Results 41 to 50 of about 7,457,987 (378)

The Neural/Immune Gene Ontology: clipping the Gene Ontology for neurological and immunological systems

BMC Bioinformatics, 2010
Background The Gene Ontology (GO) is used to describe genes and gene products from many organisms. When used for functional annotation of microarray data, GO is often slimmed by editing so that only higher level terms remain. This practice is designed to
Rubin Eitan, Monsonego Alon, Geifman Nophar   +2 more
doaj   +1 more source

Wormbase Curation Interfaces and Tools [PDF]

, 2010
Curating biological information from the published literature can be time- and labor-intensive especially without automated tools. WormBase1 has adopted several curation interfaces and tools, most of which were built in-house, to help curators recognize
Xiaodong Wang
core   +2 more sources

Mining the Gene Wiki for functional genomic knowledge

BMC Genomics, 2011
Background Ontology-based gene annotations are important tools for organizing and analyzing genome-scale biological data. Collecting these annotations is a valuable but costly endeavor.
Good Benjamin M, Howe Douglas G, Lin Simon M, Kibbe Warren A, Su Andrew I   +4 more
doaj   +1 more source

Ontological Realism and Classification: Structures and Concepts in the Gene Ontology [PDF]

, 2014
The Gene Ontology (GO), a scientific vocabulary widely used in molecular biology databases, is examined by an analysis of its structure, a comparison of its principles to those of traditional controlled vocabularies, and by a detailed analysis of a ...
Ashburner, Baclawski, Bard, Bard, Barrell, Bawden, Blake, Broughton, Brown, Cole, du Plessis, Dumontier, Friedman, Gene Ontology Consortium, Gene Ontology Consortium, Gene Ontology Consortium, Gene Ontology Consortium, Hill, Hjørland, Hjørland, Huvila, Kalankesh, La Barre, Leonelli, Leonelli, Leonelli, Lomax, Lord, MacMullen, Merrill, Myhre, Nelson, Rhee, Robinson, Rogers, Seki, Smith, Smith, Smith, Smith, Smith, Smith, Star, Star, Vickery   +44 more
core   +1 more source

Gene Ontology Annotations and Resources [PDF]

Nucleic Acids Research, 2012
The Gene Ontology (GO) Consortium (GOC, http://www.geneontology.org) is a community-based bioinformatics resource that classifies gene product function through the use of structured, controlled vocabularies. Over the past year, the GOC has implemented several processes to increase the quantity, quality and specificity of GO annotations.
Gene Ontology Consortium, Blake, JA, Dolan, M, Drabkin, H, Hill, DP, Li, Ni, Sitnikov, D, Bridges, S, Burgess, S, Buza, T, McCarthy, F, Peddinti, D, Pillai, L, Carbon, S, Dietze, H, Ireland, A, Lewis, SE, Mungall, CJ, Gaudet, P, Chrisholm, RL, Fey, P, Kibbe, WA, Basu, S, Siegele, DA, McIntosh, BK, Renfro, DP, Zweifel, AE, Hu, JC, Brown, NH, Tweedie, S, Alam-Faruque, Y, Apweiler, R, Auchinchloss, A, Axelsen, K, Bely, B, Blatter, M-C, Bonilla, C, Bouguerleret, L, Boutet, E, Breuza, L, Bridge, A, Chan, WM, Chavali, G, Coudert, E, Dimmer, E, Estreicher, A, Famiglietti, L, Feuermann, M, Gos, A, Gruaz-Gumowski, N, Hieta, R, Hinz, C, Hulo, C, Huntley, R, James, J, Jungo, F, Keller, G, Laiho, K, Legge, D, Lemercier, P, Lieberherr, D, Magrane, M, Martin, MJ, Masson, P, Mutowo-Muellenet, P, O'Donovan, C, Pedruzzi, I, Pichler, K, Poggioli, D, Porras Millán, P, Poux, S, Rivoire, C, Roechert, B, Sawford, T, Schneider, M, Stutz, A, Sundaram, S, Tognolli, M, Xenarios, I, Foulgar, R, Lomax, J, Roncaglia, P, Khodiyar, VK, Lovering, RC, Talmud, PJ, Chibucos, M, Giglio, M Gwinn, Chang, H-Y, Hunter, S, McAnulla, C, Mitchell, A, Sangrador, A, Stephan, R, Harris, MA, Oliver, SG, Rutherford, K, Wood, V, Bahler, J, Lock, A, Kersey, PJ, McDowall, DM, Staines, DM, Dwinell, M, Shimoyama, M, Laulederkind, S, Hayman, T, Wang, S-J, Petri, V, Lowry, T, D'Eustachio, P, Matthews, L, Balakrishnan, R, Binkley, G, Cherry, JM, Costanzo, MC, Dwight, SS, Engel, SR, Fisk, DG, Hitz, BC, Hong, EL, Karra, K, Miyasato, SR, Nash, RS, Park, J, Skrzypek, MS, Weng, S, Wong, ED, Berardini, TZ, Huala, E, Mi, H, Thomas, PD, Chan, J, Kishore, R, Sternberg, P, Van Auken, K, Howe, D, Westerfield, M   +136 more
openaire   +4 more sources

Functional-network-based gene set analysis using gene-ontology. [PDF]

PLoS ONE, 2013
To account for the functional non-equivalence among a set of genes within a biological pathway when performing gene set analysis, we introduce GOGANPA, a network-based gene set analysis method, which up-weights genes with functions relevant to the gene ...
Billy Chang, Rafal Kustra, Weidong Tian
doaj   +1 more source

Disjunctive shared information between ontology concepts: application to Gene Ontology

Journal of Biomedical Semantics, 2011
Background The large-scale effort in developing, maintaining and making biomedical ontologies available motivates the application of similarity measures to compare ontology concepts or, by extension, the entities described therein.
Couto Francisco M, Silva Mário J
doaj   +1 more source

Integration of molecular network data reconstructs Gene Ontology. [PDF]

, 2014
Motivation: Recently, a shift was made from using Gene Ontology (GO) to evaluate molecular network data to using these data to construct and evaluate GO. Dutkowski et al. provide the first evidence that a large part of GO can be reconstructed solely from
Gligorijević, V, Janjić, V, Pržulj, N
core   +2 more sources

PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements

Nucleic Acids Res., 2016
The PANTHER database (Protein ANalysis THrough Evolutionary Relationships, http://pantherdb.org) contains comprehensive information on the evolution and function of protein-coding genes from 104 completely sequenced genomes.
H. Mi, Xiaosong Huang, A. Muruganujan, Haiming Tang, Caitlin Mills, Diane Kang, P. Thomas   +6 more
semanticscholar   +1 more source

A Literature Review of Gene Function Prediction by Modeling Gene Ontology

Frontiers in Genetics, 2020
Annotating the functional properties of gene products, i.e., RNAs and proteins, is a fundamental task in biology. The Gene Ontology database (GO) was developed to systematically describe the functional properties of gene products across species, and to ...
Yingwen Zhao, Jun Wang, Jian Chen, Xiangliang Zhang, Maozu Guo, Guoxian Yu   +5 more
semanticscholar   +1 more source