Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Results: 1 to 20 of 126

1.

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
2.

A post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs.

Swain MT, Tsai IJ, Assefa SA, Newbold C, Berriman M, Otto TD.

Nat Protoc. 2012 Jun 7;7(7):1260-84. doi: 10.1038/nprot.2012.068.

PMID:
22678431
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

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
4.

A pipeline for automated annotation of yeast genome sequences by a conserved-synteny approach.

Proux-Wéra E, Armisén D, Byrne KP, Wolfe KH.

BMC Bioinformatics. 2012 Sep 17;13:237. doi: 10.1186/1471-2105-13-237.

PMID:
22984983
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Genome sequencing of bacteria: sequencing, de novo assembly and rapid analysis using open source tools.

Kisand V, Lettieri T.

BMC Genomics. 2013 Apr 1;14:211. doi: 10.1186/1471-2164-14-211.

PMID:
23547799
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Genome Annotation Transfer Utility (GATU): rapid annotation of viral genomes using a closely related reference genome.

Tcherepanov V, Ehlers A, Upton C.

BMC Genomics. 2006 Jun 13;7:150.

PMID:
16772042
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

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
8.

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
9.

BG7: a new approach for bacterial genome annotation designed for next generation sequencing data.

Pareja-Tobes P, Manrique M, Pareja-Tobes E, Pareja E, Tobes R.

PLoS One. 2012;7(11):e49239. doi: 10.1371/journal.pone.0049239. Epub 2012 Nov 21.

PMID:
23185310
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

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
11.

CycADS: an annotation database system to ease the development and update of BioCyc databases.

Vellozo AF, Véron AS, Baa-Puyoulet P, Huerta-Cepas J, Cottret L, Febvay G, Calevro F, Rahbé Y, Douglas AE, Gabaldón T, Sagot MF, Charles H, Colella S.

Database (Oxford). 2011 Apr 7;2011:bar008. doi: 10.1093/database/bar008. Print 2011.

PMID:
21474551
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Estimating gene gain and loss rates in the presence of error in genome assembly and annotation using CAFE 3.

Han MV, Thomas GW, Lugo-Martinez J, Hahn MW.

Mol Biol Evol. 2013 Aug;30(8):1987-97. doi: 10.1093/molbev/mst100. Epub 2013 May 24.

PMID:
23709260
[PubMed - indexed for MEDLINE]
13.

Comparative genomics in Plasmodium: a tool for the identification of genes and functional analysis.

Thompson J, Janse CJ, Waters AP.

Mol Biochem Parasitol. 2001 Dec;118(2):147-54. Review.

PMID:
11738705
[PubMed - indexed for MEDLINE]
14.

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
15.

DDBJ read annotation pipeline: a cloud computing-based pipeline for high-throughput analysis of next-generation sequencing data.

Nagasaki H, Mochizuki T, Kodama Y, Saruhashi S, Morizaki S, Sugawara H, Ohyanagi H, Kurata N, Okubo K, Takagi T, Kaminuma E, Nakamura Y.

DNA Res. 2013 Aug;20(4):383-90. doi: 10.1093/dnares/dst017. Epub 2013 May 8.

PMID:
23657089
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

A beginner's guide to eukaryotic genome annotation.

Yandell M, Ence D.

Nat Rev Genet. 2012 Apr 18;13(5):329-42. doi: 10.1038/nrg3174. Review.

PMID:
22510764
[PubMed - indexed for MEDLINE]
17.

Saccharomyces cerevisiae: gene annotation and genome variability, state of the art through comparative genomics.

Louis E.

Methods Mol Biol. 2011;759:31-40. doi: 10.1007/978-1-61779-173-4_2.

PMID:
21863479
[PubMed - indexed for MEDLINE]
18.

Structural and functional-annotation of an equine whole genome oligoarray.

Bright LA, Burgess SC, Chowdhary B, Swiderski CE, McCarthy FM.

BMC Bioinformatics. 2009 Oct 8;10 Suppl 11:S8. doi: 10.1186/1471-2105-10-S11-S8.

PMID:
19811692
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

MICheck: a web tool for fast checking of syntactic annotations of bacterial genomes.

Cruveiller S, Le Saux J, Vallenet D, Lajus A, Bocs S, Médigue C.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W471-9.

PMID:
15980515
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Using genomic sequencing for classical genetics in E. coli K12.

Lyons E, Freeling M, Kustu S, Inwood W.

PLoS One. 2011 Feb 25;6(2):e16717. doi: 10.1371/journal.pone.0016717.

PMID:
21364914
[PubMed - indexed for MEDLINE]
Free PMC Article

Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Write to the Help Desk