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Items: 1 to 20 of 91

1.

BacMap: an up-to-date electronic atlas of annotated bacterial genomes.

Cruz J, Liu Y, Liang Y, Zhou Y, Wilson M, Dennis JJ, Stothard P, Van Domselaar G, Wishart DS.

Nucleic Acids Res. 2012 Jan;40(Database issue):D599-604. doi: 10.1093/nar/gkr1105. Epub 2011 Dec 1.

2.

BacMap: an interactive picture atlas of annotated bacterial genomes.

Stothard P, Van Domselaar G, Shrivastava S, Guo A, O'Neill B, Cruz J, Ellison M, Wishart DS.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D317-20.

3.

PHAST: a fast phage search tool.

Zhou Y, Liang Y, Lynch KH, Dennis JJ, Wishart DS.

Nucleic Acids Res. 2011 Jul;39(Web Server issue):W347-52. doi: 10.1093/nar/gkr485. Epub 2011 Jun 14.

4.

BASys: a web server for automated bacterial genome annotation.

Van Domselaar GH, Stothard P, Shrivastava S, Cruz JA, Guo A, Dong X, Lu P, Szafron D, Greiner R, Wishart DS.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W455-9.

5.

Genome Projector: zoomable genome map with multiple views.

Arakawa K, Tamaki S, Kono N, Kido N, Ikegami K, Ogawa R, Tomita M.

BMC Bioinformatics. 2009 Jan 23;10:31. doi: 10.1186/1471-2105-10-31.

6.

PairWise Neighbours database: overlaps and spacers among prokaryote genomes.

Pallejà A, Reverter T, Garcia-Vallvé S, Romeu A.

BMC Genomics. 2009 Jun 25;10:281. doi: 10.1186/1471-2164-10-281.

7.

COMBREX: a project to accelerate the functional annotation of prokaryotic genomes.

Roberts RJ, Chang YC, Hu Z, Rachlin JN, Anton BP, Pokrzywa RM, Choi HP, Faller LL, Guleria J, Housman G, Klitgord N, Mazumdar V, McGettrick MG, Osmani L, Swaminathan R, Tao KR, Letovsky S, Vitkup D, Segrè D, Salzberg SL, Delisi C, Steffen M, Kasif S.

Nucleic Acids Res. 2011 Jan;39(Database issue):D11-4. doi: 10.1093/nar/gkq1168. Epub 2010 Nov 21.

8.

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
9.

A database of phylogenetically atypical genes in archaeal and bacterial genomes, identified using the DarkHorse algorithm.

Podell S, Gaasterland T, Allen EE.

BMC Bioinformatics. 2008 Oct 7;9:419. doi: 10.1186/1471-2105-9-419.

10.
11.

The UCSC genome browser database: update 2007.

Kuhn RM, Karolchik D, Zweig AS, Trumbower H, Thomas DJ, Thakkapallayil A, Sugnet CW, Stanke M, Smith KE, Siepel A, Rosenbloom KR, Rhead B, Raney BJ, Pohl A, Pedersen JS, Hsu F, Hinrichs AS, Harte RA, Diekhans M, Clawson H, Bejerano G, Barber GP, Baertsch R, Haussler D, Kent WJ.

Nucleic Acids Res. 2007 Jan;35(Database issue):D668-73. Epub 2006 Nov 16.

12.

Pseudomonas Genome Database: facilitating user-friendly, comprehensive comparisons of microbial genomes.

Winsor GL, Van Rossum T, Lo R, Khaira B, Whiteside MD, Hancock RE, Brinkman FS.

Nucleic Acids Res. 2009 Jan;37(Database issue):D483-8. doi: 10.1093/nar/gkn861. Epub 2008 Oct 31.

13.

EMGLib: the enhanced microbial genomes library (update 2000).

Perrière G, Bessières P, Labedan B.

Nucleic Acids Res. 2000 Jan 1;28(1):68-71.

14.

Genome update: the 1000th genome--a cautionary tale.

Lagesen K, Ussery DW, Wassenaar TM.

Microbiology. 2010 Mar;156(Pt 3):603-8. doi: 10.1099/mic.0.038257-0. Epub 2010 Jan 21.

PMID:
20093288
15.

Rice Annotation Database (RAD): a contig-oriented database for map-based rice genomics.

Ito Y, Arikawa K, Antonio BA, Ohta I, Naito S, Mukai Y, Shimano A, Masukawa M, Shibata M, Yamamoto M, Ito Y, Yokoyama J, Sakai Y, Sakata K, Nagamura Y, Namiki N, Matsumoto T, Higo K, Sasaki T.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D651-5.

16.

The UCSC Archaeal Genome Browser.

Schneider KL, Pollard KS, Baertsch R, Pohl A, Lowe TM.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D407-10.

17.

[MGAP-A microbe genome annotation platform].

Yu Z, Li T, Cai T, Zhao J, Luo J.

Wei Sheng Wu Xue Bao. 2003 Dec;43(6):805-8. Chinese.

PMID:
16276906
18.

The integrated microbial genomes (IMG) system.

Markowitz VM, Korzeniewski F, Palaniappan K, Szeto E, Werner G, Padki A, Zhao X, Dubchak I, Hugenholtz P, Anderson I, Lykidis A, Mavromatis K, Ivanova N, Kyrpides NC.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D344-8.

19.

PSAT: a web tool to compare genomic neighborhoods of multiple prokaryotic genomes.

Fong C, Rohmer L, Radey M, Wasnick M, Brittnacher MJ.

BMC Bioinformatics. 2008 Mar 26;9:170. doi: 10.1186/1471-2105-9-170.

20.

Gene3D: comprehensive structural and functional annotation of genomes.

Yeats C, Lees J, Reid A, Kellam P, Martin N, Liu X, Orengo C.

Nucleic Acids Res. 2008 Jan;36(Database issue):D414-8. Epub 2007 Nov 21.

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