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Results: 1 to 20 of 180

1.

ParsEval: parallel comparison and analysis of gene structure annotations.

Standage DS, Brendel VP.

BMC Bioinformatics. 2012 Aug 1;13:187. doi: 10.1186/1471-2105-13-187.

PMID:
22852583
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

A procedure for assessing GO annotation consistency.

Dolan ME, Ni L, Camon E, Blake JA.

Bioinformatics. 2005 Jun;21 Suppl 1:i136-43.

PMID:
15961450
[PubMed - indexed for MEDLINE]
Free Article
3.

VESPA: software to facilitate genomic annotation of prokaryotic organisms through integration of proteomic and transcriptomic data.

Peterson ES, McCue LA, Schrimpe-Rutledge AC, Jensen JL, Walker H, Kobold MA, Webb SR, Payne SH, Ansong C, Adkins JN, Cannon WR, Webb-Robertson BJ.

BMC Genomics. 2012 Apr 5;13:131. doi: 10.1186/1471-2164-13-131.

PMID:
22480257
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Using computational predictions to improve literature-based Gene Ontology annotations: a feasibility study.

Costanzo MC, Park J, Balakrishnan R, Cherry JM, Hong EL.

Database (Oxford). 2011 Mar 15;2011:bar004. doi: 10.1093/database/bar004. Print 2011.

PMID:
21411447
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

SEED servers: high-performance access to the SEED genomes, annotations, and metabolic models.

Aziz RK, Devoid S, Disz T, Edwards RA, Henry CS, Olsen GJ, Olson R, Overbeek R, Parrello B, Pusch GD, Stevens RL, Vonstein V, Xia F.

PLoS One. 2012;7(10):e48053. doi: 10.1371/journal.pone.0048053. Epub 2012 Oct 24.

PMID:
23110173
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Updating annotations with the distributed annotation system and the automated sequence annotation pipeline.

Speier W, Ochs MF.

Bioinformatics. 2012 Nov 1;28(21):2858-9. doi: 10.1093/bioinformatics/bts530. Epub 2012 Sep 3.

PMID:
22945787
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Restauro-G: a rapid genome re-annotation system for comparative genomics.

Tamaki S, Arakawa K, Kono N, Tomita M.

Genomics Proteomics Bioinformatics. 2007 Feb;5(1):53-8.

PMID:
17572364
[PubMed - indexed for MEDLINE]
Free Article
8.

RATT: Rapid Annotation Transfer Tool.

Otto TD, Dillon GP, Degrave WS, Berriman M.

Nucleic Acids Res. 2011 May;39(9):e57. doi: 10.1093/nar/gkq1268. Epub 2011 Feb 8.

PMID:
21306991
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

VIGOR, an annotation program for small viral genomes.

Wang S, Sundaram JP, Spiro D.

BMC Bioinformatics. 2010 Sep 7;11:451. doi: 10.1186/1471-2105-11-451.

PMID:
20822531
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

A semi-automated genome annotation comparison and integration scheme.

Liu Z, Ma H, Goryanin I.

BMC Bioinformatics. 2013 Jun 1;14:172. doi: 10.1186/1471-2105-14-172.

PMID:
23725374
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Reannotation and extended community resources for the genome of the non-seed plant Physcomitrella patens provide insights into the evolution of plant gene structures and functions.

Zimmer AD, Lang D, Buchta K, Rombauts S, Nishiyama T, Hasebe M, Van de Peer Y, Rensing SA, Reski R.

BMC Genomics. 2013 Jul 23;14:498. doi: 10.1186/1471-2164-14-498.

PMID:
23879659
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

A sensitive method for computing GO-based functional similarities among genes with 'shallow annotation'.

Chen X, Yang R, Xu J, Ma H, Chen S, Bian X, Liu L.

Gene. 2012 Nov 1;509(1):131-5. doi: 10.1016/j.gene.2012.07.078. Epub 2012 Aug 10.

PMID:
22903005
[PubMed - indexed for MEDLINE]
13.

MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects.

Holt C, Yandell M.

BMC Bioinformatics. 2011 Dec 22;12:491. doi: 10.1186/1471-2105-12-491.

PMID:
22192575
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Atlas - a data warehouse for integrative bioinformatics.

Shah SP, Huang Y, Xu T, Yuen MM, Ling J, Ouellette BF.

BMC Bioinformatics. 2005 Feb 21;6:34.

PMID:
15723693
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets.

Nicol JW, Helt GA, Blanchard SG Jr, Raja A, Loraine AE.

Bioinformatics. 2009 Oct 15;25(20):2730-1. doi: 10.1093/bioinformatics/btp472. Epub 2009 Aug 4.

PMID:
19654113
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

MILANO--custom annotation of microarray results using automatic literature searches.

Rubinstein R, Simon I.

BMC Bioinformatics. 2005 Jan 20;6:12.

PMID:
15661078
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Re-annotation of genome microbial coding-sequences: finding new genes and inaccurately annotated genes.

Bocs S, Danchin A, Médigue C.

BMC Bioinformatics. 2002;3:5. Epub 2002 Feb 5.

PMID:
11879526
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

GenColors: accelerated comparative analysis and annotation of prokaryotic genomes at various stages of completeness.

Romualdi A, Siddiqui R, Glöckner G, Lehmann R, Sühnel J.

Bioinformatics. 2005 Sep 15;21(18):3669-71. Epub 2005 Aug 2.

PMID:
16076887
[PubMed - indexed for MEDLINE]
Free Article
19.

AGeS: a software system for microbial genome sequence annotation.

Kumar K, Desai V, Cheng L, Khitrov M, Grover D, Satya RV, Yu C, Zavaljevski N, Reifman J.

PLoS One. 2011 Mar 7;6(3):e17469. doi: 10.1371/journal.pone.0017469.

PMID:
21408217
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

AbsIDconvert: an absolute approach for converting genetic identifiers at different granularities.

Mohammad F, Flight RM, Harrison BJ, Petruska JC, Rouchka EC.

BMC Bioinformatics. 2012 Sep 12;13:229. doi: 10.1186/1471-2105-13-229.

PMID:
22967011
[PubMed - indexed for MEDLINE]
Free PMC Article

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