure of domain analysis and description concepts: techniques and tools. And we link, in Sect. 3, these concepts, embodied in domain analysis prompts and domain description prompts, in a model of how a diligent domain analyser cum describer would use them. ...... claim that both sections, Sects. 2–3, contribute to a methodology of software engineering.......We present a summary, Sect. 2, of a structure of domain analysis and description concepts: techniques and tools. And we link, in Sect. 3, these concepts, embodied in domain analysis prompts and domain description prompts, in a model of how a diligent domain analyser cum describer would use them. We...

  10. Prediction of VH-VL domain orientation for antibody variable domain modeling.

    Science.gov (United States)

    Bujotzek, Alexander; Dunbar, James; Lipsmeier, Florian; Schäfer, Wolfgang; Antes, Iris; Deane, Charlotte M; Georges, Guy

    2015-04-01

    The antigen-binding site of antibodies forms at the interface of their two variable domains, VH and VL, making VH-VL domain orientation a factor that codetermines antibody specificity and affinity. Preserving VH-VL domain orientation in the process of antibody engineering is important in order to retain the original antibody properties, and predicting the correct VH-VL orientation has also been recognized as an important factor in antibody homology modeling. In this article, we present a fast sequence-based predictor that predicts VH-VL domain orientation with Q(2) values ranging from 0.54 to 0.73 on the evaluation set. We describe VH-VL orientation in terms of the six absolute ABangle parameters that have recently been proposed as a means to separate the different degrees of freedom of VH-VL domain orientation. In order to assess the impact of adjusting VH-VL orientation according to our predictions, we use the set of antibody structures of the recently published Antibody Modeling Assessment (AMA) II study. In comparison to the original AMAII homology models, we find an improvement in the accuracy of VH-VL orientation modeling, which also translates into an improvement in the average root-mean-square deviation with regard to the crystal structures.

  11. Effects of sub-domain structure on initial magnetization curve and domain size distribution of stacked media

    Energy Technology Data Exchange (ETDEWEB)

    Sato, S., E-mail: 231504@gmail.com; Kumagai, S.; Sugita, R.

    2015-03-01

    In this paper, in order to confirm the sub-domain structure in stacked media demagnetized with in-plane field, initial magnetization curves and magnetic domain size distribution were investigated. Both experimental and simulation results showed that an initial magnetization curve for the medium demagnetized with in-plane field (MDI) initially rose faster than that for the medium demagnetized with perpendicular field (MDP). It is inferred that this is because the MDI has a larger number of domain walls than the MDP due to the existence of the sub-domains, resulting in an increase in the probability of domain wall motion. Dispersion of domain size for the MDI was larger than that for the MDP. This is because sub-domains are formed not only inside the domain but also at the domain boundary region, and they change the position of the domain boundary to affect the domain size. - Highlights: • An initial magnetization curve for MDI initially rose faster than that for MDP. • Dispersion of domain size for the MDI was larger than that for the MDP. • Experimental and simulation results can be explained by existence of sub-domains.

  12. Between- and within-domain relations of students' academic emotions

    OpenAIRE

    2007-01-01

    The authors investigated between- and within-domain relations of academic emotions, including students' enjoyment, pride, anxiety, anger, and boredom experienced in mathematics, physics, German, and English classes (N = 542; Grades 8 and 11). Corroborating assumptions of domain specificity, the between-domains relations of these emotions were weak and inconsistent. However, there was more domain specificity of academic emotions in Grade 11 students compared with Grade 8 students, suggesting t...

  13. Compassion and professional care: exploring the domain.

    Science.gov (United States)

    van der Cingel, Margreet

    2009-04-01

    Compassion unites people during times of suffering and distress. Unfortunately, compassion cannot take away suffering. Why then, is compassion important for people who suffer? Nurses work in a domain where human suffering is evidently present. In order to give meaning to compassion in the domain of professional care, it is necessary to describe what compassion is. The purpose of this paper is to explore questions and contradictions in the debate on compassion related to nursing care. The paper reviews classical philosophers as well as contemporary scientists' main arguments on compassion. First, I will examine the relationship between compassion and suffering. Second, how does one recognize serious suffering? This issue raises questions about the role of imagination and the need for identification. Third, literature describes compassion as an emotion. Some philosophers consider emotions uncontrollable feelings; others see a clear rational dimension in emotions. In order to determine what compassion is, it is necessary to weigh these contradictional arguments. Fourth, I will discuss motives for compassion. Is compassion an act of altruism or egoism? In this debate Nietzsche and Schopenhauer are well-known opponents. Today, analysis of their arguments leads to some surprising conclusions. Fifth, there is the issue of fault and compassion. Can we only feel compassionate when people who suffer are not to blame for their own suffering? Such a condition faces professional caretakers with a dilemma which needs a thorough analysis if compassion is to be of use in the field of professional care. Finally, I will explore the moral meaning of compassion. Compassion, described as a concept with cognitive as well as affective dimensions, also has volitional and behavioural aspects. These aspects specifically are of importance to nursing care and further research of compassion in the nursing domain.

  14. Nondestructive Evaluation of Aircraft Composites Using Terahertz Time Domain Spectroscopy

    Science.gov (United States)

    2008-12-10

    Taday, P. F., Pepper , M. (2008). Elimination of scattering effects in spectral measurement of granulated materials using terahertz time domain...W., Ferguson , B., Rainsford, T., Mickan, S. P., & Abbott, D. (2005). Material parameter extraction for terahertz time-domain spectroscopy using... Ferguson , B., Rainsford, T., Mickan, S. P., & Abbott, D. (2005). Simple material parameter estimation via terahertz time-domain spectroscopy

  15. Recognition specificity of individual EH domains of mammals and yeast

    DEFF Research Database (Denmark)

    Paoluzi, S; Castagnoli, L; Lauro, I;

    1998-01-01

    by characterizing the peptide-binding preference of 11 different EH domains from mammal and yeast proteins. Ten of the eleven EH domains could bind at least some peptides containing an Asn-Pro-Phe (NPF) motif. By contrast, the first EH domain of End3p preferentially binds peptides containing an His-Thr/Ser-Phe (HT...

  16. On frequency and time domain models of traveling wave tubes

    CERN Document Server

    Théveny, Stéphane; Elskens, Yves

    2016-01-01

    We discuss the envelope modulation assumption of frequency-domain models of traveling wave tubes (TWTs) and test its consistency with the Maxwell equations. We compare the predictions of usual frequency-domain models with those of a new time domain model of the TWT.

  17. Routing protocol extension for resilient GMPLS multi-domain networks

    DEFF Research Database (Denmark)

    Manolova, Anna Vasileva; Ruepp, Sarah Renée; Romeral, Ricardo;

    2010-01-01

    This paper evaluates the performance of multi-domain networks under the Generalized Multi-Protocol Label Switching control framework in case of a single inter-domain link failure. We propose and evaluate a routing protocol extension for the Border Gateway Protocol, which allows domains to obtain ...

  18. Second-harmonic imaging of ferroelectric domain walls

    DEFF Research Database (Denmark)

    Bozhevolnyi, Sergey I.; Hvam, Jørn Märcher; Pedersen, Kjeld;

    1998-01-01

    Domain walls in periodically poled ferroelectric KTiOPO4 and LiNbO3 crystals are observed by making use of second-harmonic (SH) generation enhancement in the transition regions between neighboring domains. SH images of domain walls obtained with various samples for different polarization...

  19. Between- and Within-Domain Relations of Students' Academic Emotions

    Science.gov (United States)

    Goetz, Thomas; Frenzel, Anne C.; Pekrun, Reinhard; Hall, Nathan C.; Ludtke, Oliver

    2007-01-01

    The authors investigated between- and within-domain relations of academic emotions, including students' enjoyment, pride, anxiety, anger, and boredom experienced in mathematics, physics, German, and English classes (N = 542; Grades 8 and 11). Corroborating assumptions of domain specificity, the between-domains relations of these emotions were weak…

  20. ABC transporter architecture and regulatory roles of accessory domains

    NARCIS (Netherlands)

    Biemans-Oldehinkel, E; Doeven, MK; Poolman, B

    2006-01-01

    We present an overview of the architecture of ATP-binding cassette (ABC) transporters and dissect the systems in core and accessory domains. The ABC transporter core is formed by the transmembrane domains (TMDs) and the nucleotide binding domains (NBDs) that constitute the actual translocator. The a

  1. Asymptotic Properties of Unbounded Quadrature Domains in the Plane

    OpenAIRE

    Karp, Lavi

    2013-01-01

    We prove that if $\\Omega$ is a simply connected quadrature domain for a distribution with compact support and the infinity point belongs the boundary, then the boundary has an asymptotic curve that is either a straight line or a parabola or an infinite ray. In other words, unbounded quadrature domains in the plane are perturbations of null quadrature domains.

  2. A global reference model of the domain name system

    NARCIS (Netherlands)

    Koc, Y.; Jamakovic, A.; Gijsen, B.M.M.

    2012-01-01

    The domain name system (DNS) is a crucial component of the Internet. At this time, the DNS is facing major changes such as the introduction of DNSSEC and Internationalized Domain Name extensions (IDNs), the adoption of IPv6 and the upcoming extension of new generic top-level domains. These changes c

  3. A spoken document retrieval application in the oral history domain

    NARCIS (Netherlands)

    Huijbregts, Marijn; Ordelman, Roeland; Jong, de Franciska

    2005-01-01

    The application of automatic speech recognition in the broadcast news domain is well studied. Recognition performance is generally high and accordingly, spoken document retrieval can successfully be applied in this domain, as demonstrated by a number of commercial systems. In other domains, a simila

  4. Conception of Learning Outcomes in the Bloom's Taxonomy Affective Domain

    Science.gov (United States)

    Savickiene, Izabela

    2010-01-01

    The article raises a problematic issue regarding an insufficient base of the conception of learning outcomes in the Bloom's taxonomy affective domain. The search for solutions introduces the conception of teaching and learning in the affective domain as well as presents validity criteria of learning outcomes in the affective domain. The…

  5. Domains involved in TAF15 subcellular localisation

    DEFF Research Database (Denmark)

    Marko, Marija; Vlassis, Arsenios; Guialis, Apostolia

    2012-01-01

    to play important roles in the onset of specific tumours, certain forms of amyotrophic lateral sclerosis (ALS) and frontotemporal lobar degeneration (FTLD). In this study we identified the domains of TAF15 responsible for its subcellular localisation in human (HeLa) cells and experimentally confirmed...... regulated in the HeLa and the neuronal HT22 cell lines and that TAF15 co-localised with a minor subset of RNA granules in the cytoplasm of HT22 cells, supporting a model whereupon TAF15 plays a role in RNA transport and/or local RNA translation....

  6. Location awareness in a mountain rescue domain

    OpenAIRE

    2007-01-01

    The notion of location awareness in a Mountain Rescue domain is critical for the mission coordinator of a Mountain Rescue Team who tries to organize the team and make informed decisions for all its members. The knowledge of location of each member of the team while they are on a mission, could be provided by sending GPS coordinates from a device that each rescue worker would carry, to the server of the team located at its headquarters. The physical characteristics of the Mountain Rescue domai...

  7. Casimir effect in Domain Wall formation

    CERN Document Server

    Setare, M R

    2003-01-01

    The Casimir forces on two parallel plates in conformally flat de Sitter background due to conformally coupled massless scalar field satisfying mixed boundary conditions on the plates is investigated. In the general case of mixed boundary conditions formulae are derived for the vacuum expectation values of the energy-momentum tensor and vacuum forces acting on boundaries. Different cosmological constants are assumed for the space between and outside of the plates to have general results applicable to the case of domain wall formations in the early universe.

  8. Jackson's Theorem on Bounded Symmetric Domains

    Institute of Scientific and Technical Information of China (English)

    Ming Zhi WANG; Guang Bin REN

    2007-01-01

    Polynomial approximation is studied on bounded symmetric domain Ω in C n for holo-morphic function spaces X ,such as Bloch-type spaces,Bergman-type spaces,Hardy spaces,Ω algebra and Lipschitz space.We extend the classical Jackson ’s theorem to several complex variables:E k f,X ) ω (1 /k,f,X ),where E k f,X )is the deviation of the best approximation of f ∈X by polynomials of degree at mostk with respect to the X -metric and ω (1/k,f,X )is the corresponding modulus of continuity.

  9. Electric field domain interface in helical systems

    Energy Technology Data Exchange (ETDEWEB)

    Itoh, Kimitaka; Sanuki, Heiji; Toda, Shinichiro; Yokoyama, Masayuki [National Inst. for Fusion Science, Toki, Gifu (Japan); Itoh, Sanae-I.; Yagi, Masatoshi [Kyushu Univ., Research Institute for Applied Mechanics, Kasuga, Fukuoka (Japan); Fukuyama, Atsushi [Kyoto Univ., Department of Nuclear Engineering, Kyoto (Japan)

    2001-07-01

    The electric field bifurcation in helical plasmas under the condition of continuous fluxes is investigated. The stationary solution of the transport equation, together with charge neutrality condition, is investigated. It is shown that the anomalous flux plays an important role in determining multiple electric field solutions. The transition to the branch with a strong positive electric field occurs when the heat flux exceeds a critical value. Condition for the presence of transition is obtained. The radial structure of the electric field domain interface is obtained. The condition that the suppression of turbulence is expected to occur is discussed. Comparison with experimental observation is briefly mentioned. (author)

  10. Genome architecture: domain organization of interphase chromosomes.

    Science.gov (United States)

    Bickmore, Wendy A; van Steensel, Bas

    2013-03-14

    The architecture of interphase chromosomes is important for the regulation of gene expression and genome maintenance. Chromosomes are linearly segmented into hundreds of domains with different protein compositions. Furthermore, the spatial organization of chromosomes is nonrandom and is characterized by many local and long-range contacts among genes and other sequence elements. A variety of genome-wide mapping techniques have made it possible to chart these properties at high resolution. Combined with microscopy and computational modeling, the results begin to yield a more coherent picture that integrates linear and three-dimensional (3D) views of chromosome organization in relation to gene regulation and other nuclear functions.

  11. Landauer's principle in the quantum domain

    Directory of Open Access Journals (Sweden)

    Eric Lutz

    2010-06-01

    Full Text Available Recent papers discussing thermodynamic processes in strongly coupled quantum systems claim a violation of Landauer's principle and imply a violation of the second law of thermodynamics. If true, this would have powerful consequences. Perpetuum mobiles could be build as long as the operating temperature is brought close to zero. It would also have serious consequences on thermodynamic derivations of information theoretic results, such as the Holevo bound. Here we argue why these claims are erroneous. Correlations occurring in the strongly coupled, quantum domain require a rethink of how entropy, heat and work are calculated. It is shown that a consistent treatment solves the paradox.

  12. Time-domain multiple-quantum NMR

    Energy Technology Data Exchange (ETDEWEB)

    Weitekamp, D.P.

    1982-11-01

    The development of time-domain multiple-quantum nuclear magnetic resonance is reviewed through mid 1982 and some prospects for future development are indicated. Particular attention is given to the problem of obtaining resolved, interpretable, many-quantum spectra for anisotropic magnetically isolated systems of coupled spins. New results are presented on a number of topics including the optimization of multiple-quantum-line intensities, analysis of noise in two-dimensional spectroscopy, and the use of order-selective excitation for cross polarization between nuclear-spin species.

  13. PARTITION PROPERTY OF DOMAIN DECOMPOSITION WITHOUT ELLIPTICITY

    Institute of Scientific and Technical Information of China (English)

    Mo Mu; Yun-qing Huang

    2001-01-01

    Partition property plays a central role in domain decomposition methods. Existing theory essentially assumes certain ellipticity. We prove the partition property for problems without ellipticity which are of practical importance. Example applications include implicit schemes applied to degenerate parabolic partial differential equations arising from superconductors, superfluids and liquid crystals. With this partition property, Schwarz algorithms can be applied to general non-elliptic problems with an h-independent optimal convergence rate. Application to the time-dependent Ginzburg-Landau model of superconductivity is illustrated and numerical results are presented.

  14. Domain-Specific Languages for Enterprise Systems

    DEFF Research Database (Denmark)

    Andersen, Jesper; Bahr, Patrick; Henglein, Fritz;

    2014-01-01

    The process-oriented event-driven transaction systems (POETS) architecture introduced by Henglein et al. is a novel software architecture for enterprise resource planning (ERP) systems. POETS employs a pragmatic separation between (i) transactional data, that is, what has happened; (ii) reports......, that is, what can be derived from the transactional data; and (iii) contracts, that is, which transactions are expected in the future. Moreover, POETS applies domain-specific languages (DSLs) for specifying reports and contracts, in order to enable succinct declarative specifications as well as rapid...

  15. Developmental Disorders as Pathological Resilience Domains

    Directory of Open Access Journals (Sweden)

    Rodrick Wallace

    2008-06-01

    Full Text Available Ecosystem resilience theory permits novel exploration of developmental psychiatric and chronic physical disorders. Structured psychosocial stress, and similar noxious exposures, can write distorted images of themselves onto child growth, and, if sufficiently powerful, adult development as well, initiating a punctuated life course trajectory to characteristic forms of comorbid mind/body dysfunction. For an individual, within the linked network of broadly cognitive psysiological and mental subsystems, this occurs in a manner almost exactly similar to resilience domain shifts affecting a stressed ecosystem, suggesting that reversal or palliation may often be exceedingly difficult. Thus resilience theory may contribute significant new perspectives to the understanding, remediation, and prevention, of these debilitating conditions.

  16. Dental optical coherence domain reflectometry explorer

    Energy Technology Data Exchange (ETDEWEB)

    Everett, Matthew J. (Livermore, CA); Colston, Jr., Billy W. (Livermore, CA); Sathyam, Ujwal S. (Livermore, CA); Da Silva, Luiz B. (Pleasanton, CA)

    2001-01-01

    A hand-held, fiber optic based dental device with optical coherence domain reflectometry (OCDR) sensing capabilities provides a profile of optical scattering as a function of depth in the tissue at the point where the tip of the dental explorer touches the tissue. This system provides information on the internal structure of the dental tissue, which is then used to detect caries and periodontal disease. A series of profiles of optical scattering or tissue microstructure are generated by moving the explorer across the tooth or other tissue. The profiles are combined to form a cross-sectional, or optical coherence tomography (OCT), image.

  17. Transform Domain Fingerprint Identification Based on DTCWT

    Directory of Open Access Journals (Sweden)

    Jossy P. George

    2012-01-01

    Full Text Available The physiological biometric characteristics are better compared to behavioral biometric identification of human beings to identify a person. In this paper, we propose Transform Domain Fingerprint Identification Based on DTCWT. The original Fingerprint is cropped and resized to suitable dimension to apply DTCWT. The DTCWT is applied on Fingerprint to generate coefficient which form features. The performance analysis is discussed with different levels of DTCWT and also with different sizes of Fingerprint database. It is observed that the recognition rate is better in the case of level 7 compared to other levels of DTCWT.

  18. Designing Assistive Technologies for the ADHD Domain

    DEFF Research Database (Denmark)

    Sonne, Tobias; Grønbæk, Kaj

    (ADHD). In this paper, we identify a set of challenges that children with ADHD typically experience, which provides an empirical foundation for pervasive health researchers to address the ADHD domain. The work is grounded in extensive empirical studies and it is contextualized using literature on ADHD....... Based on these studies, we also present lessons learned that are relevant to consider when designing assistive technology to support children with ADHD. Finally, we provide an example (CASTT) of our own work to illustrate how the presented findings can frame research activities and be used to develop...... novel assistive technology to empower children with ADHD and improve their wellbeing....

  19. Extending the Effective Ranging Depth of Spectral Domain Optical Coherence Tomography by Spatial Frequency Domain Multiplexing

    Directory of Open Access Journals (Sweden)

    Tong Wu

    2016-11-01

    Full Text Available We present a spatial frequency domain multiplexing method for extending the imaging depth range of a spectral domain optical coherence tomography (SDOCT system without any expensive device. This method uses two galvo scanners with different pivot-offset distances in two independent reference arms for spatial frequency modulation and multiplexing. The spatial frequency contents corresponding to different depth regions of the sample can be shifted to different frequency bands. The spatial frequency domain multiplexing SDOCT system provides an approximately 1.9-fold increase in the effective ranging depth compared with that of a conventional full-range SDOCT system. The reconstructed images of phantom and biological tissue demonstrate the expected increase in ranging depth. The parameters choice criterion for this method is discussed.

  20. Domain walls, domain wall transformations and structural changes in permalloy nanowires when subjected to current pulses

    Energy Technology Data Exchange (ETDEWEB)

    Hempe, E.M. [Department of Materials Science and Metallurgy, University of Cambridge, Pembroke Street, Cambridge CB2 3QZ (United Kingdom); Department of Physics, Universitaet Regensburg, Universitaetsstrasse 31, 93040 Regensburg (Germany); Klaeui, M.; Krzyk, S.; Ruediger, U. [Fachbereich Physik, Universitaet Konstanz, Universitaetsstrasse 10, 78457 Konstanz (Germany); Kasama, T. [Department of Materials Science and Metallurgy, University of Cambridge, Pembroke Street, Cambridge CB2 3QZ (United Kingdom); Backes, D. [Fachbereich Physik, Universitaet Konstanz, Universitaetsstrasse 10, 78457 Konstanz (Germany); Laboratory for Micro- and Nanotechnology, Paul Scherrer Institut, 5232 Villigen PSI (Switzerland); Junginger, F. [Department of Materials Science and Metallurgy, University of Cambridge, Pembroke Street, Cambridge CB2 3QZ (United Kingdom); Fachbereich Physik, Universitaet Konstanz, Universitaetsstrasse 10, 78457 Konstanz (Germany); Heyderman, L.J. [Laboratory for Micro- and Nanotechnology, Paul Scherrer Institut, 5232 Villigen PSI (Switzerland); Dunin-Borkowski, R. [Department of Materials Science and Metallurgy, University of Cambridge, Pembroke Street, Cambridge CB2 3QZ (United Kingdom); Center for Electron Nanoscopy, DTU (Denmark)

    2007-12-15

    We report the direct transmission electron microscopy observation of spin structure transformations in nanoscale Permalloy zigzag wires due to Joule heating during the injection of current pulses. This heating is sufficient to overcome the energy barriers separating the different metastable domain wall spin structures. Due to the large energy barriers these are stable and observable at room temperature by off-axis electron holography and Fresnel imaging. The interaction between different domain walls is probed and the main pinning mechanism is determined to be the edge roughness. In addition to transformations, we also report on thermally assisted domain wall hopping between two pinning sites and structural changes that occur when the samples are subjected to even higher current pulses. (copyright 2008 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim) (orig.)

  1. Numerical methods for time-domain and frequency-domain analysis: applications in engineering

    Science.gov (United States)

    Tamas, R. D.

    2015-11-01

    Numerical methods are widely used for modeling different physical phenomena in engineering, especially when an analytic approach is not possible. Time-domain or frequency- domain type variations are generally investigated, depending on the nature of the process under consideration. Some methods originate from mechanics, although most of their applications belong to other fields, such as electromagnetism. Conversely, other methods were firstly developed for electromagnetism, but their field of application was extended to other fields. This paper presents some results that we have obtained by using a general purpose method for solving linear equations, i.e., the method of moments (MoM), and a time-domain method derived for electromagnetism, i.e., the Transmission Line Matrix method (TLM).

  2. A review of time-domain and frequency-domain component mode synthesis method

    Science.gov (United States)

    Craig, R. R., Jr.

    1985-01-01

    Hurty (1965) has conducted a dynamic analysis of structural systems using component modes. The component mode synthesis (CMS) procedure considered by him represents a form of substructure coupling analysis which is often utilized in structural dynamics. Time-domain CMS methods employing real modes are discussed, taking into account real component modes, normal modes, redundant constraint modes, rigid-body modes, attachment modes, inertia-relief modes, statically-complete interface mode sets, dynamic component mode supersets, component modal models, the coupling of components, and the classification of methods. Attention is also given to the experimental determination of component mode synthesis parameters, time-domain CMS methods for damped systems, and frequency-domain CMS methods for damped systems.

  3. A Highly Accurate Regular Domain Collocation Method for Solving Potential Problems in the Irregular Doubly Connected Domains

    Directory of Open Access Journals (Sweden)

    Zhao-Qing Wang

    2014-01-01

    Full Text Available Embedding the irregular doubly connected domain into an annular regular region, the unknown functions can be approximated by the barycentric Lagrange interpolation in the regular region. A highly accurate regular domain collocation method is proposed for solving potential problems on the irregular doubly connected domain in polar coordinate system. The formulations of regular domain collocation method are constructed by using barycentric Lagrange interpolation collocation method on the regular domain in polar coordinate system. The boundary conditions are discretized by barycentric Lagrange interpolation within the regular domain. An additional method is used to impose the boundary conditions. The least square method can be used to solve the overconstrained equations. The function values of points in the irregular doubly connected domain can be calculated by barycentric Lagrange interpolation within the regular domain. Some numerical examples demonstrate the effectiveness and accuracy of the presented method.

  4. Feasibility and Domain Validation of Rheumatoid Arthritis (RA) Flare Core Domain Set

    DEFF Research Database (Denmark)

    Bartlett, Susan J; Bykerk, Vivian P; Cooksey, Roxanne;

    2015-01-01

    trials, with similar results. Breakout groups debated specific measurement issues. CONCLUSION: These data contribute initial evidence of feasibility and content validation of the OMERACT RA Flare Core Domain Set. Our research agenda for OMERACT 2016 includes establishing duration/intensity criteria...... (2012) were described based on initial data from 3 international studies collected using a common set of questions specific to RA flare. Mean flare frequency, severity, and duration data were presented, and domain scores were compared by flare status to examine known-groups validity. Breakout groups...

  5. Recovering protein-protein and domain-domain interactions from aggregation of IP-MS proteomics of coregulator complexes.

    Directory of Open Access Journals (Sweden)

    Amin R Mazloom

    2011-12-01

    Full Text Available Coregulator proteins (CoRegs are part of multi-protein complexes that transiently assemble with transcription factors and chromatin modifiers to regulate gene expression. In this study we analyzed data from 3,290 immuno-precipitations (IP followed by mass spectrometry (MS applied to human cell lines aimed at identifying CoRegs complexes. Using the semi-quantitative spectral counts, we scored binary protein-protein and domain-domain associations with several equations. Unlike previous applications, our methods scored prey-prey protein-protein interactions regardless of the baits used. We also predicted domain-domain interactions underlying predicted protein-protein interactions. The quality of predicted protein-protein and domain-domain interactions was evaluated using known binary interactions from the literature, whereas one protein-protein interaction, between STRN and CTTNBP2NL, was validated experimentally; and one domain-domain interaction, between the HEAT domain of PPP2R1A and the Pkinase domain of STK25, was validated using molecular docking simulations. The scoring schemes presented here recovered known, and predicted many new, complexes, protein-protein, and domain-domain interactions. The networks that resulted from the predictions are provided as a web-based interactive application at http://maayanlab.net/HT-IP-MS-2-PPI-DDI/.

  6. Exploring Domain-General and Domain-Specific Linguistic Knowledge in the Assessment of Academic English Language Proficiency

    Science.gov (United States)

    Romhild, Anja; Kenyon, Dorry; MacGregor, David

    2011-01-01

    This study examined the role of domain-general and domain-specific linguistic knowledge in the assessment of academic English language proficiency using a latent variable modeling approach. The goal of the study was to examine if modeling of domain-specific variance results in improved model fit and well-defined latent factors. Analyses were…

  7. Domain-General and Domain-Specific Creative-Thinking Tests: Effects of Gender and Item Content on Test Performance

    Science.gov (United States)

    Hong, Eunsook; Peng, Yun; O'Neil, Harold F., Jr.; Wu, Junbin

    2013-01-01

    The study examined the effects of gender and item content of domain-general and domain-specific creative-thinking tests on four subscale scores of creative-thinking (fluency, flexibility, originality, and elaboration). Chinese tenth-grade students (234 males and 244 females) participated in the study. Domain-general creative thinking was measured…

  8. Peer Review-Based Scripted Collaboration to Support Domain-Specific and Domain-General Knowledge Acquisition in Computer Science

    Science.gov (United States)

    Demetriadis, Stavros; Egerter, Tina; Hanisch, Frank; Fischer, Frank

    2011-01-01

    This study investigates the effectiveness of using peer review in the context of scripted collaboration to foster both domain-specific and domain-general knowledge acquisition in the computer science domain. Using a one-factor design with a script and a control condition, students worked in small groups on a series of computer science problems…

  9. Natural Language Question Answering in Open Domains

    Directory of Open Access Journals (Sweden)

    Dan Tufis

    2011-10-01

    Full Text Available With the ever-growing volume of information on the web, the traditional search engines, returning hundreds or thousands of documents per query, become more and more demanding on the user patience in satisfying his/her information needs. Question Answering in Open Domains is a top research and development topic in current language technology. Unlike the standard search engines, based on the latest Information Retrieval (IR methods, open domain question-answering systems are expected to deliver not a list of documents that might be relevant for the user's query, but a sentence or a paragraph answering the question asked in natural language. This paper reports on the construction and testing of a Question Answering (QA system which builds on several web services developed at the Research Institute for Artificial Intelligence (ICIA/RACAI. The evaluation of the system has been independently done by the organizers of the ResPubliQA 2009 exercise and has been rated the best performing system with the highest improvement due to the natural language processing technology over a baseline state-of-the-art IR system. The system was trained on a specific corpus, but its functionality is independent on the linguistic register of the training data.

  10. Characterization of Amyloid Cores in Prion Domains

    Science.gov (United States)

    Sant’Anna, Ricardo; Fernández, Maria Rosario; Batlle, Cristina; Navarro, Susanna; de Groot, Natalia S.; Serpell, Louise; Ventura, Salvador

    2016-01-01

    Amyloids consist of repetitions of a specific polypeptide chain in a regular cross-β-sheet conformation. Amyloid propensity is largely determined by the protein sequence, the aggregation process being nucleated by specific and short segments. Prions are special amyloids that become self-perpetuating after aggregation. Prions are responsible for neuropathology in mammals, but they can also be functional, as in yeast prions. The conversion of these last proteins to the prion state is driven by prion forming domains (PFDs), which are generally large, intrinsically disordered, enriched in glutamines/asparagines and depleted in hydrophobic residues. The self-assembly of PFDs has been thought to rely mostly on their particular amino acid composition, rather than on their sequence. Instead, we have recently proposed that specific amyloid-prone sequences within PFDs might be key to their prion behaviour. Here, we demonstrate experimentally the existence of these amyloid stretches inside the PFDs of the canonical Sup35, Swi1, Mot3 and Ure2 prions. These sequences self-assemble efficiently into highly ordered amyloid fibrils, that are functionally competent, being able to promote the PFD amyloid conversion in vitro and in vivo. Computational analyses indicate that these kind of amyloid stretches may act as typical nucleating signals in a number of different prion domains. PMID:27686217

  11. SEMANTIC INFORMATION EXTRACTION IN UNIVERSITY DOMAIN

    Directory of Open Access Journals (Sweden)

    Swathi

    2012-07-01

    Full Text Available Today’s conventional search engines hardly do provide the essential content relevant to the user’s search query. This is because the context and semantics of the request made by the user is not analyzed to the full extent. So here the need for a semantic web search arises. SWS is upcoming in the area of web search which combines Natural Language Processing and Artificial Intelligence. The objective of the work done here is to design, develop and implement a semantic search engine- SIEU(Semantic Information Extraction in University Domain confined to the university domain. SIEU uses ontology as a knowledge base for the information retrieval process. It is not just a mere keyword search. It is one layer above what Google or any other search engines retrieve by analyzing just the keywords. Here the query is analyzed both syntactically and semantically. The developed system retrieves the web results more relevant to the user query through keyword expansion. The results obtained here will be accurate enough to satisfy the request made by the user. The level of accuracy will be enhanced since the query is analyzed semantically. The system will be of great use to the developers and researchers who work on web. The Google results are re-ranked and optimized for providing the relevant links. For ranking an algorithm has been applied which fetches more apt results for the user query.

  12. Hydrology Domain Cyberinfrastructures: Successes, Challenges, and Opportunities

    Science.gov (United States)

    Horsburgh, J. S.

    2015-12-01

    Anticipated changes to climate, human population, land use, and urban form will alter the hydrology and availability of water within the water systems on which the world's population relies. Understanding the effects of these changes will be paramount in sustainably managing water resources, as well as maintaining associated capacity to provide ecosystem services (e.g., regulating flooding, maintaining instream flow during dry periods, cycling nutrients, and maintaining water quality). It will require better information characterizing both natural and human mediated hydrologic systems and enhanced ability to generate, manage, store, analyze, and share growing volumes of observational data. Over the past several years, a number of hydrology domain cyberinfrastructures have emerged or are currently under development that are focused on providing integrated access to and analysis of data for cross-domain synthesis studies. These include the Consortium of Universities for the Advancement of Hydrologic Science, Inc. (CUAHSI) Hydrologic Information System (HIS), the Critical Zone Observatory Information System (CZOData), HyroShare, the BiG CZ software system, and others. These systems have focused on sharing, integrating, and analyzing hydrologic observations data. This presentation will describe commonalities and differences in the cyberinfrastructure approaches used by these projects and will highlight successes and lessons learned in addressing the challenges of big and complex data. It will also identify new challenges and opportunities for next generation cyberinfrastructure and a next generation of cyber-savvy scientists and engineers as developers and users.

  13. RING domains: master builders of molecular scaffolds?

    Science.gov (United States)

    Borden, K L

    2000-02-04

    Intense interest in the RING domain has arisen because of its widespread occurrence and involvement in human disease. Several intriguing characteristics evident from the study of this cysteine-rich, zinc-binding domain have made it difficult to establish a single defining biochemical function for RINGs. These proteins are found throughout the cell and mediate diverse cellular processes, e.g. oncogenesis, apoptosis, development and viral infection. Recent developments indicate that RING-mediated protein interactions are critical for transcriptional repression and for ubiquitination. These data are in addition to previously established functions for RINGs in RNA processing, cell-cycle control and peroxisomal biogenesis, to name a few. At first glance, there appears to be little to link such disparate actions. Collectively, these results suggest that RINGs function in formation and architecture of large protein complexes that contribute to diverse cellular processes. Here, new developments, in the context of previous results, are discussed in an attempt to establish a unifying theory for RING function.

  14. Irregular Homogeneity Domains in Ternary Intermetallic Systems

    Directory of Open Access Journals (Sweden)

    Jean-Marc Joubert

    2015-12-01

    Full Text Available Ternary intermetallic A–B–C systems sometimes have unexpected behaviors. The present paper examines situations in which there is a tendency to simultaneously form the compounds ABx, ACx and BCx with the same crystal structure. This causes irregular shapes of the phase homogeneity domains and, from a structural point of view, a complete reversal of site occupancies for the B atom when crossing the homogeneity domain. This work reviews previous studies done in the systems Fe–Nb–Zr, Hf–Mo–Re, Hf–Re–W, Mo–Re–Zr, Re–W–Zr, Cr–Mn–Si, Cr–Mo–Re, and Mo–Ni–Re, and involving the topologically close-packed Laves, χ and σ phases. These systems have been studied using ternary isothermal section determination, DFT calculations, site occupancy measurement using joint X-ray, and neutron diffraction Rietveld refinement. Conclusions are drawn concerning this phenomenon. The paper also reports new experimental or calculated data on Co–Cr–Re and Fe–Nb–Zr systems.

  15. Ferroelectric domain dynamics under an external field

    Science.gov (United States)

    Rappe, Andrew; Shin, Young-Han; Grinberg, Ilya; Chen, I.-Wei

    2007-03-01

    Ferroelectric oxides with the perovskite structure are promising materials for nonvolatile random access computer memories. PbZr1-xTixO3 is currently used for this purpose. In these materials, storage of a bit involves the reorientation of polarization, or the movement of a ferroelectric domain wall. However, the intrinsic properties of the polarization reversal process of ferroelectrics at the microscopic level still have not been revealed, either by experiments or computations. In this talk, I will show how this problem can be studied with a multi-scale approach. First, an interatomic potential is parameterized to first-principles calculations, and molecular dynamics (MD) simulations are performed. Second, stochastic Monte Carlo simulations are conducted, with nucleation and growth rates extracted from the MD simulations. For PbTiO3, we find that while the overall domain-wall speed from our calculation is in good agreement with the recent experiments, the size of the critical nucleus is much smaller than predicted from the Miller-Weinreich model. We think that this discrepancy can be explained by a diffuse-boundary model and by the fact that the overall wall motion is controlled by both the nucleation and growth processes.

  16. Microdissection of shoot meristem functional domains.

    Directory of Open Access Journals (Sweden)

    Lionel Brooks

    2009-05-01

    Full Text Available The shoot apical meristem (SAM maintains a pool of indeterminate cells within the SAM proper, while lateral organs are initiated from the SAM periphery. Laser microdissection-microarray technology was used to compare transcriptional profiles within these SAM domains to identify novel maize genes that function during leaf development. Nine hundred and sixty-two differentially expressed maize genes were detected; control genes known to be upregulated in the initiating leaf (P0/P1 or in the SAM proper verified the precision of the microdissections. Genes involved in cell division/growth, cell wall biosynthesis, chromatin remodeling, RNA binding, and translation are especially upregulated in initiating leaves, whereas genes functioning during protein fate and DNA repair are more abundant in the SAM proper. In situ hybridization analyses confirmed the expression patterns of six previously uncharacterized maize genes upregulated in the P0/P1. P0/P1-upregulated genes that were also shown to be downregulated in leaf-arrested shoots treated with an auxin transport inhibitor are especially implicated to function during early events in maize leaf initiation. Reverse genetic analyses of asceapen1 (asc1, a maize D4-cyclin gene upregulated in the P0/P1, revealed novel leaf phenotypes, less genetic redundancy, and expanded D4-CYCLIN function during maize shoot development as compared to Arabidopsis. These analyses generated a unique SAM domain-specific database that provides new insight into SAM function and a useful platform for reverse genetic analyses of shoot development in maize.

  17. Formal Ontology: Foundation of Domain Knowledge Sharing and Reusing

    Institute of Scientific and Technical Information of China (English)

    陆汝钤; 金芝

    2002-01-01

    Domain analysis is the activity of identifying and representing the relevantinformation in a domain, so that the information can be shared and reused in similar systems.But until now, no efficient approaches are available for capturing and representing the results ofdomain analysis and then for sharing and reusing the domain knowledge. This paper proposesan ontology-oriented approach for formalizing the domain models. The architecture for themultiple-layer structure of the domain knowledge base is also discussed. And finally, somegenetic algorithm-based methods have been given for supporting the knowledge sharing andreusing.

  18. Effects of Landau-Lifshitz-Gilbert damping on domain growth.

    Science.gov (United States)

    Kudo, Kazue

    2016-12-01

    Domain patterns are simulated by the Landau-Lifshitz-Gilbert (LLG) equation with an easy-axis anisotropy. If the Gilbert damping is removed from the LLG equation, it merely describes the precession of magnetization with a ferromagnetic interaction. However, even without the damping, domains that look similar to those of scalar fields are formed, and they grow with time. It is demonstrated that the damping has no significant effects on domain growth laws and large-scale domain structure. In contrast, small-scale domain structure is affected by the damping. The difference in small-scale structure arises from energy dissipation due to the damping.

  19. A Time Domain Algorithm on the Reconstruction of Rough Surfaces

    Institute of Scientific and Technical Information of China (English)

    REN Yu-Chao; GUO Li-Xin; WU Zhen-Sen

    2007-01-01

    We consider the inverse scattering problem of a perfectly conducting one-dimensional rough surface in the case that the incident field is unnecessary to be time harmonic. Based on our previous investigation of the frequency domain algorithm, a new time domain algorithm is proposed, in which we approximate the incident pulse by a finite sum of time harmonic fields and then apply the frequency domain algorithm for time harmonic waves.Numerical experiments indicate that the time domain algorithm shows great accuracy of reconstruction of the surface profile and yields significant improvement than the frequency domain algorithm.

  20. Effects of Landau-Lifshitz-Gilbert damping on domain growth

    Science.gov (United States)

    Kudo, Kazue

    2016-12-01

    Domain patterns are simulated by the Landau-Lifshitz-Gilbert (LLG) equation with an easy-axis anisotropy. If the Gilbert damping is removed from the LLG equation, it merely describes the precession of magnetization with a ferromagnetic interaction. However, even without the damping, domains that look similar to those of scalar fields are formed, and they grow with time. It is demonstrated that the damping has no significant effects on domain growth laws and large-scale domain structure. In contrast, small-scale domain structure is affected by the damping. The difference in small-scale structure arises from energy dissipation due to the damping.

  1. Structural and functional analysis of multi-interface domains.

    Directory of Open Access Journals (Sweden)

    Liang Zhao

    Full Text Available A multi-interface domain is a domain that can shape multiple and distinctive binding sites to contact with many other domains, forming a hub in domain-domain interaction networks. The functions played by the multiple interfaces are usually different, but there is no strict bijection between the functions and interfaces as some subsets of the interfaces play the same function. This work applies graph theory and algorithms to discover fingerprints for the multiple interfaces of a domain and to establish associations between the interfaces and functions, based on a huge set of multi-interface proteins from PDB. We found that about 40% of proteins have the multi-interface property, however the involved multi-interface domains account for only a tiny fraction (1.8% of the total number of domains. The interfaces of these domains are distinguishable in terms of their fingerprints, indicating the functional specificity of the multiple interfaces in a domain. Furthermore, we observed that both cooperative and distinctive structural patterns, which will be useful for protein engineering, exist in the multiple interfaces of a domain.

  2. Domain Adaptation for Opinion Classification: A Self-Training Approach

    Directory of Open Access Journals (Sweden)

    Yu, Ning

    2013-03-01

    Full Text Available Domain transfer is a widely recognized problem for machine learning algorithms because models built upon one data domain generally do not perform well in another data domain. This is especially a challenge for tasks such as opinion classification, which often has to deal with insufficient quantities of labeled data. This study investigates the feasibility of self-training in dealing with the domain transfer problem in opinion classification via leveraging labeled data in non-target data domain(s and unlabeled data in the target-domain. Specifically, self-training is evaluated for effectiveness in sparse data situations and feasibility for domain adaptation in opinion classification. Three types of Web content are tested: edited news articles, semi-structured movie reviews, and the informal and unstructured content of the blogosphere. Findings of this study suggest that, when there are limited labeled data, self-training is a promising approach for opinion classification, although the contributions vary across data domains. Significant improvement was demonstrated for the most challenging data domain-the blogosphere-when a domain transfer-based self-training strategy was implemented.

  3. Structure of the human Nac1 POZ domain.

    Science.gov (United States)

    Stead, Mark A; Carr, Stephen B; Wright, Stephanie C

    2009-05-01

    Nac1 is a POZ-domain transcription factor that is involved in the self-renewal of embryonic stem cells. It is overexpressed in ovarian serous carcinoma and targeting the interactions of its POZ domain is a potential therapeutic strategy. Nac1 lacks a zinc-finger DNA-binding domain and thereby differs from most other POZ-domain transcription factors. Here, the crystal structure of the Nac1 POZ domain at 2.1 A resolution is reported. The Nac1 POZ domain crystallized as a dimer in which the interaction interfaces between subunits resemble those found in the POZ-zinc finger transcription factors. The organization of the Nac1 POZ-domain core resembles reported POZ-domain structures, whereas the C-terminus differs markedly. The C-terminal alpha-helix of the Nac1 POZ domain is shorter than that observed in most other POZ-domain transcription factors; variation in the organization of this region may be a general feature of POZ-domain structures.

  4. Origin of stationary domain wall enhanced ferroelectric susceptibility

    Science.gov (United States)

    Liu, Shi; Cohen, R. E.

    2017-03-01

    Ferroelectrics usually adopt a multidomain state with domain walls separating domains with polarization axes oriented differently. It has long been recognized that domain walls can dramatically impact the properties of ferroelectric materials. The enhancement of low-field susceptibility/permittivity under subswitching conditions is usually attributed to reversible domain wall vibration. Recent experiments highlight the stationary domain wall contribution to the dielectric susceptibility irrespective of any lateral displacements or deformations of the wall. We study the effects of domain walls on the low-field permittivity of PbTiO3 with density functional theory and molecular dynamics simulations. The static dielectric constant is calculated as a function of increasing domain wall density and temperature. We find an increase of dielectric permittivity with increasing domain wall density, which is expected to occur at a low driving field where the lateral motion of domain walls is forbidden. Real-space decomposition of the dielectric response reveals that frustrated dipoles within the finite width of the domain walls are responsible for the enhanced low-field permittivity. We explain the 100 % enhancement of the dielectric susceptibility form domain walls, which arises from the softer potential wells within them.

  5. Bilayer thickness mismatch controls domain size in biomimetic membranes

    Science.gov (United States)

    Heberle, Frederick A.; Petruzielo, Robin S.; Pan, Jianjun; Drazba, Paul; Kučerka, Norbert; Standaert, Robert F.; Feigenson, Gerald W.; Katsara, John

    2013-03-01

    In order to promote functionality, cells may alter the spatial organization of membrane lipids and proteins, including separation of liquid phases into distinct domains. In model membranes, domain size and morphology depend strongly on composition and temperature, but the physicochemical mechanisms controlling them are poorly understood. Theoretical work suggests a role for interfacial energy at domain boundaries, which may be driven in part by thickness mismatch between a domain and its surrounding bilayer. However, no direct evidence linking thickness mismatch to domain size in free-standing bilayers has been reported. We describe the use of Small Angle Neutron Scattering (SANS) to detect domains in simplified lipid-only models that mimic the composition of plasma membrane. We find that domain size is controlled by the degree of acyl chain unsaturation of low-melting temperature lipids, and that this size transition is correlated to changes in the thickness mismatch between coexisting liquid phases.

  6. Syntactic-semantic treebank for domain ontology creation

    Directory of Open Access Journals (Sweden)

    Petya Osenova

    2015-11-01

    Full Text Available Syntactic-semantic treebank for domain ontology creation This paper focuses on the creation of a domain treebank for the purposes of compiling a domain ontology. The domain treebank is viewed as a suitable resource for extracting of semantic relations from syntactic structures. First, the steps for ontology building are considered. Then, the processing over glossaries and standards is described with regard to their syntactic annotation. The utility of deriving semantic knowledge from the Treebank is also illustrated via the basic phrases. The idea is that the domain knowledge is represented in the domain data, but via treebanking more linguistic patterns can be extracted, which to be mapped to concepts and relations in a domain ontology.

  7. Collaboration Schemes Evaluation in Multi-domain Networks

    Directory of Open Access Journals (Sweden)

    Aymen Belghith

    2012-07-01

    Full Text Available The monitoring of the quality of service in a multi-domain network supervises the multi-domain service performance. A multi-domain service is a service that crosses several domains which can be managed by different providers. Since each domain can be managed with its own policies and may require confidentiality of its topology and its monitoring processes, we propose that the monitoring architecture has to be configurable. In this paper, we propose two collaboration schemes that are based on the reactive and the proactive modes. Both of collaboration schemes allow the multi-domain monitoring architecture to select the measurement points that will participate in the multi-domain monitoring and to configure the selected measurement points. In this paper, we present our proposed collaboration schemes and then we evaluate their performance through extensive simulations using Network Simulator (NS-2.

  8. Localization of Laplacian eigenfunctions in circular, spherical and elliptical domains

    CERN Document Server

    Nguyen, Binh-Thanh

    2012-01-01

    We consider Laplacian eigenfunctions in circular, spherical and elliptical domains in order to discuss three kinds of high-frequency localization: whispering gallery modes, bouncing ball modes, and focusing modes. Although the existence of these modes was known for a class of convex domains, the separation of variables for above domains helps to better understand the "mechanism" of localization, i.e. how an eigenfunction is getting distributed in a small region of the domain, and decays rapidly outside this region. Using the properties of Bessel and Mathieu functions, we derive the inequalities which imply and clearly illustrate localization. Moreover, we provide an example of a non-convex domain (an elliptical annulus) for which the high-frequency localized modes are still present. At the same time, we show that there is no localization in most of rectangle-like domains. This observation leads us to formulating an open problem of localization in polygonal domains and, more generally, in piecewise smooth conv...

  9. Efficient water table evolution discretization using domain transformation

    DEFF Research Database (Denmark)

    Boon, W. M.; Balbarini, Nicola; Binning, Philip John

    2017-01-01

    Domain transformation methods are useful techniques for solving problems on non-stationary domains. In this work, we consider the evolution of the water table in an unconfined aquifer. This nonlinear, time-dependent problem is greatly simplified by using a mapping from the physical domain to a re...... to a reference domain and is then further reduced to a single, (nonlinear) partial differential equation. We show well-posedness of the approach and propose a stable and convergent discretization scheme. Numerical results are presented supporting the theory.......Domain transformation methods are useful techniques for solving problems on non-stationary domains. In this work, we consider the evolution of the water table in an unconfined aquifer. This nonlinear, time-dependent problem is greatly simplified by using a mapping from the physical domain...

  10. The architectural design of networks of protein domain architectures.

    Science.gov (United States)

    Hsu, Chia-Hsin; Chen, Chien-Kuo; Hwang, Ming-Jing

    2013-08-23

    Protein domain architectures (PDAs), in which single domains are linked to form multiple-domain proteins, are a major molecular form used by evolution for the diversification of protein functions. However, the design principles of PDAs remain largely uninvestigated. In this study, we constructed networks to connect domain architectures that had grown out from the same single domain for every single domain in the Pfam-A database and found that there are three main distinctive types of these networks, which suggests that evolution can exploit PDAs in three different ways. Further analysis showed that these three different types of PDA networks are each adopted by different types of protein domains, although many networks exhibit the characteristics of more than one of the three types. Our results shed light on nature's blueprint for protein architecture and provide a framework for understanding architectural design from a network perspective.

  11. Transcription factors interacting with herpes simplex virus alpha gene promoters in sensory neurons.

    Science.gov (United States)

    Hagmann, M; Georgiev, O; Schaffner, W; Douville, P

    1995-01-01

    Interference with VP16-mediated activation of herpes virus immediate-early (or alpha) genes is thought to be the major cause of establishing viral latency in sensory neurons. This could be brought about by lack of a key activating transcription factor(s) or active repression. In this study we find that sensory neurons express all important components for VP16-mediated alpha gene induction, such as the POU transcription factor Oct-1, host cell factor (HCF) and GABP alpha/beta. However, Oct-1 and GABP alpha/beta are only present at low levels and the VP16-induced complex (VIC) appears different. We do not find protein expression of the transcription factor Oct-2, implicated by others as an alpha gene repressor. The POU factor N-Oct3 (Brn 2 or POU3F2) is also present in sensory neurons and binds viral TAATGARAT motifs with higher affinity than Oct-1, indicating that it may be a candidate repressor for competitive binding to TAATGARAT motifs. When transfected into HeLa cells, where Oct-1 and GABP alpha/beta are highly abundant, N-Oct3 represses model promoters with multimerized TAATGARAT motifs, but fails to repress complete alpha gene promoters. Taken together our findings suggest that modulation of alpha gene promoters could contribute to viral latency when low concentrations of the activating transcription factors Oct-1 and GABP alpha/beta prevail. Our data, however, refute the notion that competing Oct factors are able to block alpha gene transcription to achieve viral latency. Images PMID:8559654

  12. Conformational instability of the MARK3 UBA domain compromises ubiquitin recognition and promotes interaction with the adjacent kinase domain

    Energy Technology Data Exchange (ETDEWEB)

    Murphy, James M.; Korzhnev, Dmitry M.; Ceccarelli, Derek F.; Briant, Douglas J.; Zarrine-Afsar, Arash; Sicheri, Frank; Kay, Lewis E.; Pawson, Tony (Mount Sinai Hospital); (Toronto)

    2012-10-23

    The Par-1/MARK protein kinases play a pivotal role in establishing cellular polarity. This family of kinases contains a unique domain architecture, in which a ubiquitin-associated (UBA) domain is located C-terminal to the kinase domain. We have used a combination of x-ray crystallography and NMR dynamics experiments to understand the interaction of the human (h) MARK3 UBA domain with the adjacent kinase domain as compared with ubiquitin. The x-ray crystal structure of the linked hMARK3 kinase and UBA domains establishes that the UBA domain forms a stable intramolecular interaction with the N-terminal lobe of the kinase domain. However, solution-state NMR studies of the isolated UBA domain indicate that it is highly dynamic, undergoing conformational transitions that can be explained by a folding-unfolding equilibrium. NMR titration experiments indicated that the hMARK3 UBA domain has a detectable but extremely weak affinity for mono ubiquitin, which suggests that conformational instability of the isolated hMARK3 UBA domain attenuates binding to ubiquitin despite the presence of residues typically involved in ubiquitin recognition. Our data identify a molecular mechanism through which the hMARK3 UBA domain has evolved to bind the kinase domain, in a fashion that stabilizes an open conformation of the N- and C-terminal lobes, at the expense of its capacity to engage ubiquitin. These results may be relevant more generally to the 30% of UBA domains that lack significant ubiquitin-binding activity, and they suggest a unique mechanism by which interaction domains may evolve new binding properties.

  13. Transport processes in mixed conducting oxides: combining time domain experiments and frequency domain analysis

    NARCIS (Netherlands)

    Boukamp, Bernard A.; Otter, den Matthijs W.; Bouwmeester, Henny J.M.

    2004-01-01

    The conductivity relaxation (CR) method is often used for measuring the surface transfer rate, Ktr, and the bulk diffusion coefficient, $$\\tilde{D},$$ for oxygen transport in mixed conducting oxides (MIECs). The time domain analysis of the obtained CR response is rather complex and is based on lsquo

  14. Examining the Domain-Specificity of Metacognition Using Academic Domains and Task-Specific Individual Differences

    Science.gov (United States)

    Scott, Brianna M.; Berman, Ashleigh F.

    2013-01-01

    Metacognition refers to students' knowledge and regulation of cognition, as well as their accuracy in predicting their academic performance. This study addressed two major questions: 1) how do metacognitive knowledge, regulation and accuracy differ across domains?, and 2) how do students' individual differences relate to their reported…

  15. Millimeter wave imaging system modeling: spatial frequency domain calculation versus spatial domain calculation.

    Science.gov (United States)

    Qi, Feng; Tavakol, Vahid; Ocket, Ilja; Xu, Peng; Schreurs, Dominique; Wang, Jinkuan; Nauwelaers, Bart

    2010-01-01

    Active millimeter wave imaging systems have become a promising candidate for indoor security applications and industrial inspection. However, there is a lack of simulation tools at the system level. We introduce and evaluate two modeling approaches that are applied to active millimeter wave imaging systems. The first approach originates in Fourier optics and concerns the calculation in the spatial frequency domain. The second approach is based on wave propagation and corresponds to calculation in the spatial domain. We compare the two approaches in the case of both rough and smooth objects and point out that the spatial frequency domain calculation may suffer from a large error in amplitude of 50% in the case of rough objects. The comparison demonstrates that the concepts of point-spread function and f-number should be applied with careful consideration in coherent millimeter wave imaging systems. In the case of indoor applications, the near-field effect should be considered, and this is included in the spatial domain calculation.

  16. Communicating oscillatory networks: frequency domain analysis

    Directory of Open Access Journals (Sweden)

    Ihekwaba Adaoha EC

    2011-12-01

    Full Text Available Abstract Background Constructing predictive dynamic models of interacting signalling networks remains one of the great challenges facing systems biology. While detailed dynamical data exists about individual pathways, the task of combining such data without further lengthy experimentation is highly nontrivial. The communicating links between pathways, implicitly assumed to be unimportant and thus excluded, are precisely what become important in the larger system and must be reinstated. To maintain the delicate phase relationships between signals, signalling networks demand accurate dynamical parameters, but parameters optimised in isolation and under varying conditions are unlikely to remain optimal when combined. The computational burden of estimating parameters increases exponentially with increasing system size, so it is crucial to find precise and efficient ways of measuring the behaviour of systems, in order to re-use existing work. Results Motivated by the above, we present a new frequency domain-based systematic analysis technique that attempts to address the challenge of network assembly by defining a rigorous means to quantify the behaviour of stochastic systems. As our focus we construct a novel coupled oscillatory model of p53, NF-kB and the mammalian cell cycle, based on recent experimentally verified mathematical models. Informed by online databases of protein networks and interactions, we distilled their key elements into simplified models containing the most significant parts. Having coupled these systems, we constructed stochastic models for use in our frequency domain analysis. We used our new technique to investigate the crosstalk between the components of our model and measure the efficacy of certain network-based heuristic measures. Conclusions We find that the interactions between the networks we study are highly complex and not intuitive: (i points of maximum perturbation do not necessarily correspond to points of maximum

  17. The domain interface method in non-conforming domain decomposition multifield problems

    Science.gov (United States)

    Lloberas-Valls, O.; Cafiero, M.; Cante, J.; Ferrer, A.; Oliver, J.

    2017-04-01

    The Domain Interface Method (DIM) is extended in this contribution for the case of mixed fields as encountered in multiphysics problems. The essence of the non-conforming domain decomposition technique consists in a discretization of a fictitious zero-thickness interface as in the original methodology and continuity of the solution fields across the domains is satisfied by incorporating the corresponding Lagrange Multipliers. The multifield DIM inherits the advantages of its irreducible version in the sense that the connections between non-matching meshes, with possible geometrically non-conforming interfaces, is accounted by the automatic Delaunay interface discretization without considering master and slave surfaces or intermediate surface projections as done in many established techniques, e.g. mortar methods. The multifield enhancement identifies the Lagrange multiplier field and incorporates its contribution in the weak variational form accounting for the corresponding consistent stabilization term based on a Nitsche method. This type of constraint enforcement circumvents the appearance of instabilities when the Ladyzhenskaya-Babu\\vska-Brezzi (LBB) condition is not fulfilled by the chosen discretization. The domain decomposition framework is assessed in a large deformation setting for mixed displacement/pressure formulations and coupled thermomechanical problems. The continuity of the mixed field is studied in well selected benchmark problems for both mixed formulations and the objectivity of the response is compared to reference monolithic solutions. Results suggest that the presented strategy shows sufficient potential to be a valuable tool in situations where the evolving physics at particular domains require the use of different spatial discretizations or field interpolations.

  18. The domain interface method in non-conforming domain decomposition multifield problems

    Science.gov (United States)

    Lloberas-Valls, O.; Cafiero, M.; Cante, J.; Ferrer, A.; Oliver, J.

    2016-12-01

    The Domain Interface Method (DIM) is extended in this contribution for the case of mixed fields as encountered in multiphysics problems. The essence of the non-conforming domain decomposition technique consists in a discretization of a fictitious zero-thickness interface as in the original methodology and continuity of the solution fields across the domains is satisfied by incorporating the corresponding Lagrange Multipliers. The multifield DIM inherits the advantages of its irreducible version in the sense that the connections between non-matching meshes, with possible geometrically non-conforming interfaces, is accounted by the automatic Delaunay interface discretization without considering master and slave surfaces or intermediate surface projections as done in many established techniques, e.g. mortar methods. The multifield enhancement identifies the Lagrange multiplier field and incorporates its contribution in the weak variational form accounting for the corresponding consistent stabilization term based on a Nitsche method. This type of constraint enforcement circumvents the appearance of instabilities when the Ladyzhenskaya-Babu\\vska-Brezzi (LBB) condition is not fulfilled by the chosen discretization. The domain decomposition framework is assessed in a large deformation setting for mixed displacement/pressure formulations and coupled thermomechanical problems. The continuity of the mixed field is studied in well selected benchmark problems for both mixed formulations and the objectivity of the response is compared to reference monolithic solutions. Results suggest that the presented strategy shows sufficient potential to be a valuable tool in situations where the evolving physics at particular domains require the use of different spatial discretizations or field interpolations.

  19. Realization of Thermal Inertia in Frequency Domain

    Directory of Open Access Journals (Sweden)

    Boe-Shong Hong

    2014-02-01

    Full Text Available To realize the lagging behavior in heat conduction observed in these two decades, this paper firstly theoretically excludes the possibility that the underlying thermal inertia is a result of the time delay in heat diffusion. Instead, we verify in experiments the electro-thermal analogy, wherein the thermal inertial is parameterized by thermal inductance that formulates hyperbolic heat-conduction. The thermal hyperbolicity exhibits a special frequency response in Bode plot, wherein the amplitude ratios is kept flat after crossing some certain frequency, as opposed to Fourier heat-conduction. We apply this specialty to design an instrument that reliably identifies thermal inductances of some materials in frequency domain. The instrument is embedded with a DSP-based frequency synthesizer capable of modulating frequencies in utmost high-resolution. Thermal inertia implies a new possibility for energy storage in analogy to inductive energy storage in electricity or mechanics.

  20. Developing a Domain Model for Relay Circuits

    DEFF Research Database (Denmark)

    Haxthausen, Anne Elisabeth

    2009-01-01

    the statics as well as the dynamics of relay circuits, i.e. how a relay circuit can be composed legally from electrical components as well as how the components may change state over time. Finally the circuit model is transformed into an executable model, and we show how a concrete circuit can be defined......In this paper we stepwise develop a domain model for relay circuits as used in railway control systems. First we provide an abstract, property-oriented model of networks consisting of components that can be glued together with connectors. This model is strongly inspired by a network model...... for railways madeby Bjørner et.al., however our model is more general: the components can be of any kind and can later be refined to e.g. railway components or circuit components. Then we show how the abstract network model can be refined into an explicit model for relay circuits. The circuit model describes...

  1. Cultural Heritage and the Public Domain

    Directory of Open Access Journals (Sweden)

    Bas Savenije

    2012-09-01

    by providing their resources on the Internet” (Berlin Declaration 2003. Therefore, in the spirit of the Berlin Declaration, the ARL encourages its members’ libraries to grant all non-commercial users “a free, irrevocable, worldwide, right of access to, and a license to copy, use, distribute, transmit and display the work publicly and to make and distribute derivative works, in any digital medium for any responsible purpose, subject to proper attribution of authorship”. And: “If fees are to be assessed for the use of digitised public domain works, those fees should only apply to commercial uses” (ARL Principles July 2010. In our view, cultural heritage institutions should make public domain material digitised with public funding as widely available as possible for access and reuse. The public sector has the primary responsibility to fund digitisation. The involvement of private partners, however, is encouraged by ARL as well as the Comité des Sages. Private funding for digitisation is a complement to the necessary public investment, especially in times of economic crisis, but should not be seen as a substitute for public funding. As we can see from these reports there are a number of arguments in favour of digitisation and also of providing maximum accessibility to the digitised cultural heritage. In this paper we will investigate the legal aspects of digitisation of cultural heritage, especially public domain material. On the basis of these we will make an inventory of policy considerations regarding reuse. Furthermore, we will describe the conclusions the National Library of the Netherlands (hereafter: KB has formulated and the arguments that support these. In this context we will review public-private partnerships and also the policy of the KB. We will conclude with recommendations for cultural heritage institutions concerning a reuse policy for digitised public domain material.

  2. Gravitational Waves and Time Domain Astronomy

    Science.gov (United States)

    Centrella, Joan; Nissanke, Samaya; Williams, Roy

    2012-01-01

    The gravitational wave window onto the universe will open in roughly five years, when Advanced LIGO and Virgo achieve the first detections of high frequency gravitational waves, most likely coming from compact binary mergers. Electromagnetic follow-up of these triggers, using radio, optical, and high energy telescopes, promises exciting opportunities in multi-messenger time domain astronomy. In the decade, space-based observations of low frequency gravitational waves from massive black hole mergers, and their electromagnetic counterparts, will open up further vistas for discovery. This two-part workshop featured brief presentations and stimulating discussions on the challenges and opportunities presented by gravitational wave astronomy. Highlights from the workshop, with the emphasis on strategies for electromagnetic follow-up, are presented in this report.

  3. Magnetically Multiplexed Heating of Single Domain Nanoparticles

    CERN Document Server

    Christiansen, Michael G; Anikeeva, Polina

    2014-01-01

    Selective hysteretic heating of multiple collocated sets of single domain magnetic nanoparticles (SDMNPs) by alternating magnetic fields (AMFs) may offer a useful tool for biomedical applications. The possibility of magnetothermal multiplexing has not yet been realized, in part due to prevalent use of linear response theory to model SDMNP heating in AMFs. Predictive successes of dynamic hysteresis (DH), a more generalized model for heat dissipation by SDMNPs, are observed experimentally with detailed calorimetry measurements performed at varied AMF amplitudes and frequencies. The DH model suggests that specific driving conditions play an underappreciated role in determining optimal material selection strategies for high heat dissipation. Motivated by this observation, magnetothermal multiplexing is theoretically predicted and empirically demonstrated for the first time by selecting SDMNPs with properties that suggest optimal hysteretic heat dissipation at dissimilar AMF driving conditions. This form of multip...

  4. Reengineering observatory operations for the time domain

    CERN Document Server

    Seaman, Robert L; Hessman, Frederic V

    2014-01-01

    Observatories are complex scientific and technical institutions serving diverse users and purposes. Their telescopes, instruments, software, and human resources engage in interwoven workflows over a broad range of timescales. These workflows have been tuned to be responsive to concepts of observatory operations that were applicable when various assets were commissioned, years or decades in the past. The astronomical community is entering an era of rapid change increasingly characterized by large time domain surveys, robotic telescopes and automated infrastructures, and - most significantly - of operating modes and scientific consortia that span our individual facilities, joining them into complex network entities. Observatories must adapt and numerous initiatives are in progress that focus on redesigning individual components out of the astronomical toolkit. New instrumentation is both more capable and more complex than ever, and even simple instruments may have powerful observation scripting capabilities. Re...

  5. Domain decomposition algorithms and computation fluid dynamics

    Science.gov (United States)

    Chan, Tony F.

    1988-01-01

    In the past several years, domain decomposition was a very popular topic, partly motivated by the potential of parallelization. While a large body of theory and algorithms were developed for model elliptic problems, they are only recently starting to be tested on realistic applications. The application of some of these methods to two model problems in computational fluid dynamics are investigated. Some examples are two dimensional convection-diffusion problems and the incompressible driven cavity flow problem. The construction and analysis of efficient preconditioners for the interface operator to be used in the iterative solution of the interface solution is described. For the convection-diffusion problems, the effect of the convection term and its discretization on the performance of some of the preconditioners is discussed. For the driven cavity problem, the effectiveness of a class of boundary probe preconditioners is discussed.

  6. Time Domain Response of the ARIANNA Detector

    CERN Document Server

    Barwick, S W; Besson, D Z; Hanson, J C; Klein, S R; Kleinfelder, S A; Piasecki, M; Ratzlaff, K; Reed, C; Roumi, M; Stezelberger, T; Tatar, J; Walker, J; Young, R; Zou, L

    2014-01-01

    The Antarctic Ross Ice Shelf Antenna Neutrino Array (ARIANNA) is a high-energy neutrino detector designed to record the Askaryan electric field signature of cosmogenic neutrino interactions in ice. To understand the inherent radio-frequency (RF) neutrino signature, the time-domain response of the ARIANNA RF receiver must be measured. ARIANNA uses Create CLP5130-2N log-periodic dipole arrays (LPDAs). The associated effective height operator converts incident electric fields to voltage waveforms at the LDPA terminals. The effective height versus time and incident angle was measured, along with the associated response of the ARIANNA RF amplifier. The results are verified by correlating to field measurements in air and ice, using oscilloscopes. Finally, theoretical models for the Askaryan electric field are combined with the detector response to predict the neutrino signature.

  7. Wavefield extrapolation in pseudo-depth domain

    KAUST Repository

    Ma, Xuxin

    2012-01-01

    Extrapolating seismic waves in Cartesian coordinate is prone to uneven spatial sampling, because the seismic wavelength tends to grow with depth, as velocity increase. We transform the vertical depth axis to a pseudo one using a velocity weighted mapping, which can effectively mitigate this wavelength variation. We derive acoustic wave equations in this new domain based on the direct transformation of the Laplacian derivatives, which admits solutions that are more accurate and stable than those derived from the kinematic transformation. The anisotropic versions of these equations allow us to isolate the vertical velocity influence and reduce its impact on modeling and imaging. The major benefit of extrapolating wavefields in pseudo-depth space is its near uniform wavelength as opposed to the normally dramatic change of wavelength with the conventional approach. Time wavefield extrapolation on a complex velocity shows some of the features of this approach.

  8. Towards Clone Detection in UML Domain Models

    DEFF Research Database (Denmark)

    Störrle, Harald

    2010-01-01

    Code clones - that is, duplicate fragments of code - have been studied for a long time. There is strong evidence that code clones are a major source of software faults. Anecdotal evidence suggests that this phenomenon is not restricted to code, but occurs in models in a very similar way. So...... it is likely that model clones are as detrimental to model quality as they are to code quality. However, programming language code and visual models also have significant differences so that notions and algorithms developed in the code clone arena cannot be transferred directly to model clones. In this article......, we discuss how model clones arise by analyzing several practical scenarios. We propose a formal definition of models and clones, that allows us to specify a generic clone detection algorithm. Through a thorough analysis of the detail structure of sample UML domain models, recommendations for clone...

  9. Towards Clone Detection in UML Domain Models

    DEFF Research Database (Denmark)

    Störrle, Harald

    2013-01-01

    Code clones (i.e., duplicate fragments of code) have been studied for long, and there is strong evidence that they are a major source of software faults. Anecdotal evidence suggests that this phenomenon occurs similarly in models, suggesting that model clones are as detrimental to model quality...... as they are to code quality. However, programming language code and visual models have significant differences that make it difficult to directly transfer notions and algorithms developed in the code clone arena to model clones. In this article, we develop and propose a definition of the notion of “model clone” based...... on the thorough analysis of practical scenarios. We propose a formal definition of model clones, specify a clone detection algorithm for UML domain models, and implement it prototypically. We investigate different similarity heuristics to be used in the algorithm, and report the performance of our approach. While...

  10. Thermal and Quantum Fluctuations around Domain Walls

    CERN Document Server

    Aragão de Carvalho, C

    2002-01-01

    We compute thermal and quantum fluctuations in the background of a domain wall in a scalar field theory at finite temperature using the exact scalar propagator in the subspace orthogonal to the wall's translational mode. The propagator makes it possible to calculate terms of any order in the semiclassical expansion of the partition function of the system. The leading term in the expansion corresponds to the fluctuation determinant, which we compute for arbitrary temperature in space dimensions 1,2, and 3. Our results may be applied to the description of thermal scalar propagation in the presence of soliton defects (in polymers, magnetic materials, etc.) and interfaces which are characterized by kinklike profiles. They lead to predictions as to how classical free energies, surface tensions, and interface profiles are modified by fluctuations, allowing for comparison with both numerical and experimental data. They can also be used to estimate transition temperatures. Furthermore, the simple analytic form of the...

  11. Mutational analysis of a ras catalytic domain

    DEFF Research Database (Denmark)

    Willumsen, B M; Papageorge, A G; Kung, H F;

    1986-01-01

    transformation of NIH 3T3 cells with approximately the same efficiency as the wild-type v-rasH gene to those that failed to induce any detectable morphologic changes. Correlation of transforming activity with the location of the mutations enabled us to identify three nonoverlapping segments within the catalytic...... domain that were dispensable for transformation and six other segments that were required for transformation. Segments that were necessary for guanosine nucleotide (GDP) binding corresponded to three of the segments that were essential for transformation; two of the three segments share strong sequence...... localization. We speculate that this latter region interacts with the putative cellular target of ras. The results suggest that transforming ras proteins require membrane localization, guanosine nucleotide binding, and an additional undefined function that may represent interaction with their target....

  12. Time delay measurement in the frequency domain

    Energy Technology Data Exchange (ETDEWEB)

    Durbin, Stephen M., E-mail: durbin@purdue.edu; Liu, Shih-Chieh [Purdue University, West Lafayette, IN 47907 (United States); Dufresne, Eric M.; Li, Yuelin; Wen, Haidan [Argonne National Laboratory, Argonne, IL 60439 (United States)

    2015-08-06

    A simple frequency domain technique for determining the time delay between laser pump and X-ray probe pulses achieves 1 ps resolution even for ∼100 ps synchrotron pulses, permitting improved pump–probe characterization of ultrafast processes. Pump–probe studies at synchrotrons using X-ray and laser pulses require accurate determination of the time delay between pulses. This becomes especially important when observing ultrafast responses with lifetimes approaching or even less than the X-ray pulse duration (∼100 ps). The standard approach of inspecting the time response of a detector sensitive to both types of pulses can have limitations due to dissimilar pulse profiles and other experimental factors. Here, a simple alternative is presented, where the frequency response of the detector is monitored versus time delay. Measurements readily demonstrate a time resolution of ∼1 ps. Improved precision is possible by simply extending the data acquisition time.

  13. Denotational semantics in Synthetic Guarded Domain Theory

    DEFF Research Database (Denmark)

    Paviotti, Marco

    2016-01-01

    is guarded. In this thesis we show that gDTT is a natural setting to give denotational semantics of typed functional programming languages with recursion and recursive types. We formulate operational semantics and denotational semantics and prove computational adequacy entirely inside the type theory....... Furthermore, our interpretation is synthetic: types are interpreted as types in the type theory and programs as type-theoretical terms. Moreover, working directly in gDTT has advantages compared with existing set-theoretic models. Finally, this work builds the foundations for doing denotational semantics......In functional programming, features such as recursion, recursive types and general references are central. To define semantics of this kind of languages one needs to come up with certain definitions which may be non-trivial to show well-defined. This is because they are circular. Domain theory has...

  14. Domain-specific knowledge as playful interaction

    DEFF Research Database (Denmark)

    Valente, Andrea; Marchetti, Emanuela

    2015-01-01

    Starting from reflections on designing games for learning, aimed at providing a tangible grounding to abstract knowledge, we designed Prime Slaughter, a game to support learning of factorisation and prime numbers, targeted to primary and early secondary school children. This new study draws upon ...... on activity theory, aimed at facilitating the transposition of abstract knowledge into playful interactions, so to develop new learning games of this kind, also keeping into account children’s individual needs regarding play....... the design process of Prime Slaughter, to move further in developing a general approach in developing games, aimed at effectively conveying knowledge from a specific domain. Hence this paper will discuss the past design process, as a concrete case, and then formulate a theoretical framework, based...

  15. Ontological Engineering for the Cadastral Domain

    DEFF Research Database (Denmark)

    Stubkjær, Erik; Stuckenschmidt, Heiner

    2000-01-01

    conceptualization of the world is that much information remains implicit. Ontologies have set out to overcome the problem of implicit and hidden knowledge by making the conceptualization of a domain (e.g. mathematics) explicit. Ontological engineering is thus an approach to achieve a conceptual rigor......The term 'ontology' has been used in many ways and across different communities. In th following we will introduce ontologies as an explication of some shared vocabulary or conceptualization of a specific subject matter. The main problem with the use of a shared vocabulary according to a specific...... that characterizes established academic disciplines, like geodesy. Many university courses address more application oriented fields, like cadastral law, and spatial planning, and they may benefit from the ontological engineering approach. The paper provides an introduction to the field of ontological engineering...

  16. Chromatin domains and prediction of MAR sequences.

    Science.gov (United States)

    Boulikas, T

    1995-01-01

    Polynuceosomes are constrained into loops or domains and are insulated from the effects of chromatin structure and torsional strain from flanking domains by the cross-complexation of matrix-attached regions (MARs) and matrix proteins. MARs or SARs have an average size of 500 bp, are spaced about every 30 kb, and are control elements maintaining independent realms of gene activity. A fraction of MARs may cohabit with core origin replication (ORIs) and another fraction might cohabit with transcriptional enhancers. DNA replication, transcription, repair, splicing, and recombination seem to take place on the nuclear matrix. Classical AT-rich MARs have been proposed to anchor the core enhancers and core origins complexed with low abundancy transcription factors to the nuclear matrix via the cooperative binding to MARs of abundant classical matrix proteins (topoisomerase II, histone H1, lamins, SP120, ARBP, SATB1); this creates a unique nuclear microenvironment rich in regulatory proteins able to sustain transcription, replication, repair, and recombination. Theoretical searches and experimental data strongly support a model of activation of MARs and ORIs by transcription factors. A set of 21 characteristics are deduced or proposed for MAR/ORI sequences including their enrichment in inverted repeats, AT tracts, DNA unwinding elements, replication initiator protein sites, homooligonucleotide repeats (i.e., AAA, TTT, CCC), curved DNA, DNase I-hypersensitive sites, nucleosome-free stretches, polypurine stretches, and motifs with a potential for left-handed and triplex structures. We are establishing Banks of ORI and MAR sequences and have undertaken a large project of sequencing a large number of MARs in an effort to determine classes of DNA sequences in these regulatory elements and to understand their role at the origins of replication and transcriptional enhancers.

  17. Taxonomy for spatial domain LSB steganography techniques

    Science.gov (United States)

    Collins, James C.; Agaian, Sos S.

    2014-05-01

    The Least Significant Bit (LSB) embedding technique is a well-known and broadly employed method in multimedia steganography, used mainly in applications involving single bit-plane manipulations in the spatial domain [1]. The key advantages of LSB procedures are they are simple to understand, easy to implement, have high embedding capacity, and can be resistant to steganalysis attacks. Additionally, the LSB approach has spawned numerous applications and can be used as the basis of more complex techniques for multimedia data embedding. In the last several decades, hundreds of new LSB or LSB variant methods have been developed in an effort to optimize capacity while minimizing detectability, taking advantage of the overall simplicity of this method. LSB-steganalysis research has also intensified in an effort to find new or improved ways to evaluate the performance of this widely used steganographic system. This paper reviews and categorizes some of these major techniques of LSB embedding, focusing specifically on the spatial domain. Some justification for establishing and identifying promising uses of a proposed SD-LSB centric taxonomy are discussed. Specifically, we define a new taxonomy for SD-LSB embedding techniques with the goal of aiding researchers in tool classification methodologies that can lead to advances in the state-of-the-art in steganography. With a common framework to work with, researchers can begin to more concretely identify core tools and common techniques to establish common standards of practice for steganography in general. Finally, we provide a summary on some of the most common LSB embedding techniques followed by a proposed taxonomy standard for steganalysis.

  18. Optimization Testbed Cometboards Extended into Stochastic Domain

    Science.gov (United States)

    Patnaik, Surya N.; Pai, Shantaram S.; Coroneos, Rula M.; Patnaik, Surya N.

    2010-01-01

    COMparative Evaluation Testbed of Optimization and Analysis Routines for the Design of Structures (CometBoards) is a multidisciplinary design optimization software. It was originally developed for deterministic calculation. It has now been extended into the stochastic domain for structural design problems. For deterministic problems, CometBoards is introduced through its subproblem solution strategy as well as the approximation concept in optimization. In the stochastic domain, a design is formulated as a function of the risk or reliability. Optimum solution including the weight of a structure, is also obtained as a function of reliability. Weight versus reliability traced out an inverted-S-shaped graph. The center of the graph corresponded to 50 percent probability of success, or one failure in two samples. A heavy design with weight approaching infinity could be produced for a near-zero rate of failure that corresponded to unity for reliability. Weight can be reduced to a small value for the most failure-prone design with a compromised reliability approaching zero. The stochastic design optimization (SDO) capability for an industrial problem was obtained by combining three codes: MSC/Nastran code was the deterministic analysis tool, fast probabilistic integrator, or the FPI module of the NESSUS software, was the probabilistic calculator, and CometBoards became the optimizer. The SDO capability requires a finite element structural model, a material model, a load model, and a design model. The stochastic optimization concept is illustrated considering an academic example and a real-life airframe component made of metallic and composite materials.

  19. Navigation domain representation for interactive multiview imaging.

    Science.gov (United States)

    Maugey, Thomas; Daribo, Ismael; Cheung, Gene; Frossard, Pascal

    2013-09-01

    Enabling users to interactively navigate through different viewpoints of a static scene is a new interesting functionality in 3D streaming systems. While it opens exciting perspectives toward rich multimedia applications, it requires the design of novel representations and coding techniques to solve the new challenges imposed by the interactive navigation. In particular, the encoder must prepare a priori a compressed media stream that is flexible enough to enable the free selection of multiview navigation paths by different streaming media clients. Interactivity clearly brings new design constraints: the encoder is unaware of the exact decoding process, while the decoder has to reconstruct information from incomplete subsets of data since the server generally cannot transmit images for all possible viewpoints due to resource constrains. In this paper, we propose a novel multiview data representation that permits us to satisfy bandwidth and storage constraints in an interactive multiview streaming system. In particular, we partition the multiview navigation domain into segments, each of which is described by a reference image (color and depth data) and some auxiliary information. The auxiliary information enables the client to recreate any viewpoint in the navigation segment via view synthesis. The decoder is then able to navigate freely in the segment without further data request to the server; it requests additional data only when it moves to a different segment. We discuss the benefits of this novel representation in interactive navigation systems and further propose a method to optimize the partitioning of the navigation domain into independent segments, under bandwidth and storage constraints. Experimental results confirm the potential of the proposed representation; namely, our system leads to similar compression performance as classical inter-view coding, while it provides the high level of flexibility that is required for interactive streaming. Because of

  20. A Spatial Domain Quantum Watermarking Scheme

    Science.gov (United States)

    Wei, Zhan-Hong; Chen, Xiu-Bo; Xu, Shu-Jiang; Niu, Xin-Xin; Yang, Yi-Xian

    2016-07-01

    This paper presents a spatial domain quantum watermarking scheme. For a quantum watermarking scheme, a feasible quantum circuit is a key to achieve it. This paper gives a feasible quantum circuit for the presented scheme. In order to give the quantum circuit, a new quantum multi-control rotation gate, which can be achieved with quantum basic gates, is designed. With this quantum circuit, our scheme can arbitrarily control the embedding position of watermark images on carrier images with the aid of auxiliary qubits. Besides reversely acting the given quantum circuit, the paper gives another watermark extracting algorithm based on quantum measurements. Moreover, this paper also gives a new quantum image scrambling method and its quantum circuit. Differ from other quantum watermarking schemes, all given quantum circuits can be implemented with basic quantum gates. Moreover, the scheme is a spatial domain watermarking scheme, and is not based on any transform algorithm on quantum images. Meanwhile, it can make sure the watermark be secure even though the watermark has been found. With the given quantum circuit, this paper implements simulation experiments for the presented scheme. The experimental result shows that the scheme does well in the visual quality and the embedding capacity. Supported by the National Natural Science Foundation of China under Grant Nos. 61272514, 61170272, 61373131, 61121061, 61411146001, the program for New Century Excellent Talents under Grant No. NCET-13-0681, the National Development Foundation for Cryptological Research (Grant No. MMJJ201401012) and the Fok Ying Tung Education Foundation under Grant No. 131067, and the Shandong Provincial Natural Science Foundation of China under Grant No. ZR2013FM025

  1. Centromere domain organization and histone modifications

    Directory of Open Access Journals (Sweden)

    P. Bjerling

    2002-05-01

    Full Text Available Centromere function requires the proper coordination of several subfunctions, such as kinetochore assembly, sister chromatid cohesion, binding of kinetochore microtubules, orientation of sister kinetochores to opposite spindle poles, and their movement towards the spindle poles. Centromere structure appears to be organized in different, separable domains in order to accomplish these functions. Despite the conserved nature of centromere functions, the molecular genetic definition of the DNA sequences that form a centromere in the yeasts Saccharomyces cerevisiae and Schizosaccharomyces pombe, in the fruit fly Drosophila melanogaster, and in humans has revealed little conservation at the level of centromere DNA sequences. Also at the protein level few centromere proteins are conserved in all of these four organisms and many are unique to the different organisms. The recent analysis of the centromere structure in the yeast S. pombe by electron microscopy and detailed immunofluorescence microscopy of Drosophila centromeres have brought to light striking similarities at the overall structural level between these centromeres and the human centromere. The structural organization of the centromere is generally multilayered with a heterochromatin domain and a central core/inner plate region, which harbors the outer plate structures of the kinetochore. It is becoming increasingly clear that the key factors for assembly and function of the centromere structure are the specialized histones and modified histones which are present in the centromeric heterochromatin and in the chromatin of the central core. Thus, despite the differences in the DNA sequences and the proteins that define a centromere, there is an overall structural similarity between centromeres in evolutionarily diverse eukaryotes.

  2. Structural and histone binding ability characterizations of human PWWP domains.

    Directory of Open Access Journals (Sweden)

    Hong Wu

    Full Text Available BACKGROUND: The PWWP domain was first identified as a structural motif of 100-130 amino acids in the WHSC1 protein and predicted to be a protein-protein interaction domain. It belongs to the Tudor domain 'Royal Family', which consists of Tudor, chromodomain, MBT and PWWP domains. While Tudor, chromodomain and MBT domains have long been known to bind methylated histones, PWWP was shown to exhibit histone binding ability only until recently. METHODOLOGY/PRINCIPAL FINDINGS: The PWWP domain has been shown to be a DNA binding domain, but sequence analysis and previous structural studies show that the PWWP domain exhibits significant similarity to other 'Royal Family' members, implying that the PWWP domain has the potential to bind histones. In order to further explore the function of the PWWP domain, we used the protein family approach to determine the crystal structures of the PWWP domains from seven different human proteins. Our fluorescence polarization binding studies show that PWWP domains have weak histone binding ability, which is also confirmed by our NMR titration experiments. Furthermore, we determined the crystal structures of the BRPF1 PWWP domain in complex with H3K36me3, and HDGF2 PWWP domain in complex with H3K79me3 and H4K20me3. CONCLUSIONS: PWWP proteins constitute a new family of methyl lysine histone binders. The PWWP domain consists of three motifs: a canonical β-barrel core, an insertion motif between the second and third β-strands and a C-terminal α-helix bundle. Both the canonical β-barrel core and the insertion motif are directly involved in histone binding. The PWWP domain has been previously shown to be a DNA binding domain. Therefore, the PWWP domain exhibits dual functions: binding both DNA and methyllysine histones. ENHANCED VERSION: This article can also be viewed as an enhanced version in which the text of the article is integrated with interactive 3D representations and animated transitions. Please note that a web

  3. Classification of domain movements in proteins using dynamic contact graphs.

    Directory of Open Access Journals (Sweden)

    Daniel Taylor

    Full Text Available A new method for the classification of domain movements in proteins is described and applied to 1822 pairs of structures from the Protein Data Bank that represent a domain movement in two-domain proteins. The method is based on changes in contacts between residues from the two domains in moving from one conformation to the other. We argue that there are five types of elemental contact changes and that these relate to five model domain movements called: "free", "open-closed", "anchored", "sliding-twist", and "see-saw." A directed graph is introduced called the "Dynamic Contact Graph" which represents the contact changes in a domain movement. In many cases a graph, or part of a graph, provides a clear visual metaphor for the movement it represents and is a motif that can be easily recognised. The Dynamic Contact Graphs are often comprised of disconnected subgraphs indicating independent regions which may play different roles in the domain movement. The Dynamic Contact Graph for each domain movement is decomposed into elemental Dynamic Contact Graphs, those that represent elemental contact changes, allowing us to count the number of instances of each type of elemental contact change in the domain movement. This naturally leads to sixteen classes into which the 1822 domain movements are classified.

  4. Evolution based on domain combinations: the case of glutaredoxins

    Directory of Open Access Journals (Sweden)

    Herrero Enrique

    2009-03-01

    Full Text Available Abstract Background Protein domains represent the basic units in the evolution of proteins. Domain duplication and shuffling by recombination and fusion, followed by divergence are the most common mechanisms in this process. Such domain fusion and recombination events are predicted to occur only once for a given multidomain architecture. However, other scenarios may be relevant in the evolution of specific proteins, such as convergent evolution of multidomain architectures. With this in mind, we study glutaredoxin (GRX domains, because these domains of approximately one hundred amino acids are widespread in archaea, bacteria and eukaryotes and participate in fusion proteins. GRXs are responsible for the reduction of protein disulfides or glutathione-protein mixed disulfides and are involved in cellular redox regulation, although their specific roles and targets are often unclear. Results In this work we analyze the distribution and evolution of GRX proteins in archaea, bacteria and eukaryotes. We study over one thousand GRX proteins, each containing at least one GRX domain, from hundreds of different organisms and trace the origin and evolution of the GRX domain within the tree of life. Conclusion Our results suggest that single domain GRX proteins of the CGFS and CPYC classes have, each, evolved through duplication and divergence from one initial gene that was present in the last common ancestor of all organisms. Remarkably, we identify a case of convergent evolution in domain architecture that involves the GRX domain. Two independent recombination events of a TRX domain to a GRX domain are likely to have occurred, which is an exception to the dominant mechanism of domain architecture evolution.

  5. Rating knowledge sharing in cross-domain collaborative filtering.

    Science.gov (United States)

    Li, Bin; Zhu, Xingquan; Li, Ruijiang; Zhang, Chengqi

    2015-05-01

    Cross-domain collaborative filtering (CF) aims to share common rating knowledge across multiple related CF domains to boost the CF performance. In this paper, we view CF domains as a 2-D site-time coordinate system, on which multiple related domains, such as similar recommender sites or successive time-slices, can share group-level rating patterns. We propose a unified framework for cross-domain CF over the site-time coordinate system by sharing group-level rating patterns and imposing user/item dependence across domains. A generative model, say ratings over site-time (ROST), which can generate and predict ratings for multiple related CF domains, is developed as the basic model for the framework. We further introduce cross-domain user/item dependence into ROST and extend it to two real-world cross-domain CF scenarios: 1) ROST (sites) for alleviating rating sparsity in the target domain, where multiple similar sites are viewed as related CF domains and some items in the target domain depend on their correspondences in the related ones; and 2) ROST (time) for modeling user-interest drift over time, where a series of time-slices are viewed as related CF domains and a user at current time-slice depends on herself in the previous time-slice. All these ROST models are instances of the proposed unified framework. The experimental results show that ROST (sites) can effectively alleviate the sparsity problem to improve rating prediction performance and ROST (time) can clearly track and visualize user-interest drift over time.

  6. Analysis of the regulation of fatty acid binding protein 7 expression in human renal carcinoma cell lines

    Directory of Open Access Journals (Sweden)

    Sugiyama Takayuki

    2011-07-01

    Full Text Available Abstract Background Improving the treatment of renal cell carcinoma (RCC will depend on the development of better biomarkers for predicting disease progression and aiding the design of appropriate therapies. One such marker may be fatty acid binding protein 7 (FABP7, also known as B-FABP and BLBP, which is expressed normally in radial glial cells of the developing central nervous system and cells of the mammary gland. Melanomas, glioblastomas, and several types of carcinomas, including RCC, overexpress FABP7. The abundant expression of FABP7 in primary RCCs compared to certain RCC-derived cell lines may allow the definition of the molecular components of FABP7's regulatory system. Results We determined FABP7 mRNA levels in six RCC cell lines. Two were highly expressed, whereas the other and the embryonic kidney cell line (HEK293 were weakly expressed FABP7 transcripts. Western blot analysis of the cell lines detected strong FABP7 expression only in one RCC cell line. Promoter activity in the RCC cell lines was 3- to 21-fold higher than that of HEK293. Deletion analysis demonstrated that three FABP7 promoter regions contributed to upregulated expression in RCC cell lines, but not in the HEK293 cell. Competition analysis of gel shifts indicated that OCT1, OCT6, and nuclear factor I (NFI bound to the FABP7 promoter region. Supershift experiments indicated that BRN2 (POU3F2 and NFI bound to the FABP7 promoter region as well. There was an inverse correlation between FABP7 promoter activity and BRN2 mRNA expression. The FABP7-positive cell line's NFI-DNA complex migrated faster than in other cell lines. Levels of NFIA mRNA were higher in the HEK293 cell line than in any of the six RCC cell lines. In contrast, NFIC mRNA expression was lower in the HEK293 cell line than in the six RCC cell lines. Conclusions Three putative FABP7 promoter regions drive reporter gene expression in RCC cell lines, but not in the HEK293 cell line. BRN2 and NFI may be key

  7. Replacement of annular domain with trapezoidal domain in computational modeling of nonaqueous-phase-liquid dissolution-front propagation problems

    Institute of Scientific and Technical Information of China (English)

    ZHAO Chong-bin; Thomas POULET; Klaus REGENAUER-LIEB

    2015-01-01

    In order to simulate the instability phenomenon of a nonaqueous phase liquid (NAPL) dissolution front in a computational model, the intrinsic characteristic length is commonly used to determine the length scale at which the instability of the NAPL dissolution front can be initiated. This will require a huge number of finite elements if a whole NAPL dissolution system is simulated in the computational model. Even though modern supercomputers might be used to tackle this kind of NAPL dissolution problem, it can become prohibitive for commonly-used personal computers to do so. The main purpose of this work is to investigate whether or not the whole NAPL dissolution system of an annular domain can be replaced by a trapezoidal domain, so as to greatly reduce the requirements for computer efforts. The related simulation results have demonstrated that when the NAPL dissolution system under consideration is in a subcritical state, if the dissolution pattern around the entrance of an annulus domain is of interest, then a trapezoidal domain cannot be used to replace an annular domain in the computational simulation of the NAPL dissolution system. However, if the dissolution pattern away from the vicinity of the entrance of an annulus domain is of interest, then a trapezoidal domain can be used to replace an annular domain in the computational simulation of the NAPL dissolution system. When the NAPL dissolution system under consideration is in a supercritical state, a trapezoidal domain cannot be used to replace an annular domain in the computational simulation of the NAPL dissolution system.

  8. Polarization control at spin-driven ferroelectric domain walls

    Science.gov (United States)

    Leo, Naëmi; Bergman, Anders; Cano, Andres; Poudel, Narayan; Lorenz, Bernd; Fiebig, Manfred; Meier, Dennis

    2015-04-01

    Unusual electronic states arise at ferroelectric domain walls due to the local symmetry reduction, strain gradients and electrostatics. This particularly applies to improper ferroelectrics, where the polarization is induced by a structural or magnetic order parameter. Because of the subordinate nature of the polarization, the rigid mechanical and electrostatic boundary conditions that constrain domain walls in proper ferroics are lifted. Here we show that spin-driven ferroelectricity promotes the emergence of charged domain walls. This provides new degrees of flexibility for controlling domain-wall charges in a deterministic and reversible process. We create and position a domain wall by an electric field in Mn0.95Co0.05WO4. With a magnetic field we then rotate the polarization and convert neutral into charged domain walls, while its magnetic properties peg the wall to its location. Using atomistic Landau-Lifshitz-Gilbert simulations we quantify the polarization changes across the two wall types and highlight their general occurrence.

  9. Transient domain formation in membrane-bound organelles undergoing maturation

    Science.gov (United States)

    Dmitrieff, Serge; Sens, Pierre

    2013-12-01

    The membrane components of cellular organelles have been shown to segregate into domains as the result of biochemical maturation. We propose that the dynamical competition between maturation and lateral segregation of membrane components regulates domain formation. We study a two-component fluid membrane in which enzymatic reaction irreversibly converts one component into another and phase separation triggers the formation of transient membrane domains. The maximum domain size is shown to depend on the maturation rate as a power law similar to the one observed for domain growth with time in the absence of maturation, despite this time dependence not being verified in the case of irreversible maturation. This control of domain size by enzymatic activity could play a critical role in regulating exchange between organelles or within compartmentalized organelles such as the Golgi apparatus.

  10. Establishing a core domain set to measure rheumatoid arthritis flares

    DEFF Research Database (Denmark)

    Bykerk, Vivian P; Lie, Elisabeth; Bartlett, Susan J;

    2014-01-01

    agenda for OMERACT 12. CONCLUSION: At OMERACT 11, a core domain set to measure RA flare was ratified and endorsed by attendees. Domain validation aligning with Filter 2.0 is ongoing in new randomized controlled clinical trials and longitudinal observational studies using existing and new instruments......OBJECTIVE: The OMERACT Rheumatoid Arthritis (RA) Flare Group (FG) is developing a data-driven, patient-inclusive, consensus-based RA flare definition for use in clinical trials, longterm observational studies, and clinical practice. At OMERACT 11, we sought endorsement of a proposed core domain set....... At OMERACT 11, breakout groups discussed key domains and instruments to measure them, and proposed a research agenda. Patients were active research partners in all focus groups and domain identification activities. Processes for domain selection and patient partner involvement were case studies for OMERACT...

  11. Analysis of acoustic radiation mode in time domain

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    The acoustic radiation mode of plane, whose radiating operator is constructed by Rayleigh integral, is investigated in the time domain and its physical meaning is given. The relationship between the acoustic radiation modes of time domain and frequency domain is discussed. It is verified that the acoustic radiation modes are the natural property of the radiator and they can be obtained by different methods. These time domain radiation modes, whose shapes are only dependent on the geometry size and shape of the radiator, can radiate sound power independently. Especially, the first time domain radiation mode accounts for most of the sound radiation. All these simplify the calculation and control of the structure-borne sound power. Based on these observations, the sound power radiated from the vibrating plate is estimated by the time domain radiation mode for verifying the proposed method. The influence factors on the estimating accuracy in different conditions are discussed.

  12. The transcriptional repressor domain of Gli3 is intrinsically disordered.

    Directory of Open Access Journals (Sweden)

    Robert Tsanev

    Full Text Available The transcription factor Gli3 is acting mainly as a transcriptional repressor in the Sonic hedgehog signal transduction pathway. Gli3 contains a repressor domain in its N-terminus from residue G106 to E236. In this study we have characterized the intracellular structure of the Gli3 repressor domain using a combined bioinformatics and experimental approach. According to our findings the Gli3 repressor domain while being intrinsically disordered contains predicted anchor sites for partner interactions. The obvious interaction partners to test were Ski and DNA; however, with both of these the structure of Gli3 repressor domain remained disordered. To locate residues important for the repressor function we mutated several residues within the Gli3 repressor domain. Two of these, H141A and H157N, targeting predicted helical regions, significantly decreased transcriptional repression and thus identify important functional parts of the domain.

  13. The effects of domain knowledge on metacomprehension accuracy.

    Science.gov (United States)

    Griffin, Thomas D; Jee, Benjamin D; Wiley, Jennifer

    2009-10-01

    In the present research, we examined the relationship between readers' domain knowledge and their ability to judge their comprehension of novel domain-related material. Participants with varying degrees of baseball knowledge read five texts on baseball-related topics and five texts on non-baseball-related topics, predicted their performance, and completed tests for each text. Baseball knowledge was positively related to absolute accuracy within the baseball domain but was unrelated to relative accuracy within the baseball domain. Also, the readers showed a general underconfidence bias, but the bias was less extreme for higher knowledge readers. The results challenge common assumptions that experts' metacognitive judgments are less accurate than novices'. Results involving topic familiarity ratings and a no-reading control group suggest that higher knowledge readers are not more likely to ignore text-specific cues in favor of a domain familiarity heuristic, but they do appear to make more effective use of domain familiarity in predicting absolute performance levels.

  14. Domain Specific Software Architecture for Design Center Automation

    CERN Document Server

    Sinha, Anshuman; Balakrishna, Vijaya

    2008-01-01

    Domain specific software architecture aims at software reuse through construction of domain architecture reference model. The constructed reference model presents a set of individual components and their interaction points. When starting on a new large software project, the design engineer starts with pre-constructed model, which can be easily browsed and picks up opportunities of use in the new solution design. This report discusses application of domain reference design methods by deriving domain specific reference architecture for a product ordering system in a design center. The product in this case is instock and special order blinds from different manufacturers in a large supply store. The development of mature domain specific reference software architecture for this domain is not the objective of this report. However, this report would like to capture the method used in one such process and that is the primary concern of this report. This report lists subjective details of such a process applied to the...

  15. DSRM: An Ontology Driven Domain Scientific Data Retrieval Model

    Directory of Open Access Journals (Sweden)

    Jianghua Li

    2013-09-01

    Full Text Available With the development of information technology, a large number of domain scientific data have been accumulated with the characteristics of distribution and heterogeneity. It has important significance to acquire exact scientific data from multiple data sources for cooperative research. The existing data integration and information retrieval techniques cannot solve the problems of data semantic heterogeneity and retrieval inaccuracy very well. In this paper, an ontology driven domain scientific data retrieval model is proposed, which uses domain ontology to describe user query and queried data. User query is posed on domain ontology schema. Data retrieval for distributed and heterogeneous data sources is realized through constructing mapping relations between them and domain ontology schema. We developed a prototype for material scientific data, and the experimental results show that the proposed model is effective. Our model can also provide some means of use for reference to other domain scientific data retrieval.

  16. A Cross-domain Authentication Protocol based on ID

    Directory of Open Access Journals (Sweden)

    Zheng Jun

    2013-01-01

    Full Text Available In large distributed networks, many computers must be mutual coordination to complete some works Under the certain conditions, these computers may come from different domains. For ensuring the safety to access resources among these computers in different domains, we propose a cross-domain union authentication scheme. We compute a large prime cyclic group by elliptic curve, and use the direct decomposition of this group to decompose automorphism groups ,and design an signcryption scheme between domains by bilinear of automorphism group to achieve cross-domain union authentication. this scheme overcome the complexity of certificate transmission and bottlenecks in the scheme of PKI-based, and it can trace the entities and supports two-way entities anonymous authentication, which avoid the authority counterfeiting its member to cross-domain access resources. Analyses show that its advantages on security and communication-consumption .

  17. Ballistic rectification of vortex domain wall chirality at nanowire corners

    Energy Technology Data Exchange (ETDEWEB)

    Omari, K.; Bradley, R. C.; Broomhall, T. J.; Hodges, M. P. P.; Hayward, T. J. [Department of Materials Science and Engineering, University of Sheffield, Sheffield S1 3JD (United Kingdom); Rosamond, M. C.; Linfield, E. H. [School of Electronic and Electrical Engineering, University of Leeds, Leeds LS2 9JT (United Kingdom); Im, M.-Y. [Center for X-Ray Optics, Lawrence Berkeley National Laboratory, Berkeley, California 94720 (United States); Daegu Gyeongbuk Institute of Science and Technology, Daegu 711-873 (Korea, Republic of); Fischer, P. [Materials Sciences Division, Lawrence Berkley National Laboratory, Berkeley, California 94720 (United States); Department of Physics, University of California, Santa Cruz, California 94056 (United States)

    2015-11-30

    The interactions of vortex domain walls with corners in planar magnetic nanowires are probed using magnetic soft X-ray transmission microscopy. We show that when the domain walls are propagated into sharp corners using applied magnetic fields above a critical value, their chiralities are rectified to either clockwise or anticlockwise circulation depending on whether the corners turn left or right. Single-shot focused magneto-optic Kerr effect measurements are then used to demonstrate how, when combined with modes of domain propagation that conserve vortex chirality, this allows us to dramatically reduce the stochasticity of domain pinning at artificial defect sites. Our results provide a tool for controlling domain wall chirality and pinning behavior both in further experimental studies and in future domain wall-based memory, logic and sensor technologies.

  18. The evolution of filamin – A protein domain repeat perspective

    OpenAIRE

    Light, Sara; Sagit, Rauan; Ithychanda, Sujay S.; Qin, Jun; Elofsson, Arne

    2012-01-01

    Particularly in higher eukaryotes, some protein domains are found in tandem repeats, performing broad functions often related to cellular organization. For instance, the eukaryotic protein filamin interacts with many proteins and is crucial for the cytoskeleton. The functional properties of long repeat domains are governed by the specific properties of each individual domain as well as by the repeat copy number. To provide better understanding of the evolutionary and functional history of rep...

  19. A Survey on Domain-Specific Languages in Robotics

    OpenAIRE

    Nordmann, Arne; Hochgeschwender, Nico; Wrede, Sebastian

    2014-01-01

    The design, simulation and programming of robotics systems is challenging as expertise from multiple domains needs to be integrated conceptually and technically. Domain-specific modeling promises an efficient and flexible concept for developing robotics applications that copes with this challenge. It allows to raise the level of abstraction through the use of specific concepts that are closer to the respective domain concerns and easier to understand and validate. Furthermore, it focuses on i...

  20. Stability estimates for hybrid coupled domain decomposition methods

    CERN Document Server

    Steinbach, Olaf

    2003-01-01

    Domain decomposition methods are a well established tool for an efficient numerical solution of partial differential equations, in particular for the coupling of different model equations and of different discretization methods. Based on the approximate solution of local boundary value problems either by finite or boundary element methods, the global problem is reduced to an operator equation on the skeleton of the domain decomposition. Different variational formulations then lead to hybrid domain decomposition methods.