|
|
|
| Registros recuperados: 1.312 | |
|
|
| Dilvan A. Moreira; Christopher J. Mungall; Nigam H. Shah; Stuart Aitken; John-Day Richter; Timothy Redmond; Mark A. Musen. |
| Two of the most significant formats for biomedical ontologies are the Open Biomedical Ontologies Format (OBOF) and the Web Ontology Language (OWL). To make it possible to translate ontologies between these two representation formats, the National Center for Biomedical Ontology (NCBO) has developed a mapping between the OBOF and OWL formats as well as inter-conversion software. The goal was to allow the sharing of tools, ontologies, and associated data between the OBOF and Semantic Web communities.

OBOF does not have a formal grammar, so the NCBO had to capture its intended semantics to map it to OWL.

This official NCBO mapping was used to make all OBO Foundry ontologies available in OWL.... |
| Tipo: Manuscript |
Palavras-chave: Bioinformatics. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3938/version/1 |
| |
|
|
| Matthias Enders; Lothar Frese; Marion Nachtigall. |
| Crop Wild Relatives (CWR) are an economically important plant genetic resource (PGR) for plant breeding. One strategy to conserve PGR in the natural habitat (in situ) is the genetic reserve technique. This approach protects the existing intraspecific diversity and allows, in contrast to the ex situ approaches, the emergence of new diversity. 
The genetic reserve conservation technique will be tested in practice with the Genus _Beta_ within the framework of the EU Project “AEGRO”. _Beta patula_ (Ait.) (BP) and _Beta vulgaris_ (L.) _maritima_ (Arcang.) (BVM) are used as models. Both species are important resources for sugar beet breeding. BP is a rare and endangered species with a very limited habitat. In contrast BVM... |
| Tipo: Presentation |
Palavras-chave: Bioinformatics; Plant Biology. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/5742/version/1 |
| |
|
| |
|
| |
|
|
| Yukiko Yamazaki; Rie Tsuchiya; Takao Asanuma; Yo Shidahara; Shingo Sakaniwa. |
| Oryzabase ("http://www.shigen.nig.ac.jp/rice/oryzabase/":http://www.shigen.nig.ac.jp/rice/oryzabase/) is a comprehensive rice science database ^1^. It houses a variety of genetic resources, relevant literatures, gene dictionary, DNA sequences, and basic information such as developmental biology and anatomy. In order to keep the gene dictionary up-to-date, literature annotation has been conducted manually since 1995. However as the publication of journal articles increases year by year after genomic sequences were released, it became more difficult to update the dictionary timely and in high quality without sufficient annotators. To overcome this difficulty, we applied machine learning and text-mining to extract known and unknown genes... |
| Tipo: Poster |
Palavras-chave: Genetics & Genomics; Bioinformatics; Plant Biology. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3164/version/1 |
| |
|
|
| Jasmine Young; RCSB PDBj PDBe Protein Data Bank. |
| The Protein Data Bank (PDB) is the worldwide repository for experimentally determined 3D structures of biological macromolecules. Established in 1971 with just seven structures, it presently includes more than 56,000 entries. To maintain the highest standards in curation and processing, the members of the worldwide Protein Data Bank (wwPDB) collaborate in data annotation and the development of procedures, tools, and resources. Annotation-related issues, particularly those impacted by new developments
in structural biology, are critically reviewed at in-person and virtual meetings regularly and frequently. Comprehensive documentation of the procedures, formats, and related data dictionaries used in data annotation are available at the wwPDB... |
| Tipo: Poster |
Palavras-chave: Bioinformatics. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3379/version/1 |
| |
|
|
| Burak Erman; Nazan Walpoth. |
| Energetically responsive residues of the 217 amino acid N-terminal domain of the cardiac Ryanodine receptor RyR2 are identified by a simple elastic net model. These residues lie along a hydrogen bonded path through the protein. The evolutionarily conserved residues of the protein are all located on this path or in its close proximity. All of the residues of the path are either located on the two Mir domains of the protein or are hydrogen bonded to them. Two calcium binding residues, E171 and E173, are proposed as potential binding residues, based on insights gained from the elastic net analysis of another calcium channel receptor, the inositol 1,4,5-triphosphate receptor, IP3R. Analysis of the disease causing A77V mutated RyR2 showed that the path is... |
| Tipo: Manuscript |
Palavras-chave: Molecular Cell Biology; Bioinformatics. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/6678/version/1 |
| |
|
|
| Mihail Bota; Larry Swanson. |
| The goal of this workshop was to agree on a general strategy for developing a systematic, useful, and scientifically appropriate framework for neuroanatomical nomenclature. The workshop focused on general principles that will serve as a basis for future decisions on implementation strategies. The report discusses the problems arising from the use of different parcellation schemes and use of different terminologies and highlights the need of a universal vocabulary for describing the structural organization of the nervous system. Workshop participants encourage the creation of an International Coordinating Committee for Neuroanatomical Nomenclature and propose short- and long-term goals for such a committee. |
| Tipo: Manuscript |
Palavras-chave: Neuroscience; Bioinformatics; Data Standards. |
| Ano: 2008 |
URL: http://precedings.nature.com/documents/1780/version/1 |
| |
|
|
| Praneetha Amburu; Dibyabhaba Pradhan; Vani Priyadarshini; Munikumar Manne; Umamaheswari Amineni. |
| Human parvovirus B19, a member of the Parvoviridae family, is a pathogen associated with a wide variety of diseases. Most commonly, it causes childhood rash erythema infectiosum, but in some cases more serious symptoms such as persistent arthropathy, critical failures of red cell production causing transient aplastic crisis, this infection in pregnancy causes hydrops fetalis and myocarditis. Traditional immunosuppressive therapy being unsuccessful, anti-viral therapy might be worthy of consideration. Functional annotation would provide role of viral proteome in its survival and pathogenic mechanisms. SVMProt functional family annotations of VP2 protein had deciphered its zinc-binding, coat protein, outer membrane, chlorophyll biosynthesis, DNA repair and... |
| Tipo: Poster |
Palavras-chave: Bioinformatics. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/5289/version/1 |
| |
|
|
| Ajit Kumar Sinha. |
| Conserving biodiversity is about genetic variety, species, habitats and ecosystems. All are important, but it is often most appropriate, practical and effective to focus on species. With modern conservation awareness, there is a welcome and popular commitment to maintaining the diversity of species in India. Nevertheless, over the last 50 years, we have witnessed the severe decline of many once widespread and familiar species, such as tropical Tasar silkworm Antherea mylitta D. Conservation is not just about avoiding extinctions, but about restoring or recovering species populations to secure levels and preventing other species from reaching such a perilous situation in the first place. Species, by their very nature, have specific ecological requirements.... |
| Tipo: Manuscript |
Palavras-chave: Bioinformatics. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/6162/version/1 |
| |
|
|
| Paolo Tieri; Alberto Termanini; Elena Bellavista; Stefano Salvioli; Claudio Franceschi. |
| One of the phenomena observed in human aging is the progressive increase of a systemic inflammatory state, a condition referred to as “inflammaging”, negatively correlated with longevity. The five components of the Nuclear Factor kB (NF-kB) family are prominent mediators of inflammation. Several different signaling pathways activated by very diverse stimuli converge on NF-kB, resulting in a regulatory system characterized by high complexity. It is increasingly recognized that the number of components that impinges upon phenotypic outcomes of signal transduction pathways may be higher than those taken into consideration from canonical pathway representations. Scope of this analysis is to provide a wider, systemic picture of such... |
| Tipo: Poster |
Palavras-chave: Genetics & Genomics; Immunology; Bioinformatics. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/5266/version/1 |
| |
|
|
| Shang-Hong Zhang; Ya-Zhi Huang. |
| One of the objectives of evolutionary genomics is to reveal the genetic information contained in the primordial genome (called the primary genetic information in this paper, with the primordial genome defined here as the most primitive nucleic acid genome for earth’s life) by searching for primitive traits or relics remained in modern genomes. As the shorter a sequence is, the less probable it would be modified during genome evolution. For that reason, some characteristics of very short nucleotide sequences would have considerable chances to persist during billions of years of evolution. Consequently, conservation of certain genomic features of mononucleotides, dinucleotides, and higher-order oligonucleotides across various genomes may exist;... |
| Tipo: Manuscript |
Palavras-chave: Genetics & Genomics; Bioinformatics; Evolutionary Biology. |
| Ano: 2008 |
URL: http://precedings.nature.com/documents/2146/version/1 |
| |
|
|
| Yuriy Pershin; Massimiliano Di Ventra. |
| When someone mentions the name of a known person we immediately recall her face and possibly many other traits. This is because we possess the so-called associative memory - the ability to correlate different memories to the same fact or event. Associative memory is such a fundamental and encompassing human ability (and not just human) that the network of neurons in our brain must perform it quite easily. The question is then whether electronic neural networks - electronic schemes that act somewhat similarly to human brains - can be built to perform this type of function. Although the field of neural networks has developed for many years, a key element, namely the synapses between adjacent neurons, has been lacking a satisfactory electronic representation.... |
| Tipo: Manuscript |
Palavras-chave: Neuroscience; Bioinformatics. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3258/version/1 |
| |
|
|
| Jennifer Hoyal Cuthill; Michael Charleston. |
| The unpalatable and warning-patterned butterflies _Heliconius erato_ and _Heliconius melpomene_ provide the best studied example of mutualistic Müllerian mimicry, thought – but rarely demonstrated – to promote coevolution. Some of the strongest available evidence for coevolution comes from phylogenetic codivergence, the parallel divergence of ecologically associated lineages. Early evolutionary reconstructions suggested codivergence between mimetic populations of _H. erato_ and _H. melpomene_, and this was initially hailed as the most striking known case of coevolution. However, subsequent molecular phylogenetic analyses found discrepancies in phylogenetic branching patterns and timing (topological and temporal incongruence)... |
| Tipo: Manuscript |
Palavras-chave: Ecology; Genetics & Genomics; Bioinformatics; Evolutionary Biology. |
| Ano: 2012 |
URL: http://precedings.nature.com/documents/6829/version/1 |
| |
|
|
| Yusuke Komiyama; Osamu Gotoh. |
| There exist few databases that enable cross-reference among various research fields related to bioenergy. Cross-reference is highly desired among bioinformatics databases related to environment, energy, and agriculture for better mutual cooperation. By uniting Semantic Graph, we can economically construct a distributed database, regardless of the size of research laboratories and research endeavors.

Our purpose is to design and develop a workflow based on RDF (Resource Description Framework) that generates Semantic Graph for a set of technical terms extracted from documents of various formats, such as PDF, HTML, and plain text. Our attempt is to generate Semantics Graph as a result of text mining including morphological... |
| Tipo: Poster |
Palavras-chave: Bioinformatics. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/5072/version/1 |
| |
|
|
| Wan-Chung(Wan-Jiung) Hu; August Louis Bourgeois; Nathan Wolfe; Sher Singh; Anne Jedlicka; Alan Scott. |
| Using microarray analysis, we showed up-regulation of Toll-like receptors 1,2,4,7,8, NF-[kappa][BETA], TNF-[alpha], p38-MAPK and MHC molecules in human peripheral blood mononuclear cells following infection with Plasmodium falciparum. We report herein further studies based on time-course microarray analysis with a focus on malaria-induced host immunity. Results show that in early malaria; selected immunity-related genes were up-regulated including alpha, beta, and gamma interferon related genes, as well as genes of IL-15, CD36, chemokines (CXCL10, CCL2, S100A8/9, CXCL9, and CXCL11), TRAIL and IgG Fc receptors. During acute febrile malaria, up-regulated genes included alpha, beta, and gamma interferon related genes, IL-8, IL-1[beta], IL-10 downstream... |
| Tipo: Manuscript |
Palavras-chave: Genetics & Genomics; Immunology; Microbiology; Bioinformatics. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/5930/version/1 |
| |
|
|
| Warren Kibbe. |
| Research databases, clinical systems, and lab systems all have different standards, formats and drivers for data capture, operation, analysis and integration. For interdisciplinary nutritional researchers, however, there is a dependence on all of these areas and technologies. While building and integrating these systems can be difficult, using agile practices including short iterations, testing and continuous integration methods, and close engagement with all stakeholders to create useful systems for translational research. Interoperability also requires good data standards, including the use of structured data dictionaries and existing data standards such as HL7, UMLS, LOINC, ICD, and OBO foundry ontologies. |
| Tipo: Presentation |
Palavras-chave: Genetics & Genomics; Bioinformatics; Data Standards. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/5197/version/1 |
| |
|
|
| Zhongyu Liu; Yulong Niu; Chao Li; Yang Zhou; Yi Yang; Chunfang Gao. |
| Background: Oral squamous cell carcinoma (OSCC) is the sixth most common type of carcinoma worldwide. Development of OSCC is a multi-step process involving genes related to cell cycle, growth control, apoptosis, DNA damage response and other cellular regulators. The pathogenic pathways involved in this tumor are mostly unknown and therefore a better characterization of OSCC gene expression profile would represent a considerable advance. The availability of publicly available gene expression datasets has opened up new challenges especially for the integration of data generated by different research groups and different array platforms with the purpose of obtaining new insights on the biological process... |
| Tipo: Manuscript |
Palavras-chave: Cancer; Genetics & Genomics; Bioinformatics. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/4269/version/1 |
| |
|
|
| Gennadi Glinsky. |
| We report the results of the genome-wide alignment of inter- and intra-chromosomal chromatin interactions within the context of interphase chromatin binding to nuclear lamina and nucleolus. For all human chromosomes, a significant correlation exists between binding of chromosomal loci to nuclear lamina and segregation into spatially-defined distinct compartments of genome-wide chromatin interactions identified by Hi-C method. We report identification of near-centromeric intergenic regions on human chromosomes (chr2; chr10; chr17; chr1), which are highly enriched for interphase chromatin homing sites and function as attractors of long-range physical interactions (Centromeric Regions of Interphase Chromatin Homing, CENTRICH). CENTRICH are engaged in 397-1526... |
| Tipo: Manuscript |
Palavras-chave: Biotechnology; Cancer; Developmental Biology; Genetics & Genomics; Molecular Cell Biology; Bioinformatics. |
| Ano: 2012 |
URL: http://precedings.nature.com/documents/6756/version/1 |
| |
|
| |
| Registros recuperados: 1.312 | |
|
|
|
