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Items: 1 to 20 of 145

1.

Using Sybil for interactive comparative genomics of microbes on the web.

Riley DR, Angiuoli SV, Crabtree J, Dunning Hotopp JC, Tettelin H.

Bioinformatics. 2012 Jan 15;28(2):160-6. doi: 10.1093/bioinformatics/btr652. Epub 2011 Nov 24.

2.

Sybil: methods and software for multiple genome comparison and visualization.

Crabtree J, Angiuoli SV, Wortman JR, White OR.

Methods Mol Biol. 2007;408:93-108. doi: 10.1007/978-1-59745-547-3_6.

PMID:
18314579
3.

Next generation tools for genomic data generation, distribution, and visualization.

Nix DA, Di Sera TL, Dalley BK, Milash BA, Cundick RM, Quinn KS, Courdy SJ.

BMC Bioinformatics. 2010 Sep 9;11:455. doi: 10.1186/1471-2105-11-455.

4.

The Gene Set Builder: collation, curation, and distribution of sets of genes.

Yusuf D, Lim JS, Wasserman WW.

BMC Bioinformatics. 2005 Dec 21;6:305.

5.

PLAZA: a comparative genomics resource to study gene and genome evolution in plants.

Proost S, Van Bel M, Sterck L, Billiau K, Van Parys T, Van de Peer Y, Vandepoele K.

Plant Cell. 2009 Dec;21(12):3718-31. doi: 10.1105/tpc.109.071506. Epub 2009 Dec 29.

6.

MuGeN: simultaneous exploration of multiple genomes and computer analysis results.

Hoebeke M, Nicolas P, Bessières P.

Bioinformatics. 2003 May 1;19(7):859-64.

7.

Ergatis: a web interface and scalable software system for bioinformatics workflows.

Orvis J, Crabtree J, Galens K, Gussman A, Inman JM, Lee E, Nampally S, Riley D, Sundaram JP, Felix V, Whitty B, Mahurkar A, Wortman J, White O, Angiuoli SV.

Bioinformatics. 2010 Jun 15;26(12):1488-92. doi: 10.1093/bioinformatics/btq167. Epub 2010 Apr 22.

8.

PGAT: a multistrain analysis resource for microbial genomes.

Brittnacher MJ, Fong C, Hayden HS, Jacobs MA, Radey M, Rohmer L.

Bioinformatics. 2011 Sep 1;27(17):2429-30. doi: 10.1093/bioinformatics/btr418. Epub 2011 Jul 15.

9.

The genome portal of the Department of Energy Joint Genome Institute.

Grigoriev IV, Nordberg H, Shabalov I, Aerts A, Cantor M, Goodstein D, Kuo A, Minovitsky S, Nikitin R, Ohm RA, Otillar R, Poliakov A, Ratnere I, Riley R, Smirnova T, Rokhsar D, Dubchak I.

Nucleic Acids Res. 2012 Jan;40(Database issue):D26-32. doi: 10.1093/nar/gkr947. Epub 2011 Nov 22.

10.

The UCSC Genome Browser Database: update 2006.

Hinrichs AS, Karolchik D, Baertsch R, Barber GP, Bejerano G, Clawson H, Diekhans M, Furey TS, Harte RA, Hsu F, Hillman-Jackson J, Kuhn RM, Pedersen JS, Pohl A, Raney BJ, Rosenbloom KR, Siepel A, Smith KE, Sugnet CW, Sultan-Qurraie A, Thomas DJ, Trumbower H, Weber RJ, Weirauch M, Zweig AS, Haussler D, Kent WJ.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D590-8.

11.

The Microbe browser for comparative genomics.

Gattiker A, Dessimoz C, Schneider A, Xenarios I, Pagni M, Rougemont J.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W296-9. doi: 10.1093/nar/gkp268. Epub 2009 Apr 30.

12.

MolliGen, a database dedicated to the comparative genomics of Mollicutes.

Barré A, de Daruvar A, Blanchard A.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D307-10.

13.

ChloroplastDB: the Chloroplast Genome Database.

Cui L, Veeraraghavan N, Richter A, Wall K, Jansen RK, Leebens-Mack J, Makalowska I, dePamphilis CW.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D692-6.

14.

Virus pathogen database and analysis resource (ViPR): a comprehensive bioinformatics database and analysis resource for the coronavirus research community.

Pickett BE, Greer DS, Zhang Y, Stewart L, Zhou L, Sun G, Gu Z, Kumar S, Zaremba S, Larsen CN, Jen W, Klem EB, Scheuermann RH.

Viruses. 2012 Nov 19;4(11):3209-26. doi: 10.3390/v4113209.

15.

Genolevures complete genomes provide data and tools for comparative genomics of hemiascomycetous yeasts.

Sherman D, Durrens P, Iragne F, Beyne E, Nikolski M, Souciet JL.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D432-5.

16.

PLATCOM: a Platform for Computational Comparative Genomics.

Choi K, Ma Y, Choi JH, Kim S.

Bioinformatics. 2005 May 15;21(10):2514-6. Epub 2005 Feb 24.

17.

GenomeBlast: a web tool for small genome comparison.

Lu G, Jiang L, Helikar RM, Rowley TW, Zhang L, Chen X, Moriyama EN.

BMC Bioinformatics. 2006 Dec 12;7 Suppl 4:S18.

18.

coliBASE: an online database for Escherichia coli, Shigella and Salmonella comparative genomics.

Chaudhuri RR, Khan AM, Pallen MJ.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D296-9.

19.

SIGMA: a system for integrative genomic microarray analysis of cancer genomes.

Chari R, Lockwood WW, Coe BP, Chu A, Macey D, Thomson A, Davies JJ, MacAulay C, Lam WL.

BMC Genomics. 2006 Dec 27;7:324.

20.

The bioinformatics resource for oral pathogens.

Chen T, Abbey K, Deng WJ, Cheng MC.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W734-40.

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