Structured vocabularies describing concepts from the fields of biology and relationships between concepts.
A specified list of terms with a fixed and unalterable meaning, and from which a selection is made when CATALOGING; ABSTRACTING AND INDEXING; or searching BOOKS; JOURNALS AS TOPIC; and other documents. The control is intended to avoid the scattering of related subjects under different headings (SUBJECT HEADINGS). The list may be altered or extended only by the publisher or issuing agency. (From Harrod's Librarians' Glossary, 7th ed, p163)
Organized activities related to the storage, location, search, and retrieval of information.
Sets of structured vocabularies used for describing and categorizing genes, and gene products by their molecular function, involvement in biological processes, and cellular location. These vocabularies and their associations to genes and gene products (Gene Ontology annotations) are generated and curated by the Gene Ontology Consortium.
The terms, expressions, designations, or symbols used in a particular science, discipline, or specialized subject area.
A field of biology concerned with the development of techniques for the collection and manipulation of biological data, and the use of such data to make biological discoveries or predictions. This field encompasses all computational methods and theories for solving biological problems including manipulation of models and datasets.
A branch of biology dealing with the structure of organisms.
Databases devoted to knowledge about specific genes and gene products.
Sequential operating programs and data which instruct the functioning of a digital computer.
Software designed to store, manipulate, manage, and control data for specific uses.
Computer processing of a language with rules that reflect and describe current usage rather than prescribed usage.
The portion of an interactive computer program that issues messages to and receives commands from a user.
The relationships between symbols and their meanings.
The addition of descriptive information about the function or structure of a molecular sequence to its MOLECULAR SEQUENCE DATA record.
The determination of the pattern of genes expressed at the level of GENETIC TRANSCRIPTION, under specific circumstances or in a specific cell.
A loose confederation of computer communication networks around the world. The networks that make up the Internet are connected through several backbone networks. The Internet grew out of the US Government ARPAnet project and was designed to facilitate information exchange.
Extensive collections, reputedly complete, of facts and data garnered from material of a specialized subject area and made available for analysis and application. The collection can be automated by various contemporary methods for retrieval. The concept should be differentiated from DATABASES, BIBLIOGRAPHIC which is restricted to collections of bibliographic references.
The procedures involved in combining separately developed modules, components, or subsystems so that they work together as a complete system. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)
A procedure consisting of a sequence of algebraic formulas and/or logical steps to calculate or determine a given task.
Specific languages used to prepare computer programs.
Hybridization of a nucleic acid sample to a very large set of OLIGONUCLEOTIDE PROBES, which have been attached individually in columns and rows to a solid support, to determine a BASE SEQUENCE, or to detect variations in a gene sequence, GENE EXPRESSION, or for GENE MAPPING.
Collections of facts, assumptions, beliefs, and heuristics that are used in combination with databases to achieve desired results, such as a diagnosis, an interpretation, or a solution to a problem (From McGraw Hill Dictionary of Scientific and Technical Terms, 6th ed).
Theoretical representations that simulate the behavior or activity of biological processes or diseases. For disease models in living animals, DISEASE MODELS, ANIMAL is available. Biological models include the use of mathematical equations, computers, and other electronic equipment.
Databases containing information about PROTEINS such as AMINO ACID SEQUENCE; PROTEIN CONFORMATION; and other properties.
Systematic organization, storage, retrieval, and dissemination of specialized information, especially of a scientific or technical nature (From ALA Glossary of Library and Information Science, 1983). It often involves authenticating or validating information.
Use of sophisticated analysis tools to sort through, organize, examine, and combine large sets of information.
The systematic study of the complete DNA sequences (GENOME) of organisms.
The systematic arrangement of entities in any field into categories classes based on common characteristics such as properties, morphology, subject matter, etc.
The field of knowledge, theory, and technology dealing with the collection of facts and figures, and the processes and methods involved in their manipulation, storage, dissemination, publication, and retrieval. It includes the fields of COMMUNICATION; PUBLISHING; LIBRARY SCIENCE; and informatics.
Theory and development of COMPUTER SYSTEMS which perform tasks that normally require human intelligence. Such tasks may include speech recognition, LEARNING; VISUAL PERCEPTION; MATHEMATICAL COMPUTING; reasoning, PROBLEM SOLVING, DECISION-MAKING, and translation of language.
A research and development program initiated by the NATIONAL LIBRARY OF MEDICINE to build knowledge sources for the purpose of aiding the development of systems that help health professionals retrieve and integrate biomedical information. The knowledge sources can be used to link disparate information systems to overcome retrieval problems caused by differences in terminology and the scattering of relevant information across many databases. The three knowledge sources are the Metathesaurus, the Semantic Network, and the Specialist Lexicon.
A set of statistical methods used to group variables or observations into strongly inter-related subgroups. In epidemiology, it may be used to analyze a closely grouped series of events or cases of disease or other health-related phenomenon with well-defined distribution patterns in relation to time or place or both.
The pattern of GENE EXPRESSION at the level of genetic transcription in a specific organism or under specific circumstances in specific cells.
Controlled vocabulary of clinical terms produced by the International Health Terminology Standards Development Organisation (IHTSDO).
Linear POLYPEPTIDES that are synthesized on RIBOSOMES and may be further modified, crosslinked, cleaved, or assembled into complex proteins with several subunits. The specific sequence of AMINO ACIDS determines the shape the polypeptide will take, during PROTEIN FOLDING, and the function of the protein.
Partial cDNA (DNA, COMPLEMENTARY) sequences that are unique to the cDNAs from which they were derived.
The process of pictorial communication, between human and computers, in which the computer input and output have the form of charts, drawings, or other appropriate pictorial representation.
Interacting DNA-encoded regulatory subsystems in the GENOME that coordinate input from activator and repressor TRANSCRIPTION FACTORS during development, cell differentiation, or in response to environmental cues. The networks function to ultimately specify expression of particular sets of GENES for specific conditions, times, or locations.
Biological activities and function of the whole organism in human, animal, microorgansims, and plants, and of the biosphere.
One of the BIOLOGICAL SCIENCE DISCIPLINES concerned with the origin, structure, development, growth, function, genetics, and reproduction of animals, plants, and microorganisms.
A bibliographic database that includes MEDLINE as its primary subset. It is produced by the National Center for Biotechnology Information (NCBI), part of the NATIONAL LIBRARY OF MEDICINE. PubMed, which is searchable through NLM's Web site, also includes access to additional citations to selected life sciences journals not in MEDLINE, and links to other resources such as the full-text of articles at participating publishers' Web sites, NCBI's molecular biology databases, and PubMed Central.
Methods for determining interaction between PROTEINS.
A center in the PUBLIC HEALTH SERVICE which is primarily concerned with the collection, analysis, and dissemination of health statistics on vital events and health activities to reflect the health status of people, health needs, and health resources.
Process of applying for employment. It includes written application for employment or personal appearance.
Conferences, conventions or formal meetings usually attended by delegates representing a special field of interest.
Single or multi-sheet notices made to attract attention to events, activities, causes, goods, or services. They are for display, usually in a public place and are chiefly pictorial.
An agency of the PUBLIC HEALTH SERVICE concerned with the overall planning, promoting, and administering of programs pertaining to maintaining standards of quality of foods, drugs, therapeutic devices, etc.
The outward appearance of the individual. It is the product of interactions between genes, and between the GENOTYPE and the environment.
Any significant change in measures of climate (such as temperature, precipitation, or wind) lasting for an extended period (decades or longer). It may result from natural factors such as changes in the sun's intensity, natural processes within the climate system such as changes in ocean circulation, or human activities.
The relationships of groups of organisms as reflected by their genetic makeup.
The variety of all native living organisms and their various forms and interrelationships.

Evaluation of research in biomedical ontologies. (1/26)

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Towards Web 3.0: taxonomies and ontologies for medical education -- a systematic review. (2/26)

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Quantitative imaging biomarker ontology (QIBO) for knowledge representation of biomedical imaging biomarkers. (3/26)

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FYPO: the fission yeast phenotype ontology. (4/26)

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Effects of guideline-based training on the quality of formal ontologies: a randomized controlled trial. (5/26)

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OntoQuery: easy-to-use web-based OWL querying. (6/26)

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The International Mouse Phenotyping Consortium Web Portal, a unified point of access for knockout mice and related phenotyping data. (7/26)

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The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data. (8/26)

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Phenotype data for mouse gene Zdhhc21. Discover Zdhhc21s significant phenotypes, expression, images, histopathology and more. Data for gene Zdhhc21 is all freely available for download.
Phenotype data for mouse gene Cenpo. Discover Cenpos significant phenotypes, expression, images, histopathology and more. Data for gene Cenpo is all freely available for download.
In order to identify the function of genes, the consortium uses a series of response (ABR) test conducted at 14 weeks of age. Hearing is assessed at five frequencies - 6kHz, 12kHz, 18kHz, 24kHz and 30kHz - as well as a broadband click stimulus. Increased thresholds are indicative of abnormal hearing. Abnormalities in adult ear morphology are recorded as part of the Combined SHIRPA and Dysmorphology (CSD) protocol, which includes a response to a click box test (absence is indicative of a strong hearing deficit) and visual inspection for behavioural signs that may indicate vestibular dysfunction e.g. head bobbing or circling. ...
TY - JOUR. T1 - Perineal anatomy and urine-voiding characteristics of young women with and without recurrent urinary tract infections. AU - Hooton, Thomas M.. AU - Stapleton, Ann E.. AU - Roberts, Pacita L.. AU - Winter, Carol. AU - Scholes, Delia. AU - Bavendam, Tamara. AU - Stamm, Walter E.. PY - 1999/12/1. Y1 - 1999/12/1. UR - http://www.scopus.com/inward/record.url?scp=0033371663&partnerID=8YFLogxK. UR - http://www.scopus.com/inward/citedby.url?scp=0033371663&partnerID=8YFLogxK. U2 - 10.1086/313528. DO - 10.1086/313528. M3 - Article. C2 - 10585838. AN - SCOPUS:0033371663. VL - 29. SP - 1600. EP - 1601. JO - Clinical Infectious Diseases. JF - Clinical Infectious Diseases. SN - 1058-4838. IS - 6. ER - ...
TY - JOUR. T1 - Ventriculoperitoneal shunt infection due to listeria monocytogenes. AU - Dominguez, Edward A.. AU - Patil, Aron A.. AU - Johnson, William M.. PY - 1994/7. Y1 - 1994/7. UR - http://www.scopus.com/inward/record.url?scp=0028291853&partnerID=8YFLogxK. UR - http://www.scopus.com/inward/citedby.url?scp=0028291853&partnerID=8YFLogxK. U2 - 10.1093/clinids/19.1.223. DO - 10.1093/clinids/19.1.223. M3 - Article. C2 - 7677812. AN - SCOPUS:0028291853. VL - 19. SP - 223. EP - 224. JO - Clinical Infectious Diseases. JF - Clinical Infectious Diseases. SN - 1058-4838. IS - 1. ER - ...
To assess the mortality and resource utilization that results from acute renal failure associated with amphotericin B therapy, 707 adult admissions in which parenteral amphotericin B therapy was given were studied at a tertiary-care hospital. Main outcome measures were mortality, length of stay, and costs; we controlled for potential confounders, including age, sex, insurance status, baseline creatinine level, length of stay before beginning amphotericin B therapy, and severity of illness. Among 707 admissions, there were 212 episodes (30%) of acute renal failure. When renal failure developed, the mortality rate was much higher: 54% versus 16% (adjusted odds of death, 6.6). When acute renal failure occurred, the mean adjusted increase in length of stay was 8.2 days, and the adjusted total cost was $29,823. Although residual confounding exists despite adjustment, the increases in resource utilization that we found are large and the associated mortality is high when acute renal failure occurs ...
Background. Because antiretrovirals are becoming increasingly available in developing countries, we reviewed the findings of studies that have documented highly active antiretroviral therapy (HAART) use in Africa to identify lessons learned. With the World Health Organization (WHO) guidelines used as a frame of reference, we assessed the feasibility of implementing such programs in Africa. Moreover, clinical and laboratory outcomes were compiled to determine the effectiveness of HAART programs.. Methods. We searched academic databases and recent conference abstracts for studies, and we included all studies that documented patients receiving HAART in Africa. In particular, we examined studies for such program features as type of regimen and frequency of monitoring, in addition to evaluations of patient outcomes.. Results. Twenty-eight articles and abstracts involving studies from 14 African countries were reviewed. Overall, 6052 patients (96.4%) were receiving HAART, mainly consisting of 2 ...
Babesia microti causes babesiosis-a zoonosis acquired chiefly in the coastal areas and islands off the northeastern coast of the United States (e.g., Nantucket Island). The sporozoan organism is endemic in rodents and is transmitted by the bite of the tick Ixodes dammini (renamed I. scapularis), the same species of tick that transmits Borrelia burgdorferi, the agent of Lyme disease. Babesia infects red blood cells, causing them to lyse, but unlike plasmodia, it has no exoerythrocytic phase. Asplenic patients and patients being treated with rituximab are affected more severely. ...
Kathleen Freson, Daniel Greene, Ada Hamosh, Ingo Helbig, Courtney Hum, Johanna A. Jähn, Roger James, Roland Krause, Stanley J.F. Laulederkind, Hanns Lochmüller, Gholson J. Lyon, Soichi Ogishima, Annie Olry, Willem H. Ouwehand, Nikolas Pontikos, Ana Rath, Franz Schaefer, Richard H. Scott, Michael Segal, Panagiotis I. Sergouniotis, Richard Sever, Cynthia L. Smith, Volker Straub, Rachel Thompson, Catherine Turner, Ernest Turro, Marijcke W.M. Veltman, Tom Vulliamy, Jing Yu, Julie Von Ziegenweidt, Andreas Zankl, Stephan Züchner, Tomasz Zemojtel, Julius O.B. Jacobsen, Tudor Groza, Damian Smedley, Christopher J. Mungall, Melissa Haendel, Peter N. Robinson ...
POSTER 8 - 3-D VISUALIZATION OF MOUSE EMBRYOS WITH OPTICAL PROJECTION TOMOGRAPHY Walls JR 1, Sled JG 1, Bruneau BG 2, Sharpe J 3, Henkelman RM 1 1 Mouse Imaging Centre, Hospital for Sick Children, Toronto, Canada, 2 Hospital for Sick Children, Toronto, Canada, 3 Human Genetics Unit, Medical Research Council, Edinburgh, United Kingdom The ability to visualize the 3D organization of biological tissue is essential to unravelling its complexities. A new imaging technique called Optical Projection Tomography (OPT), essentially an optical version of X-Ray computed tomography (CT), fills a gap among current imaging modalities by creating molecularly specific, cellular resolution images of specimens up to 1 cc in size. The visualization of a specific genes pattern of expression is essential to gain an understanding of its role. Mutant comparisons performed with OPT are more sensitive to spatial complexity than comparisons performed with serial sectioning techniques that might alter subtle morphology. ...
Church DM, Agarwala R, Chen H-C, Chetvernin S, Ermolaeva O, Geer R, Hlavina W, Jang W, Johnson P, Kans J, Katz K, Kitts P, Lipman D, Meric P, Ostell J, Pruitt K, Resenchuk S, Sapojnikov V, Schuler G, Sherry S, Shkeda A, Wagner L, Tatusova T, Maglott D. 136. THE MOUSE GENOME INFORMATICS DATABASE: A COMPREHENSIVE ONLINE RESOURCE FOR THE MAMMALIAN GENOMICS RESEARCH COMMUNITY ...
Most of the classes in the pre-composed phenotype ontologies are gross anatomy phenotypes - they can be defined in terms of a quality of some part of the body. For example: MP:decreased diameter of femur*; MP:hypothalamus hypoplasia; MP:large lymphoid organs; MP:muscular atrophy; MP:truncated notochord*; MP:motor neuron degeneration*; MP:axon degeneration*; HP:narrow pelvis*; TO:leaf area*; WP:shrunken intestine*; MP:situs inversus* (examples marked with an asterisk are shown in Table 4).. The first step to creating mappings for these pre-composed phenotypes is selection of the appropriate anatomical ontology. For worm and plant phenotypes, there is a single unified gross anatomy ontology covering each. For human phenotypes from HP, we use the FMA, and although the FMA does not include developing structures, this is not currently a limitation because the HP does not include many phenotypes for developing structures such as neural tube.. The MP is intended as a mammalian phenotype ontology. ...
Historically, IFOMIS originated in April 2002 utilizing the Wolfgang Paul Award of the Alexander von Humboldt Foundation to Prof. Barry Smith. Substantial funding was provided also by the Volkswagen Foundation and by the European Commission. IFOMIS comprehends an interdisciplinary research group, with members from Philosophy, Computer and Information Science, Logic, Medicine, and Medical Informatics. Inquiries regarding long- and short-term research visits are welcome. ...
Improving efficiency of disease diagnosis based on phenotype ontology is a critical yet challenging research area. Recently, Human Phenotype Ontology (HPO)-based semantic similarity has been affectively and widely used to identify causative genes and diseases. However, current phenotype similarity measurements just consider the annotations and hierarchy structure of HPO, neglecting the definition description of phenotype terms. In this paper, we propose a novel phenotype similarity measurement, termed as DisPheno, which adequately incorporates the definition of phenotype terms in addition to HPO structure and annotations to measure the similarity between phenotype terms. DisPheno also integrates phenotype term associations into phenotype-set similarity measurement using gene and disease annotations of phenotype terms. Compared with five existing state-of-the-art methods, DisPheno shows great performance in HPO-based phenotype semantic similarity measurement and improves the efficiency of disease
Unsere breite Palette Geheimratskäse diagnostischen Spielbank Esplanade und Lösungen bieten wertvolle Unterstützung für die klinische Entscheidungsfindung. The severity of the flu season, which varies from year to year, and any spread of Ebola in Las Vegas Essen United States, will be critical factors in how strained hospital resources may become. Edward T. Flu season typically begins in November and peaks in January or February. Clinical Infectious Diseases ;57(S3):S-70 and Chief, Division of Infectious Disease Diagnostics, North Shore-Long Island Jewish Health System. North Shore-Long Island Jewish Research Institute; Original Assignee: North Shore-Long Island Jewish claims description 3; Candida infections Diseases claims description 3 heat treatment Methods description 1; heteroatoms Chemical ID=​ The woman had been to South Africa, more than 3, miles (5, km) from the Dr. Bruce Hirsch, an infectious diseases specialist at North Shore University. North Shore-Long Island Jewish Research ...
Faden, R.R., Taylor, H.A., Seiler, N.K. (2003). Consent and compensation: A social compact for smallpox vaccine policy in the event of an attack. Clinical Infectious Diseases, 36(12), 1547-1551.. ...
Shulman, ST; Bisno, AL; Clegg, HW; Gerber, MA; Kaplan, EL; Lee, G; Martin, JM; Van Beneden, C (Sep 9, 2012). Clinical Practice Guideline for the Diagnosis and Management of Group A Streptococcal Pharyngitis: 2012 Update by the Infectious Diseases Society of America.. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 55 (10): e86-102. doi:10.1093/cid/cis629. PMID 22965026. ...
h1,HIV Drug Appears to Prevent Infection Even in High-Risk Settings,/h1, ,p class=byline,by Hannah Guzik, California Health Report ,br /,September 2, 2015,/p, ,p,An HIV drug appears to prevent infection, even in high-risk settings, according to the results of a new study.,/p, ,p,Despite often not using condoms, none of the 657 patients taking the medication in the study had a new HIV infection during two-and-a-half years of observation by researchers at Kaiser Permanente San Francisco Medical Center. The results were ,a href=http://cid.oxfordjournals.org/content/early/2015/09/01/cid.civ778.full.pdf+html,published online,/a, Tuesday by the peer-reviewed journal Clinical Infectious Diseases.,/p, ,p,Nearly all - 99 percent - of the patients in the study were men who have sex with men.,/p, ,p,The results of the study also suggest that patients taking the drug, commercially called Truvada, may be less likely to use condoms than they were before, potentially making them more vulnerable to other ...
ORCID: https://orcid.org/0000-0002-9109-350X (2018) Bacterial risk factors for treatment failure and relapse among patients with isoniazid resistant tuberculosis. BMC Infectious Diseases, Vol 18, Issue 1. Thomas, J. E., Bunn, J., Kleanthous, H., Monath, T. P., Harding, M., Coward, W. A. and Weaver, L. T. (2004) Specific immunoglobulin A antibodies in maternal milk and delayed Helicobacter pylori colonization in Gambian infants. Clinical Infectious Diseases, Vol 39, Issue 8, pp. 1155-1160. Thomas, Jennifer Dolan, Hatcher, Cynthia P, Satterfield, Dara A, Theodore, M Jordan, Bach, Michelle C, Linscott, Kristin B, Zhao, Xin, Wang, Zin, Mair, Raydel, Schmink, Susanna, Arnold, Kathryn E, Stephens, David S, Harrison, Lee H, Hollick, Rosemary A, Andrade, Ana Lucia, Lamaro-Cardosa, Juliana, de Lemos, Ana Paula S, Gritzfeld, Jenna, Gordon, Stephen ...
Shlaes, D.M., Gerding, D.N., John Jr., J.F., et al. (1997) Society for Healthcare Epidemiology of America and Infectious Diseases Society of America Joint Committee on the Prevention of Antimicrobial Resistance Guidelines for the prevention of antimicrobial resistance in hospitals. Clinical Infectious Diseases, 25, 584-599.
Clinical Infectious Disease Specialists 2435 Fire Mesa St., Ste 120 • Las Vegas, NV 89128 702-968-2437 2610 W. Horizon Ridge, Ste. 103 • Henderson, NV 89052 702-586-0202. Dr. Rajat Sood MD, ...
Simon Collins, HIV i-Base. Experience of PrEP use outside a clinical trial in a high incidence population were presented from a retrospective analysis of people accessing care at the Kaiser Permanente Medical Centre in San Francisco, California.. This analysis described all patients at the centre who were evaluated for and started on PrEP from July 2012 (when PrEP was approved in the US) to February 2015. The results were reported by Jonathan Volk and colleagues and are available as an open access paper in the 1 September edition of Clinical Infectious Diseases. [1]. Use was low during the first year (less than 5 to 10 people starting PrEP each month), steadily increasing to approximately 40 people a month at the end of the second year and reaching 50 to 60 for the last six months. Approximately 80% of the 1045 referrals led to an evaluation with at least one clinic visit (n=908) and of these, 657 individuals started PrEP. This cohort was 99% gay men, with one heterosexual women and one ...
REFERENCES Global tuberculosis report 2017. Geneva: World Health Organization; 2017. Licence: CC BY-NCSA 3.0 IGO. Swaminathan S, RekhaB.Pediatric Tuberculosis: Global Overviewand Challenges.Clinical Infectious Diseases 2010; 50(S3):S184-S194 Mengistu AD. The Emerging Concern of Cardiovascular Complications in Children with Human Immunodeficiency Virus Infection in Sub-Saharan Africa: A Systematic Review. ARC Journal of AIDS 2017; 2(2):20-28. Mocumbi AH, Ferreira MB. Neglected Cardiovascular Diseases in Africa. J Am Coll Cardiology 2010;55(7):680-7 HuamanMA, David Henson D, Eduardo Ticona E etal.Tuberculosis and cardiovascular disease:linking the epidemics.Travel Medicine and Vaccines ,2015; 1:10DOI 10.1186/s40794-015-0014-5 Rajesh S, Sricharan K.N, JayaprakashK , Francis N P Monteiro.Cardiac involvement in patients with pulmonary tuberculosis.Journal of Clinical and Diagnostic Research. 2011 ;5(3): 440-442 Liberti A, Altman DG,Tetzlaff J et al. PRISMA statement for reporting systematic reviews ...
Bakker, O. J., Van Santvoort, H. C., Van Brunschot, S., Geskus, R. B., Besselink, M. G., Bollen, T. L., … Timmer, R. (2012). Endoscopic Transgastric vs Surgical Necrosectomy for Infected Necrotizing Pancreatitis: A Randomized Trial. JAMA, 307(10), 1053-1061. doi:10.1001/jama.2012.276. Baron, T.H., & Morgan, D.E. (1999). Acute necrotizing pancreatitis The New England journal of medicine, 340 (18), 1412-1417. Beger, H.G. (1986). Bacterial contamination of pancreatic necrosis. A prospective clinical study. Gastroenterology, 91 (2), 433-438. Bradley, E. L. (1993). A Clinically Based Classification System for Acute Pancreatitis: Summary of the International Symposium on Acute Pancreatitis. Archive Surgery, 128(5), 586590. doi:10.1001/archsurg.1993.01420170122019. Chiu, C. H., Lin, T.Y., & Wu, J. L. (1996). Acute Pancreatitis Associated with Streptococcal Toxic Shock Syndrome, Clinical Infectious Diseases, 22(4), 724-726. doi:/10.1093/clinids/22.4.724. Cusack, T. P., Ashley, E. A., Ling, C. L., ...
In addition to the history and physical examination, clinical diagnosis of CNS infections requires a spinal fluid analysis combined with neuroimaging using either magnetic resonance imaging (MRI) or computed tomography (CT) scan. Microbiologic diagnosis of bacterial infections frequently is made using Gram stain and culture of spinal fluid and blood. Polymerase chain reaction (PCR) assays and serologic tests are also useful. Antimicrobial therapy requires that the antibiotics be bactericidal and that they penetrate the blood-brain barrier. Some CNS infections, such as a brain abscess, often require surgical drainage. ...
aDepartment of Infectious Disease Epidemiology, TB Modelling Group, TB Centre, Centre for the Mathematical Modelling of Infectious Diseases, London School of Hygiene and Tropical Medicine bDepartment of Infection and Population Health, Centre for Infectious Disease Epidemiology, University College London, London, UK cDepartment of Medicine, Institute of Infectious Disease and Molecular Medicine, University of Cape Town dDivision of Clinical Pharmacology, University of Cape Town, Cape Town, South Africa eTuberculosis Research Section, Laboratory of Clinical Infectious Diseases, National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH), Bethesda, Maryland, USA fCentre for Infectious Disease Epidemiology and Research, School of Public Health and Family Medicine, University of Cape Town, Cape Town, South Africa gDepartment of Medicine, Imperial College London hThe Francis Crick Institute Mill Hill Laboratory, London, UK iInstitute of Infectious Diseases and ...
Adachi K, Xu J, Ank B, Watts HD, Mofenson LM, Pilotto JH, Joao E, Santos B, Fonseca R, Kreitchmann R et al.. 2017. Cytomegalovirus Urinary Shedding in HIV-infected Pregnant Women and Congenital Cytomegalovirus Infection.. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America. Abstract ...
Magaret AS, Mujugira A, Hughes JP, Lingappa J, Bukusi EA, de Bruyn G, Delany-Moretlwe S, Fife KH, Gray GE, Kapiga S et al.. 2015. Effect of Condom Use on Per-act HSV-2 Transmission Risk in HIV-1, HSV-2-discordant Couples.. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America. Abstract ...
by Physicians Weekly , Dec 13, 2012. Recent estimates suggest that the direct annual costs of sinusitis are approximately $5.8 billion in the United States, and nearly one in seven Americans is diagnosed with a sinus infection every year. Rhinosinusitis is one of the most common reasons patients seek medical help. It ranks among the top five reasons for antibiotic prescriptions for adults. However, 90% to 98% of patients presenting with symptoms of sinusitis have viral causes and will not benefit from antibiotics. The overuse of antibiotics among this population has contributed largely to the emergence of antimicrobial resistance. The Need for Guidance Clinicians need clear guidance on how to treat patients with rhinosinusitis and on how to differentiate viral from bacterial infections, says Thomas M. File, Jr., MD. In the April 15, 2012 issue of Clinical Infectious Diseases, Dr. File coauthored guidelines from the Infectious Disease Society of America (IDSA) on acute bacterial rhinosinusitis ...
The devastation of the last two years of the Ebola crisis in West Africa was made all the more daunting by a predictable aspect of its toll. The health workers who represented the best hope of controlling the outbreak were also at the greatest risk of illness and death. By the dwindling days of the epidemic across Guinea, Sierra Leone and Liberia, at least 500 of the more than 11,300 people who had lost their lives to virus were health workers.. That illness is an occupational hazard on the front lines of health care is not new, a Clinical Infectious Diseases supplement on tuberculosis control in health settings notes, but it continues to be neglected at every level. And, as authors of one article note, while the death toll of the 2014-2015 Ebola outbreak is replicated by tuberculosis every three days worldwide, health workers in high burden and low-resource settings face risks at least three times those of the general population. They include doctors, nurses, counselors, administrative staff, ...
After an airline passenger vomited on a plane, almost half of flight attendants who subsequently worked on the same plane developed gastrointestinal symptoms, and two who submitted stool samples were infected with norovirus, according to a study in Clinical Infectious Diseases. Researchers analyzed data from nine flights over 6 days of a Boeing 777-200 after a passenger vomited on the plane and flight attendants subsequently began getting sick. Eight of the flights were international legs that lasted longer than 10 hours. Of the 77 attendants who worked those flights, 63 provided information, and, of those, 27 (43%) met the case definition for gastroenteritis. The attack rate rose to 79% for crew supervisors and declined over time. Two patients who worked different flights provided stool samples, both of which tested positive for norovirus. The authors write, Findings from our investigation suggest that flight attendants were infected through their work on the airplane, with transmission ...
Source: Donald A. Henderson, etal, Smallpox Vaccination in 2003: Key Information for Clinicians, Clinical Infectious Diseases, Vol. 36: 883-902, (2003).. Now, four months after the campaign has commenced, impediments to participation have brought it to a virtual standstill. The program has proven to be less popular, medically riskier and more expensive than anticipated. Many health care professionals maintain the benefits of the program do not justify the risks and recommend it be delayed until there is clear evidence a smallpox attack is imminent.[3] Furthermore, more than a dozen states have suspended vaccination until more is learned about its recent link to myocarditis and heart attacks.[4]. What measures can be taken to bolster this policys waning success, and should they be taken? Initiating a large-scale vaccination effort against a disease that is no longer a natural threat presents many challenges for the medical community. A look at the history of smallpox in the U.S. and the ...
The Holy Grail of neurosyphilis is a specific and sensitive diagnostic test that can be done on cerebrospinal fluid (CSF) to diagnosis this disease. The goal of the study by Vanhaecke et al, reported in this issue of Clinical Infectious Diseases, was to study the utility of polymerase chain reaction (PCR) for the tpp47 gene of Treponema pallidum in 40 patients with well-documented neurosyphilis [1]. But, as the authors themselves state, Neurosyphilis has multiple clinical presentations, and there is no consensus concerning its definition. For reasons that I will explore below, confusion over the diagnosis of neurosyphilis leaves this reader uncertain as to which patients in Vanhaecke et als series of 40 cases actually had neurosyphilis. In this context, the addition of PCR does not look to be very helpful. During the incubation period leading up to the appearance of a chancre, and while the chancre is present, T. pallidum disseminates widely throughout the body. Organisms may be found in ...
Patients are not at increased risk of Guillain-Barre syndrome in the six-week period after vaccination with any vaccine, including influenza, according to a Kaiser Permanente study published in Clinical Infectious Diseases.. The retrospective study by researchers at the Kaiser Permanente Vaccine Study Center spanned 13 years and was controlled for seasonality.. If there is a risk of Guillain-Barré syndrome following any vaccine, including influenza vaccines, it is extremely low, said Roger Baxter, MD, co-director of the Kaiser Permanente Vaccine Study Center.. During the 13-year period (1994-2006), 415 confirmed cases of Guillain-Barré syndrome were observed. Within this group, the researchers found only 25 patients had received any vaccine in the six weeks prior to the onset of the disease. The study also found that 277 patients had a respiratory or gastrointestinal illness in the 90 days preceding the onset.. Guillain-Barré syndrome is an acute disease thought to be an autoimmune disorder ...
For a number of years it was widely felt that the first of the new so-called 5th Generation, or anti-MRSA cephalosporins would be ceftobiprole. This drug, a joint venture by the Swiss company Basilea and Johnson & Johnson had come under some fire from the FDA (see my blog entry from Dec 31, 2009) and now looks like it has pretty much been abandoned, at least here in the US. Even in Canada, where it had been approved for complicated skin and skin structure infections (cSSSI), as of April 2010 sales have been discontinued.. While all of the hoopla surrounded ceftobiprole, another drug was pretty quietly making its way through the clinical trial process; ceftaroline. Ceftaroline is being developed by Cerexa Inc., a wholly owned subsidiary of New Yorks Forest Pharmaceuticals under license from Takeda in Japan. This month has proven to be an important one for this antibiotic. In the September 15 issue of Clinical Infectious Diseases the results of their cSSSI trial, named the CANVAS study have ...
Originally published by CIDRAP News May 31. Livestock-associated methicillin-resistant Staphylococcus aureus (LA-MRSA) appears to be spreading further into the community and healthcare settings in Denmark, researchers reported yesterday in Clinical Infectious Diseases.. In the study, researchers evaluated data on all Danish patients who were registered as having had an episode of MRSA bloodstream infection (BSI) or skin and soft tissue infection (SSTI) from 2010 through 2015. Using molecular sequencing tests, they set out to determine how many were caused by LA-MRSA clonal complex 398 (CC398), which has been causing an increasing number of human infections in Denmark and other European countries with industrial pig production. While SSTIs caused by LA-MRSA CC398 have been studied and are mainly associated with livestock workers, less is known about the strains impact on BSIs.. The researchers also wanted to compare LA-MRSA CC398 BSI cases to SSTI cases caused by the strain and to BSI cases ...
PubMedID: 25995207 | Clinical Features of Patients With Ebola Virus Disease in Sierra Leone. | Clinical Infectious Diseases | 8/15/2015
Zanger, P., Nurjadi, D., Gaile, M., Gabrysch, S. and Kremsner, P.G. (2012) Hormonal Contraceptive Use and Persistent Staphylococcus aureus Nasal Carriage. Clinical Infectious Diseases, 55, 1625-1632.
The Src family kinase (SFK) member SRC is a major target in drug development because it is activated in many human cancers, yet deleterious SRC germline mutations have not been reported. We used genome sequencing and Human Phenotype Ontology patient coding to identify a gain-of-function mutation in SRC causing thrombocytopenia, myelofibrosis, bleeding, and bone pathologies in nine cases. Modeling of the E527K substitution predicts loss of SRCs self-inhibitory capacity, which we confirmed with in vitro studies showing increased SRC kinase activity and enhanced Tyr419 phosphorylation in COS-7 cells overexpressing E527K SRC. The active form of SRC predominates in patients platelets, resulting in enhanced overall tyrosine phosphorylation. Patients with myelofibrosis have hypercellular bone marrow with trilineage dysplasia, and their stem cells grown in vitro form more myeloid and megakaryocyte (MK) colonies than control cells. These MKs generate platelets that are dysmorphic, low in number, highly ...
These examples vividly illustrate how technology has brought beneficial change to entertainment, retailing and education, so the question is why cant we use technology to change the body politic?. As the founder of Social Revolution, I am trying to do just that. Social Revolution aims to harness innovative ideas through crowdsourcing, and distill them into a Business Plan for U.S.A. to help propel the country forward.. Were going to crowdsource ideas in five key areas - education, healthcare, business, finance and government. All these sectors are clearly ripe for a major disruption.. To manage the idea stream, were relying on an innovative crowdsourcing platform from Pleasanton, Calif.-based Spigit. If youre a company or individual that wants real change, and have a cogent idea about how to implement it, we want to hear from you. If youre using technology to make things better, we need to hear from you.. At Social Revolution, we believe that applying the new technologies offered by ...
Windows SharePoint Services manages what a user account can do with permissions. There is a large list of set permissions that are available at the web application level. These permissions, when applied to a user account, govern what it can do. Permissions are generally grouped together in what are called permission levels, to be applied to users based on the type of role they will play, or tasks they will perform in Windows SharePoint Services. There are a few default permission levels, such as full control (which usually is applied to administrators who require all permissions to be enabled), or contribute (which is usually applied to users who will be viewing content, adding content, editing content, etc.). Individual permissions cant be applied to users directly, but permission levels can. For the convenience of administrators, in addition to permission levels putting together useful permissions into role based combinations, Windows SharePoint Services uses another convention; the ...
TY - JOUR. T1 - Beyond knockouts: cre resources for conditional mutagenesis. AU - Murray, Stephen A. AU - Eppig, Janan. AU - Smedley, Damian. AU - Simpson, Elizabeth M. AU - Rosenthal, Nadia Alicia. PY - 2012. Y1 - 2012. N2 - With the effort of the International Phenotyping Consortium to produce thousands of strains with conditional potential gathering steam, there is growing recognition that it must be supported by a rich toolbox of cre driver strains. The approaches to build cre strains have evolved in both sophistication and reliability, replacing first-generation strains with tools that can target individual cell populations with incredible precision and specificity. The modest set of cre drivers generated by individual labs over the past 15+ years is now growing rapidly, thanks to a number of large-scale projects to produce new cre strains for the community. The power of this growing resource, however, depends upon the proper deep characterization of strain function, as even the best ...
Bio-ontologies provide terminologies for the scientific community to describe biomedical entities in a standardized manner. There are multiple initiatives that are developing biomedical terminologies for the purpose of providing better annotation, data integration and mining capabilities. Terminology resources devised for multiple purposes inherently diverge in content and structure. A major issue of biomedical data integration is the development of overlapping terms, ambiguous classifications and inconsistencies represented across databases and publications. The disease ontology (DO) was developed over the past decade to address data integration, standardization and annotation issues for human disease data. We have established a DO cancer project to be a focused view of cancer terms within the DO. The DO cancer project mapped 386 cancer terms from the Catalogue of Somatic Mutations in Cancer (COSMIC), The Cancer Genome Atlas (TCGA), International Cancer Genome Consortium, Therapeutically Applicable
Medical ontologies are expected to contribute to the effective use of medical information resources that store considerable amount of data. In this study, we focused on disease ontology because the complicated mechanisms of diseases are related to concepts across various medical domains. The authors developed a River Flow Model (RFM) of diseases, which captures diseases as the causal chains of abnormal states. It represents causes of diseases, disease progression, and downstream consequences of diseases, which is compliant with the intuition of medical experts. In this paper, we discuss a fact repository for causal chains of disease based on the disease ontology. It could be a valuable knowledge base for advanced medical information systems. We developed the fact repository for causal chains of diseases based on our disease ontology and abnormality ontology. This section summarizes these two ontologies. It is developed as linked data so that information scientists can access it using SPARQL queries
A free online platform is being developed that uses a crowdsourcing approach to make public gene expression data more accessible to biomedical researchers.
The trend of open collaboration has led to innovation across multiple industries. For decades, big pharma has been known as conservative and slow to change. Today however, there is a growing movement toward open access and crowdsourcing scientific information to accelerate research and development.
The trend of open collaboration has led to innovation across multiple industries. For decades, big pharma has been known as conservative and slow to change. Today however, there is a growing movement toward open access and crowdsourcing scientific information to accelerate research and development.
Are there additional ways that biochemists could benefit from crowdsourcing? What if there was a website for biochemists to compare notes in their roles as customers regarding their experiences with journals and with vendors. For example, 2011 has been a good year for my research group in terms of paper publishing. Four original research articles made it through the evaluation process, and two more are about to be submitted. Each of these will appear in a different journal, and my experience with each journal was distinct. The manuscript-submission websites varied in terms of ease of use, clarity and time required to complete the submission; the time for review varied significantly; the quality of the reviews differed; and each paper was subject to a different level of academic editor oversight. Scientists gossip about such differences, but what if there were a Biochemadvisor.com website with reviews of our experiences as customers of different journals? Whenever I am planning a trip to a new ...
Although domain-centric annotations hold great promise in describing phenotypic nature of independent domains, most domains themselves may not just work alone. In multi-domain proteins, they may be combined together to form distinct domain architectures. The recombination of the existing domains is considered as one of major driving forces for phenotypic diversificaation. As an extension, we have also generated supra-domain phenotype ontology and its annotations. Compared to domain-centric phenotype ontology and annotations (SCOP domains at the Superfamily level and Family level), this version focuses on supra-domains and individual SCOP domains ONLY at the Superfamily level. Besides, in terms of individual superfamilies, their annotations from the domain-centric version may be different from those from supra-domains version. Depending on your focus, the former should be used for the consideration of both the Superfamily level and Family level, otherwise the latter should be used if you are ...
Although domain-centric annotations hold great promise in describing phenotypic nature of independent domains, most domains themselves may not just work alone. In multi-domain proteins, they may be combined together to form distinct domain architectures. The recombination of the existing domains is considered as one of major driving forces for phenotypic diversificaation. As an extension, we have also generated supra-domain phenotype ontology and its annotations. Compared to domain-centric phenotype ontology and annotations (SCOP domains at the Superfamily level and Family level), this version focuses on supra-domains and individual SCOP domains ONLY at the Superfamily level. Besides, in terms of individual superfamilies, their annotations from the domain-centric version may be different from those from supra-domains version. Depending on your focus, the former should be used for the consideration of both the Superfamily level and Family level, otherwise the latter should be used if you are ...
Description: Ontology alignment, the task of identifying mappings between ontologies, is a key task for knowledge sharing between applications that use different ontologies. Manual alignment is time-consuming and difficult when dealing with large ontologies, which are common in biomedical domain, while automatic alignment shows low coverage. We present a tool with user-friendly GUI for semi-automatic ontology alignment, called NViz. It helps human experts focus on pairs of ontology clusters that are likely to have missing mappings. NViz utilizes a state of-the-art system of ontology alignment, called BOAT, and a hierarchical clustering method. Institution: Nanyang Technological University Contacts: Watson W.K. Chua, Jung-jae Kim, Bui Duc Hieu Home Page: http://nlp.sce.ntu.edu.sg/wiki/projects/nviz/NViz.html ...
There are currently no human or mouse genes associated with this disease in the MGI database. Synonyms: Andermann syndrome; Charlevoix disease; corpus callosum agenesis-neuronopathy syndrome
There are currently no human or mouse genes associated with this disease in the MGI database. Synonyms: Band-shaped keratopathy
Dr. Dennis W. Stevenson, from the New York Botanic Garden, and Planteome Project Co-PI, delivered one of the Keynote addresses at recent International Conference on Biological Ontology & BioCreative meeting (#ICBO2016) in Corvallis, OR. The talk titled Plant Phenomes to Genomes: Integrating the Gene Ontology with the Plant Ontology can be viewed on the YouTube Channel: https://t.co/I2XhnjDXZ6.. Please visit the conference web page for more information about the ICBO meeting: http://icbo.cgrb.oregonstate.edu/. ...
At one level, there is essentially no difference. For example, any user with CONTROL permissions can perform the same actions that an object owner can. This is done through some implicit mappings to the database owner. The sysadmin role is automatically mapped to the database owner role in every database and you do not need to add any member of the sysadmin role as a user in any database, the same goes for any login with CONTROL SERVER permission. A member of the db_owner role is automatically an owner of every schema and every object within a schema without ever needing to grant permissions, the same goes for any user with CONTROL DATABASE permission ...
Downloadable! The goal of this paper is to estimate the market consensus forecast of future monetary policy development and to quantify the priced-in probability of interest rate changes for different future time horizons. The proposed model uses the current spot money market yield curve and available money market derivative instruments (forward rate agreements, FRAs) and estimates the market probability of interest rate changes up to a 12-month horizon. The estimated probabilities and possible interest rate scenarios are consistent with the observed money market and FRA interest rates. Thus, the models output has to be interpreted as a description of the current market consensus on future monetary conditions rather than a tool for predicting or setting the correct level of interest rates. The estimation method is based on standard money market data and thus is applicable to any developed financial market. The probability structure of expected interest rate changes in the future could serve as an
"Finto: MeSH: Streptomyces antibioticus". finto: Finnish Thesaurus and Ontology Service. Retrieved 10 August 2015. Atta, Houssam ... isolation and biological properties". Journal of Saudi Chemical Society. 19 (1): 12-22. doi:10.1016/j.jscs.2011.12.011. Oh, ...
Chicco, Davide; Masseroli, Marco (2019). "Biological and Medical Ontologies: Protein Ontology (PRO)". Encyclopedia of ... "GeorgeTown.edu - Protein Ontology". Archived from the original on 2011-03-10. Retrieved 2017-12-04. ... The Protein Ontology (PRO) is another popular database released by the Protein Information Resource. http://pir.georgetown.edu ...
The Open Biological and Biomedical Ontologies (OBO; formerly Open Biomedical Ontologies) is an effort to create ontologies ( ... the CheBI ontology, the Disease Ontology, the Plant Ontology, the Sequence Ontology, the Ontology for Biomedical Investigations ... Most ontology developers in OBO use the Protégé ontology editor and the Web Ontology Language (OWL) for building ontologies. To ... The Open Biological and Biomedical Ontologies (OBO) Foundry is a group of people dedicated to build and maintain ontologies ...
See also: Jesús Mosterín (1994). "Mereology, Set Theory, and Biological Ontology". In D. Prawitz and D. Westerståhl (eds.): ... Mosterín has also tackled issues like the definition of life itself or the ontology of biological organisms and species. ... which combines the ontology of animals as paradigmatic individuals with the insights and results of biological research. This ... Concerning the ontological thesis of Michael Ghiselin and David Hull on the individuality of biological species, Mosterín shows ...
Illinois University Biological Computer Laboratory BCL Report 3.0. Urbana: Biological Computer Laboratory, University of ... In 1962, he published Cybernetic ontology and transjunctional operations. Later he lectured at the University of Hamburg until ... ISBN 3-7873-1033-9. 1962, Cybernetic Ontology and Transjunctional Operations. University of Illinois, Engineering Experiment ...
Dybkaer, René (2004). "An ontology on property for physical, chemical, and biological systems". APMIS Suppl. (117): 1-210. PMID ...
Proceedings of the 9th International Conference on Biological Ontology: 2. Archived (PDF) from the original on 2019-01-14. ... Wimalanathan, Kokulapalan; Lawrence-Dill, Carolyn J. (18 October 2019). "Gene Ontology Meta Annotator for Plants". doi:10.1101/ ... Braun, Ian; Lawrence-Dill, Carolyn (2018). "Computational Classification of Phenologs Across Biological Diversity" (PDF). ... "An ontology approach to comparative phenomics in plants". Plant Methods. 11 (1): 10. doi:10.1186/s13007-015-0053-y. PMC 4359497 ...
Biological Species, Ontology, and the Metaphysics of Biology. Lanham, MD: Lexington Books. pp. 8. ISBN 0-7391-0503-5. Loux, ... ISBN 0-912516-35-6. Cocchiarella, Nino B. (2007). Formal Ontology and Conceptual Realism. Dordrecht: Springer Science & ... Peirce also held as a matter of ontology that what he called "thirdness", the more general facts about the world, are extra- ... he was a nominalist in his ontology: From every point of view, the overwhelming and portentous character ascribed to universal ...
"carbamoyl group (CHEBI:23004)". ChEBI: The database and ontology of Chemical Entities of Biological Interest. European ... Shaw WV, Tsai L, Stadtman ER (Feb 1966). "The enzymatic synthesis of N-methylglutamic acid". The Journal of Biological ... Identification of p35 as a novel regulatory subunit". The Journal of Biological Chemistry. 271 (1): 471-7. doi:10.1074/jbc. ... "EC 2.9.1". School of Biological & Chemical Sciences at Queen Mary, University of London. Nomenclature Committee of the ...
Stamos, D.N. (2003). The species problem: Biological species, ontology, and the metaphysics of biology. Lanham: Lexington Books ... The term species was just used as a term for a sort or kind of organism, until in 1686 John Ray introduced the biological ... He argued for what came to be called the Biological Species Concept (BSC), that a species consists of populations of organisms ... This notion has been heavily criticized as essentialist, but modern realists have argued that while biological natural kinds ...
A database and ontology for chemical entities of biological interest". Nucleic Acids Research. 36 (Database issue): D344-D350. ... and is responsible for leading the team working on Chemical Entities of Biological Interest (ChEBI). He headed the ... "The ChEBI reference database and ontology for biologically relevant chemistry: Enhancements for 2013". Nucleic Acids Research. ...
Stamos, D.N. (2003). The species problem : biological species, ontology, and the metaphysics of biology. Lanham, Md. [u.a.]: ... Biological Journal of the Linnean Society. 94: 217-220. doi:10.1111/j.1095-8312.2008.00984.x. Ashlock, Peter D. (March 1971). " ...
Stamos, David N. (2003). The Species Problem: Biological Species, Ontology, and the Metaphysics of Biology. Lexington Books. p ... Unlike the biological species concept, a cladistic species does not rely on reproductive isolation - its criteria are ... Pimentel, David (2014). Biological Invasions: Economic and Environmental Costs of Alien Plant, Animal, and Microbe Species. CRC ... Most modern textbooks make use of Ernst Mayr's 1942 definition, known as the Biological Species Concept as a basis for further ...
A database and ontology for chemical entities of biological interest". Nucleic Acids Research. 36 (Database issue): D344-50. ... Sackmann, W.; Kern, H., Wiesmann, E.; Studies on the biological effects of solanine and tomatine.; Schweiz. Z. Allg. Pathol. ... Journal of Biological Chemistry. 289 (21): 14913-14924. doi:10.1074/jbc.M114.556241. PMC 4031541. PMID 24719321. Ebert, S. M.; ... Journal of Biological Chemistry. 290 (42): 25497-25511. doi:10.1074/jbc.M115.681445. PMC 4646196. PMID 26338703. Fujiwara, Y; ...
Biological database Biological data visualization InterMine - an open-source biological data warehouse system Doms, A.; ... constructed a lattice work of three ontologies (for anatomy and development of model organisms) on a novel framework ontology ... For example, various 'omics' datasets may be integrated to provide biological insights into biological systems. Examples ... in this ontology would return the heart plans for each of the vertebrate species whose ontologies were included. The stated ...
... evolutionary ontology, and biological nomenclature. The standard author abbreviation Lidén is used to indicate this person as ...
"The ontology covers three distinct aspects of gene function: molecular function, cellular component, and biological process". ... The Gene Ontology Consortium (2019-01-08). "The Gene Ontology Resource: 20 years and still going strong". Nucleic Acids ... An Ontology-Based Information Retrieval and Extraction System for Biological Literature". PLOS Biology. 2 (11): e309. doi: ... He also serves as a primary investigator for the Gene Ontology Consortium. The consortium provides knowledge on the functions ...
Ontology-Based Integration and Preprocessing of Distributed Data. Biological and Medical Data Analysis. Springer Berlin ... Here is the idea to build a dedicated ontology which explains on a higher level what the problem is about. The Protégé ( ... F. Mary Harin Fernandez and R. Ponnusamy (2016). "Data Preprocessing and Cleansing in Web Log on Ontology for Enhanced Decision ... Culmone, Rosario and Falcioni, Marco and Quadrini, Michela (2014). An ontology-based framework for semantic data preprocessing ...
2003). Using an Ontology to Evaluate a Large Rule Based Ontology: Theory and Practice. {\em Performance Metrics for Intelligent ... Knowledge Sharing across Biological and Medical Knowledge Based Systems, AAAI. Douglas Lenat and R. V. Guha (1990). Building ... Stephen Reed and D. Lenat (2002). "Mapping Ontologies into Cyc". In: AAAI 2002 Conference Workshop on Ontologies For The ... Expressivity and Efficiency in a Common-Sense Ontology". In: Papers from the AAAI Workshop on Contexts and Ontologies: Theory, ...
Gene ontology. Molecular function. • molecular function. Cellular component. • cellular component. Biological process. • ...
Bourlard, H.; Kamp, Y. (1988). "Auto-association by multilayer perceptrons and singular value decomposition". Biological ... Chicco, Davide; Sadowski, Peter; Baldi, Pierre (2014). "Deep autoencoder neural networks for gene ontology annotation ...
He is also a co-organizer of the biological visualization conference Vizbi. Hunter cofounded and was a member of the Board of ... Livingston, Kevin M.; Bada, Michael; Baumgartner, William A.; Hunter, Lawrence E. (2015-04-23). "KaBOB: ontology-based semantic ... "VIZBI - Visualizing Biological Data". Vizbi.org. Retrieved 12 April 2018. ... in particular bio-ontologies, to the analysis of high-throughput data and of biomedical texts. He has proposed ...
"Ontology development 101: A guide to creating your first ontology." (2001). McGuinness, Deborah L., and Frank Van Harmelen. " ... On the Use of Multivariate Methods for Analysis of Data from Biological Networks. Processes July 2017, 5(3), 36; doi:10.3390/ ... "OWL web ontology language overview." W3C recommendation 10.2004-03 (2004): 10. Bechhofer, Sean, et al. "OWL web ontology ... She is also well known in the field for co-authoring the World Wide Web Consortium (W3C)'s recommendation for an Ontology Web ...
"The database and ontology of Chemical Entities of Biological Interest". EMBL-EBI, European Molecular Biology Laboratory, ...
It plays a role in the text mining of biological literature and the development of biological and gene ontologies to organize ... Biological ontologies are directed acyclic graphs of controlled vocabularies. They are designed to capture biological concepts ... A gene ontology category, cellular component, has been devised to capture subcellular localization in many biological databases ... The OBO Foundry was an effort to standardise certain ontologies. One of the most widespread is the Gene ontology which ...
Biological Theory 12 (2): 99-111. To Increase Trust, Change the Social Design behind Aggregated Biodiversity Data. Franz, Nico ... "Coordinating Dissent as an Alternative to Consensus Classification: Insights from Systematics for Bio-Ontologies." Sterner, ... Each concept represents a unique biological circumscription and has been assigned a unique alphanumeric ID called Avibase ID. ... Philosophical Transactions of the Royal Society B: Biological Sciences 370 (1662): 20140013. "Conservation in Austral and ...
Chemical Entities of Biological Interest, also known as ChEBI, is a chemical database and ontology of molecular entities ... a database and ontology for chemical entities of biological interest". Nucleic Acids Research. 36 (Database issue): D344-50. ... "Chemical Entities of Biological Interest: an update". Nucleic Acids Research. 38 (Database issue): D249-54. doi:10.1093/nar/ ... focused on 'small' chemical compounds, that is part of the Open Biomedical Ontologies (OBO) effort at the European ...
A database and ontology for chemical entities of biological interest". Nucleic Acids Research. 36 (Database issue): D344-D350. ... Reference Genome Group of the Gene Ontology Consortium (2009). Bourne, Philip E. (ed.). "The Gene Ontology's Reference Genome ... "Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium". Nature Genetics. 25 (1): 25-29. doi:10.1038/ ... Wroe, C. J.; Stevens, R.; Goble, C. A.; Ashburner, M. (2003). "A methodology to migrate the gene ontology to a description ...
David N. Stamos (2003). The Species Problem: Biological Species, Ontology, and the Metaphysics of Biology. Lexington Books. p. ...
Gene ontology analysis provides a standard way to define these relationships. Gene ontologies start with very broad categories ... Finally, it takes a great amount of effort to discuss the biological significance of each regulated gene, so scientists often ... Breitling R (2006). "Biological microarray interpretation: the rules of engagement" (PDF). Biochim. Biophys. Acta. 1759 (7): ... Commonly used gene sets include those derived from KEGG pathways, Gene Ontology terms, gene groups that share some other ...
Gene ontology. Molecular function. • transcription factor activity, sequence-specific DNA binding. • RNA polymerase II ... Biological process. • anterior/posterior pattern specification. • multicellular organism development. • anterior/posterior axis ...
Gene ontology. Molecular function. • ion channel activity. • benzodiazepine receptor activity. • chloride channel activity. • ... Biological process. • gamma-aminobutyric acid signaling pathway. • chloride transmembrane transport. • ion transport. • ...
Gene ontology. Molecular function. • acrosin binding. • GO:0001948 protein binding. • carbohydrate binding. • identical protein ... Biological process. • positive regulation of inflammatory response. • positive regulation of leukocyte migration. • positive ... "Biological effects of recombinant human zona pellucida proteins on sperm function". Biol. Reprod. 74 (4): 760-8. doi:10.1095/ ...
Biological process. • lipid transport. • positive regulation of sequestering of triglyceride. • triglyceride homeostasis. • ... Gene ontology. Molecular function. • lipid transporter activity. Cellular component. • high-density lipoprotein particle. • ...
Gene ontology. Molecular function. • DNA binding. • sequence-specific DNA binding. • transcription factor activity, sequence- ... Biological process. • regulation of apoptotic process. • pronephros development. • regulation of metanephric nephron tubule ... The Journal of Biological Chemistry. 278 (5): 3395-402. doi:10.1074/jbc.M205977200. PMID 12441357.. ... The Journal of Biological Chemistry. 272 (49): 30678-87. doi:10.1074/jbc.272.49.30678. PMID 9388203.. ...
Gene ontology. Molecular function. • DNA binding. • sequence-specific DNA binding. • transcription factor activity, sequence- ... Biological roleEdit. Knockout mice of the PR have been found to have severely impaired lobuloalveolar development of the ... Biological process. • regulation of transcription, DNA-templated. • cell-cell signaling. • negative regulation of gene ... In vitro phosphorylation by casein kinase II". The Journal of Biological Chemistry. 269 (49): 31034-40. PMID 7983041.. ...
... at the Indiana Philosophy Ontology Project. *Internet Encyclopedia of Philosophy entries: *"Foreknowledge and Free ... Other forms of determinism are more relevant to compatibilism, such as biological determinism, the idea that all behaviors, ... and biological, cultural and psychological determinism feed the development of compatibilist models. Separate classes of ... in which case it represents a form of biological determinism.[94] ...
Gene ontology. Molecular function. • PDZ domain binding. • cadherin binding. • peptidase activity. • beta-catenin binding. • ... Biological process. • negative regulation of neuron apoptotic process. • somitogenesis. • positive regulation of protein ...
... is a book about ontology, science, paranormal events, and epistemology. Wilson identifies what he calls " ... comments on book-burning, biological surrealism and Game Rules. 'Two More Heretics and Some Further Blasphemies' comments on ...
Gene ontology. Molecular function. • nucleotide binding. • DNA binding. • DNA-dependent ATPase activity. • recombinase activity ... Series B, Biological Sciences. 359 (1441): 87-93. doi:10.1098/rstb.2003.1368. PMC 1693300 . PMID 15065660.. ... Biological process. • regulation of protein phosphorylation. • strand invasion. • mitotic recombination-dependent replication ... The Journal of Biological Chemistry. 274 (18): 12748-52. doi:10.1074/jbc.274.18.12748. PMID 10212258.. ...
An integral membrane protein (IMP) is a type of membrane protein that is permanently attached to the biological membrane. All ... Search integral membrane proteins in the PDB (based on gene ontology classification) ... The most common type of IMP is the transmembrane protein (TM), which spans the entire biological membrane. Single-pass membrane ...
Gene ontology. Molecular function. • calcium channel activity. • metal ion binding. • voltage-gated ion channel activity. • ion ... Biological process. • calcium ion transport into cytosol. • regulation of insulin secretion. • regulation of cardiac muscle ... Evidence for alternative splicing of the transcripts of three non-allelic genes". The Journal of Biological Chemistry. 265 (33 ... The Journal of Biological Chemistry. 270 (18): 10540-3. doi:10.1074/jbc.270.18.10540. PMID 7737988.. ...
Biological process. • sensory perception of smell. • signal transduction. • response to stimulus. • detection of chemical ... Gene ontology. Molecular function. • G-protein coupled receptor activity. • olfactory receptor activity. • signal transducer ... Gregory SG, Barlow KF, McLay KE (2006). "The DNA sequence and biological annotation of human chromosome 1". Nature. 441 (7091 ...
"Biological Altruism". Stanford Encyclopedia of Philosophy. Retrieved 13 May 2011.. *^ Trivers, R.L. (1971). "The evolution of ... Altruism in biological observations in field populations of the day organisms can be defined as an individual performing an ...
Biological process. • lipid metabolism. • fatty acid metabolic process. • metabolism. • cardiolipin acyl-chain remodeling. • ... Gene ontology. Molecular function. • transferase activity. • transferase activity, transferring acyl groups other than amino- ... The Journal of Biological Chemistry. 278 (45): 44894-903. doi:10.1074/jbc.m307782200. PMID 12933794.. ...
Gene ontology. Molecular function. • amyloid-beta binding. • signal transducer activity. • Wnt-protein binding. • protein ... Biological process. • G-protein coupled receptor signaling pathway. • T cell differentiation in thymus. • chorionic trophoblast ...
Third ... from the point of view of biological engineering, it is just more efficient and in the end more rational that ...
... only mean biological parent or mother and not social parent or mother. ... OWL ontologies can import other ontologies, adding information from the imported ontology to the current ontology.[17] ... The W3C OWL 2 Web Ontology Language provides syntax examples.[39]. Tea ontology[edit]. Consider an ontology for tea based on a ... The Web Ontology Language (OWL) is a family of knowledge representation languages for authoring ontologies. Ontologies are a ...
Biological process. • metabolism. • tricarboxylic acid cycle. • oxidation-reduction process. • acetyl-CoA biosynthetic process ... Gene ontology. Molecular function. • oxidoreductase activity. • pyruvate dehydrogenase (acetyl-transferring) activity. • ... The Journal of Biological Chemistry. 278 (23): 21240-6. doi:10.1074/jbc.m300339200. PMID 12651851.. ... The Journal of Biological Chemistry. 279 (8): 6921-33. doi:10.1074/jbc.m308172200. PMID 14638692.. ...
Biological process. • regulation of transcription, DNA-templated. • transcription, DNA-templated. • negative regulation of ... Gene ontology. Molecular function. • protein binding. • transcription corepressor activity. • nucleic acid binding. ...
Biological process. • positive regulation of protein kinase activity. • regulation of cyclin-dependent protein serine/threonine ... Gene ontology. Molecular function. • cyclin-dependent protein kinase 5 activator activity. • lipid binding. ...
I. Isolation and characterization of the protein-glycogen complex". Journal of Biological Chemistry. 245 (24): 6642-6648. PMID ... Browner MF, Fletterick RJ (February 1992). "Phosphorylase: a biological transducer". Trends in Biochemical Sciences. 17 (2): 66 ... The structural basis of the allosteric response and comparison with other allosteric proteins". Journal of Biological Chemistry ... The glycogen phosphorylase dimer has many regions of biological significance, including catalytic sites, glycogen binding sites ...
Witt, edited by Charlotte (2010). Feminist Metaphysics: Explorations in the Ontology of Sex, Gender and Identity. Dordrecht: ... In 1949, French intellectual Simone de Beauvoir wrote that "no biological, psychological or economic fate determines the figure ... Second-wave feminists, influenced by de Beauvoir, believed that although biological differences between females and males were ... This makes it distinct from the definition of the biological female sex,[4][5] as both males and females can exhibit feminine ...
Biological process. • vacuolar sequestering. • cardiac muscle contraction. • muscle cell cellular homeostasis. • neuromuscular ... Gene ontology. Molecular function. • hydrolase activity, hydrolyzing O-glycosyl compounds. • hydrolase activity, acting on ... Characterization of the catalytic site". The Journal of Biological Chemistry. 266 (21): 13507-12. PMID 1856189.. ...
Gene ontology. Molecular function. • receptor binding. • neurotrophin TRKB receptor binding. • growth factor activity. • GO: ... "The Journal of Biological Chemistry. 274 (29): 20693-703. doi:10.1074/jbc.274.29.20693. PMID 10400703.. ... "The World Journal of Biological Psychiatry. 14 (8): 583-89. doi:10.3109/15622975.2011.616533. PMC 3288597. PMID 22047184.. ... "The Journal of Biological Chemistry. 276 (1): 693-99. doi:10.1074/jbc.M008085200. PMID 11024032.. ...
In biological systems, this means that its main reactions are with itself (dismutation) or with another biological radical such ... An enzymic function for erythrocuprein (hein)". The Journal of Biological Chemistry. 244 (22): 6049-55. PMID 5389100.. ... The Journal of Biological Chemistry. 270 (22): 13399-405. doi:10.1074/jbc.270.22.13399. PMID 7768942.. ... The Journal of Biological Chemistry. 281 (10): 6184-93. doi:10.1074/jbc.M509496200. PMID 16407238.. ...
The Gene Ontology Consortium. Retrieved 26 October 2014.. *. Dyce, KM; Sack, WO; Wensing, CJG (2010). Textbook of veterinary ... to enable all biological and medical scientists, veterinarians, doctors and anatomists to precisely delineate and communicate ...
Gene ontology. Molecular function. • identical protein binding. • protein binding. • actin binding. • RNA binding. • cadherin ... Biological process. • muscle organ development. • skeletal muscle tissue development. • actin cytoskeleton organization. • ...
Biological process. • cellular defense response. • myeloid cell differentiation. • negative regulation of myeloid cell ... Gene ontology. Molecular function. • carbohydrate binding. • virus receptor activity. • GO:0001948 protein binding. ...
In this paper we introduce a data mining approach which relates biological ontologies by mining cross and intra-ontology ... Our objective is to discover interesting relations between two different ontologies or parts of a single ontology. The ... We demonstrate this approach by applying it to the analysis of data from Gene Ontology and GPCR databases. ... association rules that are thus discovered can provide the user with new knowledge about underlying biological processes or ...
Full text access increases recall of biological data types from 45 % to 95%. Extraction of particular biological facts, such as ... biological process, etc.). Together they form a catalog of types of objects and concepts called an ontology. After this ... The current ontology comprises 33 categories of terms. A search engine enables the user to search for one or a combination of ... The lexicon of the ontology contains 14,500 entries, each of which includes all versions of a specific word or phrase, and it ...
The Gene Ontology (GO) project is a collaborative effort to address the need for consistent descriptions of gene products ...
... Hang Yin,1 ShaoPeng Wang,2 Yu- ... M. A. Harris, J. I. Deegan, J. Lomax et al., "The gene ontology project in 2008," Nucleic Acids Research, vol. 36, pp. D440- ... L. Chen, C. Chu, J. Lu, X. Kong, T. Huang, and Y.-D. Cai, "Gene ontology and KEGG pathway enrichment analysis of a drug target- ... J. Yang, L. Chen, X. Kong, T. Huang, and Y.-D. Cai, "Analysis of tumor suppressor genes based on gene ontology and the KEGG ...
Existing ontologies, such as the Gene Ontology and others in the Open Biological and Biomedical Ontologies (OBO) Foundry ... we describe the motivation for and ongoing development of a new Biological Collections Ontology, the Environment Ontology, and ... These ontologies share the aim of improving data aggregation and integration across the biodiversity domain and can be used to ... We discuss how these ontologies can be applied to biodiversity use cases that span genetic, organismal, and ecosystem levels of ...
BiNGO can be used either on a list of genes, pasted as text, or interactively on subgraphs of biological networks visualized … ... is an open-source Java tool to determine which Gene Ontology (GO) terms are significantly overrepresented in a set of genes. ... The Biological Networks Gene Ontology tool (BiNGO) is an open-source Java tool to determine which Gene Ontology (GO) terms are ... BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks Bioinformatics. 2005 ...
bp_form_complete-{ontology_id_list}-{value}. * For example, bp_form_complete-NCIT-uri. will use NCI Thesaurus (ontology id is ... var BP_ontology_id = "NCIt,SNOMEDCT"; * You can set the variable to all to search all ontologies in BioPortal: var BP_ ... Note: If you would like to use Quick Jump across multiple ontologies: * You can enter a comma-separated list of ontology ids: ... The autocomplete widget accesses ontology content from the latest version of the ontology. ...
Ontology of Biological and Clinical Statistics LOOM http://purl.obolibrary.org/obo/PR_000000001 Ontology of Biological and ... Chemical Entities of Biological Interest Ontology LOOM http://purl.obolibrary.org/obo/CHEBI_36080 Ontology of Biological ... www.semanticweb.org/pallabi.d/ontologies/2014/2/untitled-ontology-11#Protein Cell Line Ontology [by Mahadevan] LOOM ... www.imgt.org/download/IMGT-ONTOLOGY/IMGT-ONTOLOGY-v1-0-2.owl#protein Immunogenetics Ontology LOOM ...
Existing ontologies, such as the Gene Ontology and others in the Open Biological and Biomedical Ontologies (OBO) Foundry ... we describe the motivation for and ongoing development of a new Biological Collections Ontology, the Environment Ontology, and ... An Introduction to the Biological Collections Ontology and Related Ontologies. ... "Semantics in Support of Biodiversity Knowledge Discovery: An Introduction to the Biological Collections Ontology and Related ...
Gene Ontology (GO) provides a valuable source of knowledge for model training and validation. The increasing collection of ... The results showed that, of the 148 pursued GO biological processes, fifteen terms each had at least one model with FDR- ... Furthermore, we observed that the memberships of the genes involved in all the three pursued children biological processes on ... This study focused on using support vector machines (SVM) to predict GO biological processes from individual or multiple-tissue ...
Pingback: Translation: Simondon and the Physico-Biological Genesis of the Individual « Fractal Ontology ... Fractal Ontology. refracting theory: politics, cybernetics, philosophy. Translation: Simondon, Completion of Section I, Chapter ... It is also not enough to suppose in the knowledge that one takes from the technical operation a paradigm initially biological: ... The internal and external, depth and height, have biological value only through this topological surface of contact. Thus, even ...
Chado is distinctive because its design is driven by ontologies. The use of ontologies (or controlled vocabularies) is ... Biological databases that conform to this schema can interoperate with one another, and with application software from the ... RESULTS Chado is a relational database schema now being used to manage biological knowledge for a wide variety of organisms, ... The Chado schema is partitioned into integrated subschemas (modules), each encapsulating a different biological domain, and ...
Building a Biological Space Based on Protein Sequence Similarities and Biological Ontologies. Author(s): Paul Kersey, David ... Title: Building a Biological Space Based on Protein Sequence Similarities and Biological Ontologies ... Building a Biological Space Based on Protein Sequence Similarities and Biological Ontologies", Combinatorial Chemistry & High ... The use of ontologies to describe protein function provides a flexible and abstract language to classify proteins. Together, ...
... the authors should be in charge of developing a projects semantics and ontology. This will speed up ontology development and ... ontologies). We argue that the authors describing phenotypes are the key to the solution. Given the right tools and appropriate ... Pattern-Based Ontology Design. . In: Suárez-Figueroa MC, Gómez-Pérez A, Motta E, Gangemi A (Eds) Ontology Engineering in a ... Applying ontology design patterns in bio-ontologies. . In: Gangemi A, Euzenat J (Eds) Knowledge Engineering: Practice and ...
... the authors should be in charge of developing a projects semantics and ontology. This will speed up ontology development and ... ontologies). We argue that the authors describing phenotypes are the key to the solution. Given the right tools and appropriate ...
obo-discuss - General discussion list for the open biological ontologies project You can subscribe to this list here. ... Reasoning with biomedical ontologies • Evaluation of biomedical ontologies • Biomedical ontology and the Semantic Web * * * ... Principles-based ontologies are being developed for the description of biological and biomedical phenomena of almost every type ... To be maximally effective, such ontologies must work well together. But as ontologies become more commonly used and as their ...
Ontology 101 (Part-I): A how-to guide to create, manage, and release an OBO ontology. Organizers: Nicole Vasilevsky, James A. ... Ontology 101 (Part-II): A how-to guide to create, manage, and release an OBO ontology. Organizers: Nicole Vasilevsky, James A. ... Phenotype Ontology workshop report (Phenotype Ontology Group) -15 minutes. *Flash Talks (Posters and Demo) - PART I. Posters ... Phenotype Ontologies Traversing All The Organisms (POTATO) (Session-2). Aligning phenotype ontologies using design patterns. ...
Metabolomic technologies are increasingly being applied to study biological questions in a range of different settings from ... Use of ontologies. An ontology may take a variety of forms, but necessarily it will include a vocabulary of terms, and some ... The Journal of Biological Chemistry, 280, 42508-42514.CrossRefPubMedGoogle Scholar ... S1-Description of the biological sample involved in the study1 * Taxonomic classification of organism(s). Please give details ...
a) Gene Ontology analysis for biological process and InterPro categories for CpG sites that were hypomethylated by ,5% in the ... b) Gene Ontology analysis for biological process and InterPro categories for CpG sites that were hypermethylated by ,5% in the ... Gene ontology analysis. Enrichment analysis for biological processes and InterPro categories were conducted using the GREAT ... The biological meaning of these findings is not well understood but some speculations can be made. First, regions with lower ...
147073 Biological Macromolecular Structures Enabling Breakthroughs in Research and Education. Go. Advanced Search , Browse by ...
With the increasing use of metabolomics as a means to study a large number of different biological research questions, there is ... 3.1 Ontology. In this manuscript no specific attention was paid to ontology. The terminology used is that general to the fields ... These working groups include biological sample context, chemical analysis, data analysis, ontology and data exchange (see also ... The biological sample context working group deals with aspects starting from defining the exact biological question to ...
The Ontology of Biological and Clinical Statistics (OBCS) is a community-based open source ontology in the domain of biological ... and extends the Ontology of Biomedical Investigations (OBI), an OBO (Open Biological and Biomedical Ontologies) Foundry ... The Ontology of Biological and Clinical Statistics (OBCS) is put forward here as a step towards solving this problem. The terms ... We discuss two examples illustrating how the ontology is being applied. In the first (biological) use case, we describe how ...
The Gene Ontology Consortium is the set of biological databases and research groups actively involved in the gene ontology ... National Center for Biomedical Ontology. References[edit]. *^ The Gene Ontology Consortium (January 2008). "The Gene Ontology ... "The Gene Ontology Resource". Gene Ontology Consortium.. *^ Sjcarbon,Gene Ontology Consortium Wiki (2013-07-10). "AmiGO_2_Manual ... Terms and ontology[edit]. From a practical view, an ontology is a representation of something we know about. "Ontologies" ...
... open project which seeks to provide an ontology for specifying a wide range of environments relevant to multiple life science ... to accommodate the terminological requirements of all those needing to annotate data using ontology classes. This paper ... The ontology is available from http://purl.obolibrary.org/obo/envo.owl - an OBO format version is also available by switching ... As biological and biomedical research increasingly reference the environmental context of the biological entities under study, ...
Lookup Service is a repository of bio-medical ontologies and provides a powerful REST API for searching and accessing ontology ... Ontology of Biological and Clinical Statistics OBCS. OBCS stands for the Ontology of Biological and Clinical Statistics. OBCS ... OGG: Ontology of Genes and Genomes OGG. OGG is a biological ontology in the area of genes and genomes. OGG uses the Basic ... Non-Coding RNA Ontology NCRO. An ontology for non-coding RNA, both of biological origin, and engineered.. Wed Mar 23 17:07:15 ...
In fact, I think all , biological , , related ontology will perhaps touche on the topic of , experiment in one , , way or the ... Whether an ontology is structured or not, btw, which ontology does not have a structure? has nothing to do with if the ontology ... ontology, you must agree to all assertions made in the ontology. A , , detailed monolithic ontology is what we should avoid. I ... Hence, if each ontologys designers dont factor , , out their ontology design, the eventual result will be a bunch of , , ...
... "in International Conference on Biomedical Ontology (ICBO 2018), 2018.*BibTex ...
Plant Experimental Conditions Ontology LOOM http://purl.obolibrary.org/obo/BFO_0000001 Plant Experimental Conditions Ontology ... http://purl.bioontology.org/ontology/STY/T071 UMLS Semantic Network LOOM Interportal mappings. Delete. Mapping To. Ontology. ... To see all of the ontologies in AgroPortal visit the full site. ... Ontology. Source. Relations. There are currently no external ... Sustainable Development Goals Interface Ontology LOOM http://purl.obolibrary.org/obo/BFO_0000001 Sustainable Development Goals ...
Ontology. Source. Relations. http://data.ifpri.org/lod/at/resource/organization Agricultural and Nutrition Technology Ontology ... http://www.mistea.supagro.inra.fr/ontologies/2016/v4/ontofp#Organization Ontology for Food Processing Experiment LOOM ... http://purl.bioontology.org/ontology/STY/T092 UMLS Semantic Network LOOM http://data.ifpri.org/lod/at/resource/Organization ... Sustainable Development Goals Interface Ontology LOOM http://purl.obolibrary.org/obo/OBI_0000245 Sustainable Development Goals ...
  • In this paper, we describe the motivation for and ongoing development of a new Biological Collections Ontology, the Environment Ontology, and the Population and Community Ontology. (ku.edu)
  • OBCS is aligned with the Basic Formal Ontology (BFO) and extends the Ontology of Biomedical Investigations (OBI), an OBO (Open Biological and Biomedical Ontologies) Foundry ontology supported by over 20 research communities. (biomedcentral.com)
  • An application ontology built for beta cell genomics studies. (ebi.ac.uk)
  • The Cell Cycle Ontology ( http://www.CellCycleOntology.org ) is an application ontology that automatically captures and integrates detailed knowledge on the cell cycle process. (biomedcentral.com)
  • Existing ontologies, such as the Gene Ontology and others in the Open Biological and Biomedical Ontologies (OBO) Foundry library, provide a semantic structure but lack many of the necessary terms to describe biodiversity data in all its dimensions. (ku.edu)
  • [2] [3] GO is part of a larger classification effort, the Open Biomedical Ontologies , being one of the Initial Candidate Members of the OBO Foundry . (wikipedia.org)
  • The upper level ontology upon which OBO Foundry ontologies are built. (ebi.ac.uk)
  • The Gene Ontology ( GO ) is a major bioinformatics initiative to unify the representation of gene and gene product attributes across all species . (wikipedia.org)
  • In fact, the sociology of ontology building-how to get communities to develop and agree on standards-is one of the most challenging and rewarding areas of research, says Peter Lyster, also of NIH's Center for Bioinformatics and Computational Biology. (livescience.com)
  • While it is easy to compare nucleic acid or polypeptide sequences from different bioinformatics resources, the biological knowledge contained in these resources is very difficult to compare as it is represented in a wide variety of lexical forms [ 13 - 15 ], and there are no tools that facilitate an easy comparison and integration of knowledge in this form. (biomedcentral.com)
  • These individuals work in a wide variety of settings, including bioinformatics core facilities, biological and medical research laboratories, software development organizations, pharmaceutical and instrument development companies, and institutions that provide education, service, and training. (wikisource.org)
  • It is our intention that these reporting requirements should guide standardised annotation and support the development of a data exchange format and ontology for the dissemination and meaningful interpretation of environmentally derived metabolomic data. (springer.com)
  • The GO ontology and annotation files are freely available from the GO website [7] in a number of formats, or can be accessed online using the GO browser AmiGO . (wikipedia.org)
  • Genome annotation encompasses the practice of capturing data about a gene product, and GO annotations use terms from the GO ontology to do so. (wikipedia.org)
  • Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. (bioontology.org)
  • SO is a collaborative ontology project for the definition of sequence features used in biological sequence annotation. (obofoundry.org)
  • The Gene Ontology is not the only attempt to build structured controlled vocabularies for genome annotation. (geneontology.org)
  • The evidence code comes from a controlled vocabulary of codes, the Evidence Code Ontology, covering both manual and automated annotation methods. (wikipedia.org)
  • ATOL aims to: - provide a reference ontology of phenotypic traits of farm animals for the international scientificand educational - communities, farmers, etc. (ebi.ac.uk)
  • A series of meetings and workshops laid the foundation for addressing these needs by establishing the ENVO consortium and the ontology itself. (biomedcentral.com)
  • The Gene Ontology Consortium. (nih.gov)
  • SO was initially developed by the Gene Ontology Consortium. (obofoundry.org)
  • It has close links to other ontology projects such as the RNAO consortium, and the Biosapiens polypeptide features. (obofoundry.org)
  • Formation of an Infectious Disease Ontology Consortium (IDOC) whose members have agreed to contribute towards continued development of the core IDO and to develop seven different sub-domain-specific ontologies. (bioontology.org)
  • The Gene Ontology Consortium is supported by a P41 grant from the National Human Genome Research Institute (NHGRI) [grant 2U41HG002273-17 ]. (geneontology.org)
  • Gene Ontology Consortium data and data products are licensed under the Creative Commons Attribution 4.0 Unported License . (geneontology.org)
  • The ontologies are built from a structured, controlled vocabulary. (nih.gov)
  • For each gene in the matrix, the table at right lists the systematic ORF name, the standard gene name (if known), and the GO biological process, molecular function and cellular component annotations for that gene. (nih.gov)
  • The GO annotations suggest that this experimental expression cluster groups gene products involved in the biological process of protein folding. (nih.gov)
  • Such information is extracted from ontology-based functional annotations. (semantic-measures-library.org)
  • Gene Ontology (GO) annotations related to this gene include protein heterodimerization activity and ubiquitin protein ligase binding . (genecards.org)
  • Gene Ontology (GO) annotations related to this gene include protein homodimerization activity and growth factor activity . (genecards.org)
  • Gene Ontology (GO) annotations related to this gene include extracellular matrix structural constituent . (genecards.org)
  • Gene Ontology (GO) annotations related to this gene include nucleotide binding and calmodulin binding . (genecards.org)
  • Gene Ontology (GO) annotations related to this gene include hydrolase activity . (genecards.org)
  • Gene Ontology (GO) annotations related to this gene include sequence-specific DNA binding and protein dimerization activity . (genecards.org)
  • Gene Ontology (GO) annotations related to this gene include G-protein coupled receptor activity and cysteinyl leukotriene receptor activity . (genecards.org)
  • The National Center for Biomedical Ontology was founded as one of the National Centers for Biomedical Computing, supported by the NHGRI, the NHLBI, and the NIH Common Fund under grant U54-HG004028. (bioontology.org)
  • International Conference on Biomedical Ontology: ICBO 2011 ** *** The submission deadline for papers to ICBO 2011 has been extended to March 11, 2011. (sourceforge.net)
  • As biological and biomedical research increasingly reference the environmental context of the biological entities under study, the need for formalisation and standardisation of environment descriptors is growing. (biomedcentral.com)
  • The fission yeast phenotype ontology (FYPO) is a modular ontology that uses several existing ontologies from the open biological and biomedical ontologies (OBO) collection as building blocks, including the phenotypic quality ontology PATO, the Gene Ontology and Chemical Entities of Biological Interest. (nih.gov)
  • This biomedical ontology defines and illustrates the development and anatomy of zebrafish. (livescience.com)
  • SO is also part of the Open Biomedical Ontologies library. (obofoundry.org)
  • The aim of the present study was to identify and better understand biological pathways defining marbling in beef cattle. (frontiersin.org)
  • Transcription Adaptation during In Vitro Adipogenesis and Osteogenesis of Porcine Mesenchymal Stem Cells: Dynamics of Pathways, Biological Processes, Up-Stream Regulators, and Gene Networks. (nih.gov)
  • In the present study we have used transcriptome analysis to unravel pathways and biological functions driving in vitro adipogenesis and osteogenesis in BMSC and ASC. (nih.gov)
  • The background to this meeting is an Infectious Disease Ontology workshop ([http://www.bioontology.org/wiki/index.php/Infectious_Disease_Ontology IDO 2007]), which was organized in Cold Spring Harbor Laboratories in 2007. (bioontology.org)
  • To capitalize on these outcomes and to sustain the momentum gained from the 2007 workshop, we have scheduled a second Infectious Disease Ontology workshop, to be held in Buffalo, NY on September 16-17, 2008. (bioontology.org)
  • The upcoming Infectious Disease Ontology Workshop (see link below under "Meetings") is intended to be both a training workshop for participants and a forum through which we can establish a community for development, maintenance, and use of the Infectious Disease Ontology (IDO). (bioontology.org)
  • In preparation for the workshop, we have prepared a draft infectious disease ontology and hope that workshop attendees will take time to comment on the ontology in advance of the workshop using the discussion page of this wiki. (bioontology.org)
  • ATOL (Animal Trait Ontology for Livestock) is an ontology of characteristics defining phenotypes of livestock in their environment (EOL). (ebi.ac.uk)
  • To provide consistent computable descriptions of phenotype data, PomBase is developing a formal ontology of phenotypes observed in fission yeast. (nih.gov)
  • To facilitate discovery and usability of these data to external users, and also to address the goal of reproducibility, ImmPort is seeking wherever possible to draw on publicly available ontologies such as the Cell Ontology (CL) [ 5 ] and the Protein Ontology (PRO) [ 6 ] as sources for the terms used in these templates. (biomedcentral.com)
  • The rational for the basis of ontology normalization is to separate ontologies' dependency so they can gracefully evolve over time. (w3.org)
  • The goal of FuGO is to identify where the overlap in term needs exists and not duplicate this in separate ontologies. (w3.org)
  • in searches for two uniquely named genes and an interaction term, the ontology confers a 3-fold increase of search efficiency. (psu.edu)
  • The Biological Networks Gene Ontology tool (BiNGO) is an open-source Java tool to determine which Gene Ontology (GO) terms are significantly overrepresented in a set of genes. (nih.gov)
  • BiNGO can be used either on a list of genes, pasted as text, or interactively on subgraphs of biological networks visualized in Cytoscape. (nih.gov)
  • Predictive classification on the base of gene expression profiles appeared recently as an attractive strategy for identifying the biological functions of genes. (biomedcentral.com)
  • For each GO biological process (term) containing at least 4 annotated genes (of our list), eight classification models were trained using support vector machines (SVM) with the seven datasets of the individual tissues or the combined dataset. (biomedcentral.com)
  • Whereas gene nomenclature focuses on gene and gene products, the Gene Ontology focuses on the function of the genes and gene products. (wikipedia.org)
  • The GO also extends the effort by using markup language to make the data (not only of the genes and their products but also of curated attributes) machine readable , and to do so in a way that is unified across all species (whereas gene nomenclature conventions vary by biological taxon ). (wikipedia.org)
  • Three examples illustrate the structure and style used by GO to represent the gene ontologies and to associate genes with nodes within an ontology. (nih.gov)
  • This book provides a practical and self-contained overview of the Gene Ontology (GO), the leading project to organize biological knowledge on genes and their products across genomic resources. (springer.com)
  • Functional category analysis revealed that biological processes differ between up- and down-regulated genes, although 'metabolic processes' were the most affected category in both up- and down-regulated DEGs. (frontiersin.org)
  • Computational ontologies (logical theories characterising the intended meaning of computer applications' vocabulary) represent nowadays the key technology to address data integration and semantic interoperability problems, and ultimately to help people behind machines to better understand each other. (cnr.it)
  • O Application of computational intelligence in medicine and biological sciences (artificial neural networks, fuzzy logic, and evolutionary computing). (jiscmail.ac.uk)
  • Cell Cycle Ontology is enabled by semantic web technologies, and is accessible via the web for browsing, visualizing, advanced querying, and computational reasoning. (biomedcentral.com)
  • Complementary to such model-dependent hypothesis generation, the field of computational reasoning promises to provide a powerful additional source of new hypotheses concerning biological network components. (biomedcentral.com)
  • AI researchers argued that they could create new ontologies as computational models that enable certain kinds of automated reasoning, which was only marginally successful. (wikipedia.org)
  • Some researchers, drawing inspiration from philosophical ontologies, viewed computational ontology as a kind of applied philosophy. (wikipedia.org)
  • Foundational Model of Anatomy, a term from this ontology will be used. (w3.org)
  • It was the need for consistent description of the environmental origins of tissue, pathogen, and metagenomics samples, together with a parallel need in the labeling of samples and artifacts in museum collections that precipitated the creation of the Environment Ontology (ENVO). (biomedcentral.com)
  • Formal Ontology in Information Systems, pp. 241-254. (cnr.it)
  • The overlap with the self-descriptive experiment ontology is actually with both FuGE and FuGO. (w3.org)
  • The BioAssay Ontology (BAO) describes biological screening assays and their results including high-throughput screening (HTS) data for the purpose of categorizing assays and data analysis. (ebi.ac.uk)
  • The Sequence Ontology is a set of terms and relationships used to describe the features and attributes of biological sequence. (obofoundry.org)
  • The Sequence Ontology is part of OBO. (obofoundry.org)
  • or any subtype of ncRNA in the Sequence Ontology. (geneontology.org)
  • detailed monolithic ontology is what we should avoid. (w3.org)
  • A search engine enables the user to search for one or a combination of these tags and/or keywords within a sentence or document, and as the ontology allows word meaning to be queried, it is possible to formulate semantic queries. (psu.edu)
  • The key causes of this variation have been identified as semantic vagueness in original phenotype descriptions and difficulties in using standardised vocabularies (ontologies). (pensoft.net)
  • This will speed up ontology development and improve the semantic clarity of phenotype descriptions from the moment of publication. (pensoft.net)
  • Bio-ontologies are becoming increasingly important in semantic alignment for data integration, information exchange, and semantic interoperability. (oregonstate.edu)
  • In 1993, the widely cited web page and paper "Toward Principles for the Design of Ontologies Used for Knowledge Sharing" by Tom Gruber used ontology as a technical term in computer science closely related to earlier idea of semantic networks and taxonomies. (wikipedia.org)
  • The use of ontologies to describe protein function provides a flexible and abstract language to classify proteins. (eurekaselect.com)
  • Paul Kersey, David Lonsdale, Nicky J. Mulder, Robert Petryszak and Rolf Apweiler, " Building a Biological Space Based on Protein Sequence Similarities and Biological Ontologies", Combinatorial Chemistry & High Throughput Screening (2008) 11: 653. (eurekaselect.com)
  • Meta target can be directly described as a molecular entity (e.g. a purified protein or a protein complex), or indirectly by a biological process or event (e.g. phosphorylation). (ebi.ac.uk)
  • p>This section provides any useful information about the protein, mostly biological knowledge. (uniprot.org)
  • A review of the current landscape of metadata standards and ontologies in biodiversity science suggests that existing standards such as the Darwin Core terminology are inadequate for describing biodiversity data in a semantically meaningful and computationally useful way. (ku.edu)
  • Therefore, it is important to have a consistent terminology metadata model and a resource for discovering appropriate ontologies or other resource for use in annotating data. (oregonstate.edu)
  • 3. The peer-to-peer file sharing system of claim 1, wherein the ontology information includes metadata that characterizes the ontology information. (freepatentsonline.com)
  • 6. The peer-to-peer file sharing system of claim 1, wherein the ontology sharing system includes a system for searching for ontology related metadata stored on a client computer. (freepatentsonline.com)
  • 12. The client program of claim 10, wherein the ontology sharing system allows the client program to communicate metadata that characterizes ontology information associated with the client program. (freepatentsonline.com)
  • From a practical view, an ontology is a representation of something we know about. (wikipedia.org)
  • Ontologies represent knowledge about a specific scientific domain, and support a consistent and unambiguous representation of entities within that domain. (biomedcentral.com)
  • In computer science and information science, an ontology encompasses a representation, formal naming and definition of the categories, properties and relations between the concepts, data and entities that substantiate one, many, or all domains of discourse. (wikipedia.org)
  • Artificial intelligence has retained the most attention regarding applied ontology in subfields like natural language processing within machine translation and knowledge representation, but ontology editors are being used often in a range of fields like education without the intent to contribute to AI. (wikipedia.org)
  • ENVO is comprised of classes (terms) referring to key environment-types that may be used to facilitate the retrieval and integration of a broad range of biological data. (biomedcentral.com)
  • article{Wang2010b, abstract = {A standard systems-based approach to biomarker and drug target discovery consists of placing putative biomarkers in the context of a network of biological interactions, followed by different 'guilt-by-association' analyses. (semantic-measures-library.org)
  • When added to the massive amount of phenotype data sitting in older publications, these free-text character descriptions represent a major, under-utilised resource for integrating phenotypic data into modern, large-scale biological research projects that typically involve genomic, climatic and habitat data. (pensoft.net)
  • These ontologies share the aim of improving data aggregation and integration across the biodiversity domain and can be used to describe physical samples and sampling processes (for example, collection, extraction, and preservation techniques), as well as biodiversity observations that involve no physical sampling. (ku.edu)
  • Here we propose, a first draft of minimal requirements to effectively describe the biological context of metabolomics studies that involve microbial or in vitro biological subjects. (springer.com)
  • In the first (biological) use case, we describe how OBCS was applied to represent the high throughput microarray data analysis of immunological transcriptional profiles in human subjects vaccinated with an influenza vaccine. (biomedcentral.com)
  • 4. The ontology modeling system of claim 1 , wherein the bags describe unordered finite sequences of a class. (google.com)
  • Cui H, Macklin J, Sachs J, Reznicek A, Starr J, Ford B, Penev L, Chen H (2018) Incentivising use of structured language in biological descriptions: Author-driven phenotype data and ontology production. (pensoft.net)
  • An ontology to support the interoperability of biodiversity data, including data on museum collections, environmental/metagenomic samples, and ecological surveys. (ebi.ac.uk)
  • In particular, David Powers introduced the word ontology to AI to refer to real world or robotic grounding, publishing in 1990 literature reviews emphasizing grounded ontology in association with the call for papers for a AAAI Summer Symposium Machine Learning of Natural Language and Ontology, with an expanded version published in SIGART Bulletin and included as a preface to the proceedings. (wikipedia.org)
  • Modular ontology development facilitates partially automated effective organization of detailed phenotype descriptions with complex relationships to each other and to underlying biological phenomena. (nih.gov)
  • The Gene Ontology project also provides downloadable mappings of its terms to other classification systems. (wikipedia.org)
  • biological process , operations or sets of molecular events with a defined beginning and end, pertinent to the functioning of integrated living units: cells, tissues , organs , and organisms . (wikipedia.org)
  • a , Biological process ontology. (nih.gov)
  • This section illustrates a portion of the biological process ontology describing DNA metabolism. (nih.gov)
  • A biological process represents a specific objective that the organism is genetically programmed to achieve. (bioontology.org)
  • Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. (bioontology.org)
  • A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. (bioontology.org)
  • Those influences can be well-defined physical perturbations, such as a light pulse, or a change in temperature but also more complex of not well defined phenomena, for instance a biological process, an experimental setup, or a mutation. (ebi.ac.uk)
  • Gene ontology biological process terms.Direction of the impact of GO Biological process terms with the largest difference in the overall direction of the impact in adipogenesis compared to osteogenesis as calculated by the Dynamic Impact Approach. (nih.gov)
  • Biological features are those which are defined by their disposition to be involved in a biological process. (obofoundry.org)
  • In systems biology, dynamic simulations with a model of a biological process serve as a means to validate the model's architecture and parameters, and to provide hypotheses for new experiments. (biomedcentral.com)
  • The Laboratory for Applied Ontology (LOA) performs basic and applied research on the ontological foundations of conceptual modeling, exploring the role of ontologies and ontology management in different fields. (cnr.it)
  • For the simple case, there needs to be at least three: two LocalOntologies + one Profile (see my classification of ontologies and what I mean by ontology normalization at http://www.charlestoncore.org/ont/2005/08/o3.html ). (w3.org)
  • ontology must consider ontology merging as opposed to schema integration. (w3.org)
  • A data query system including a first storage medium including a data schema having a data schema query language associated therewith, a second storage medium including an ontology model including classes and properties, the ontology model having an ontology query language associated therewith, wherein. (google.com)
  • 7. The ontology modeling system of claim 1 , wherein the multi-valued properties are used for embedding data schema into an ontology model, for schema that include constructs that can include more than one data element. (google.com)
  • After this ontology is populated with terms, the whole corpus of articles and abstracts is marked up to identify terms of these categories. (psu.edu)
  • The current ontology comprises 33 categories of terms. (psu.edu)
  • In the database, each annotated gene is associated with one or multiple terms of biological processes, molecular functions, and/or cellular components. (biomedcentral.com)
  • The terms in OBCS including 'data collection', 'data transformation in statistics', 'data visualization', 'statistical data analysis', and 'drawing a conclusion based on data', cover the major types of statistical processes used in basic biological research and clinical outcome studies. (biomedcentral.com)
  • Currently, OBCS comprehends 878 terms, representing 20 BFO classes, 403 OBI classes, 229 OBCS specific classes, and 122 classes imported from ten other OBO ontologies. (biomedcentral.com)
  • OBCS is a timely ontology that represents statistics-related terms and their relations in a rigorous fashion, facilitates standard data analysis and integration, and supports reproducible biological and clinical research. (biomedcentral.com)
  • The Gene Ontology project provides an ontology of defined terms representing gene product properties. (wikipedia.org)
  • The GO ontology is structured as a directed acyclic graph , and each term has defined relationships to one or more other terms in the same domain, and sometimes to other domains. (wikipedia.org)
  • By establishing a set of official terms, ontologies allow biologists across labs, specialties and countries to share a common vocabulary. (livescience.com)
  • Another benefit is that ontologies organize terms to show how objects and concepts relate to each other. (livescience.com)
  • Of course terms/classes will be needed in the ontology to properly fill out the is_a hierachy and create needed relationships between classes. (w3.org)
  • We argue that if adopted as a standard and rigorously applied and enriched by the biodiversity community, these ontologies would significantly reduce barriers to data discovery, integration, and exchange among biodiversity resources and researchers. (ku.edu)
  • Concomitant with an increasing number of omic experiments now being carried out, the quantity of associated experimental meta-data has reached unprecedented levels and traditional approaches to biological meta-data management are no longer adequate. (springer.com)
  • http://www.environmentontology.org ) is a community-led, open project which seeks to provide an ontology for specifying a wide range of environments relevant to multiple life science disciplines and, through an open participation model, to accommodate the terminological requirements of all those needing to annotate data using ontology classes. (biomedcentral.com)
  • To make it easier for biologists to understand data and share what they know, the National Institutes of Health is funding computer scientists to build virtual libraries called ontologies. (livescience.com)
  • Based on the data, it is proposed that Al stress affects a variety of biological processes that collectively contributes to the inhibition of root elongation. (frontiersin.org)
  • 2. The ontology modeling system of claim 1 further comprising at least one data construct for assigning a minimum number of elements and a maximum number of elements to said multi-valued properties. (google.com)
  • Every academic discipline or field creates ontologies to limit complexity and organize data into information and knowledge. (wikipedia.org)
  • Cell Cycle Ontology facilitates a detailed analysis of cell cycle-related molecular network components. (biomedcentral.com)
  • These organize biological knowledge using a universal language. (livescience.com)
  • id: GO:0000016 name: lactase activity ontology: molecular_function def: "Catalysis of the reaction: lactose + H2O=D-glucose + D-galactose. (wikipedia.org)
  • This study focused on using support vector machines (SVM) to predict GO biological processes from individual or multiple-tissue transcriptional profiles of aging in Drosophila melanogaster. (biomedcentral.com)
  • In Fig 5 is reported the direction of the impact of the GO Biological processes (calculated by DIA) with the largest difference in the direction of the impact between adipogenesis and osteogenesis. (nih.gov)
  • Applied ontology is considered a spiritual successor to prior work in philosophy, however many current efforts are more concerned with establishing controlled vocabularies of narrow domains than first principles, the existence of fixed essences or whether enduring objects (e.g., perdurantism and endurantism) may be ontologically more primary than processes. (wikipedia.org)
  • [5] For example, an annotator may request a specific term to represent a metabolic pathway, or a section of the ontology may be revised with the help of community experts (e.g. [6] ). (wikipedia.org)
  • The ontology is not intended to represent a reaction pathway, but instead reflects conceptual categories of gene-product function. (nih.gov)
  • Therefore, in the FuGE model there will be a reference to use an ontology term from some source and in some cases this will be FuGO that contains the term. (w3.org)
  • FuGE provides a mechanism to state which ontology the term was obtained from so this will be present. (w3.org)
  • How do I request a new ontology term? (obofoundry.org)
  • Therefore, an ontology links term labels to their interpretations, that is, specifications of their meanings, defined as a set of properties. (biomedcentral.com)
  • In the 1980s, the AI community began to use the term ontology to refer to both a theory of a modeled world and a component of knowledge-based systems. (wikipedia.org)
  • Together they form a catalog of types of objects and concepts called an ontology. (psu.edu)
  • The Ancestry Ontology (Ancestro) provides a systematic description of the ancestry concepts used in the NHGRI-EBI Catalog of published genome-wide association studies. (ebi.ac.uk)
  • More simply, an ontology is a way of showing the properties of a subject area and how they are related, by defining a set of concepts and categories that represent the subject. (wikipedia.org)
  • Through querying and automated reasoning, it may provide new hypotheses to help steer a systems biology approach to biological network building. (biomedcentral.com)
  • The assay Design describes the assay methodology and implementation of how the perturbation of the biological system is translated into a detectable signal. (ebi.ac.uk)
  • How Does the Scientific Community Contribute to Gene Ontology? (springer.com)