Results 31 to 40 of about 7,510,778 (382)

GoFigure: Automated Gene Ontology™ annotation [PDF]

Bioinformatics, 2003
Abstract Summary: We have developed a web tool to predict Gene Ontology (GO) terms. The tool accepts an input DNA or protein sequence, and uses BLAST to identify homologous sequences in GO annotated databases. A graph is returned to the user via email. Availability: The tool is freely available at: http://udgenome.ags.udel.
Salim, Khan, Gang, Situ, Keith, Decker, Carl J, Schmidt   +3 more
openaire   +2 more sources

Liftoff: accurate mapping of gene annotations [PDF]

Bioinformatics, 2021
Abstract Motivation Improvements in DNA sequencing technology and computational methods have led to a substantial increase in the creation of high-quality genome assemblies of many species. To understand the biology of these genomes, annotation of gene features and other functional elements is ...
Alaina Shumate, Steven L Salzberg
openaire   +2 more sources

Community gene annotation in practice [PDF]

Database, 2012
Manual annotation of genomic data is extremely valuable to produce an accurate reference gene set but is expensive compared with automatic methods and so has been limited to model organisms. Annotation tools that have been developed at the Wellcome Trust Sanger Institute (WTSI, http://www.sanger.ac.uk/.) are being used to fill that gap, as they can be ...
Loveland, Jane E., Gilbert, James G.R., Griffiths, Ed, Harrow, Jennifer L.   +3 more
openaire   +2 more sources

Bacterial riboproteogenomics : the era of N-terminal proteoform existence revealed [PDF]

, 2020
With the rapid increase in the number of sequenced prokaryotic genomes, relying on automated gene annotation became a necessity. Multiple lines of evidence, however, suggest that current bacterial genome annotations may contain inconsistencies and are ...
Fijalkowska, Daria, Fijalkowski, Igor, Van Damme, Petra, Willems, Patrick   +3 more
core   +2 more sources

Evaluating Computational Gene Ontology Annotations [PDF]

, 2016
ISBN:978-1-4939-3743 ...
Škunca, Nives, Roberts, Richard J., Steffen, Martin   +2 more
openaire   +3 more sources

Using genomic annotations increases statistical power to detect eGenes. [PDF]

, 2016
MotivationExpression quantitative trait loci (eQTLs) are genetic variants that affect gene expression. In eQTL studies, one important task is to find eGenes or genes whose expressions are associated with at least one eQTL. The standard statistical method
Duong, Dat, Ernst, Jason, Eskin, Eleazar, Han, Buhm, Hormozdiari, Farhad, Sul, Jae Hoon, Zou, Jennifer   +6 more
core   +1 more source

Improving the Annotation of Arabidopsis lyrata Using RNA-Seq Data. [PDF]

PLoS ONE, 2015
Gene model annotations are important community resources that ensure comparability and reproducibility of analyses and are typically the first step for functional annotation of genomic regions.
Vimal Rawat, Ahmed Abdelsamad, Björn Pietzenuk, Danelle K Seymour, Daniel Koenig, Detlef Weigel, Ales Pecinka, Korbinian Schneeberger   +7 more
doaj   +1 more source

A large-scale proteogenomics study of apicomplexan pathogens-Toxoplasma gondii and Neospora caninum [PDF]

, 2015
Proteomics data can supplement genome annotation efforts, for example being used to confirm gene models or correct gene annotation errors. Here, we present a large‐scale proteogenomics study of two important apicomplexan pathogens: Toxoplasma gondii and ...
Bernal, A, Brunk, B P, Daniel-Naguib, G, Ghali, F, Jones, A R, Krishna, R, Roos, D S, Sanderson, S, Shanmugasundram, A, Vermont, S, Wastling, J M, Xia, D   +11 more
core   +2 more sources

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

In silico Gene Characterization and biological annotation of Aspergillus niger CBS 513.88 [PDF]

, 2011
Genome annotation is the process of estimation of biological features from genomic data. The target of a genome annotation is to identify the key features of the genome sequence particularly, the genes and gene products.
Anuraj Nayarisseri, Anuraj Nayarisseri, Mayura Maynal, Mukesh Yadav, Rajesh Patidar, Vini Lokhande   +5 more
core   +2 more sources