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Results: 1 to 20 of 307

1.

JBrowse: a next-generation genome browser.

Skinner ME, Uzilov AV, Stein LD, Mungall CJ, Holmes IH.

Genome Res. 2009 Sep;19(9):1630-8. doi: 10.1101/gr.094607.109. Epub 2009 Jul 1.

PMID:
19570905
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Setting up the JBrowse genome browser.

Skinner ME, Holmes IH.

Curr Protoc Bioinformatics. 2010 Dec;Chapter 9:Unit 9.13. doi: 10.1002/0471250953.bi0913s32.

PMID:
21154710
[PubMed - indexed for MEDLINE]
3.

The design of Jemboss: a graphical user interface to EMBOSS.

Carver T, Bleasby A.

Bioinformatics. 2003 Sep 22;19(14):1837-43.

PMID:
14512356
[PubMed - indexed for MEDLINE]
Free Article
4.

The UCSC Table Browser data retrieval tool.

Karolchik D, Hinrichs AS, Furey TS, Roskin KM, Sugnet CW, Haussler D, Kent WJ.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D493-6.

PMID:
14681465
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

An integrated computational pipeline and database to support whole-genome sequence annotation.

Mungall CJ, Misra S, Berman BP, Carlson J, Frise E, Harris N, Marshall B, Shu S, Kaminker JS, Prochnik SE, Smith CD, Smith E, Tupy JL, Wiel C, Rubin GM, Lewis SE.

Genome Biol. 2002;3(12):RESEARCH0081. Epub 2002 Dec 23. Review.

PMID:
12537570
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Visualizing next-generation sequencing data with JBrowse.

Westesson O, Skinner M, Holmes I.

Brief Bioinform. 2013 Mar;14(2):172-7. doi: 10.1093/bib/bbr078. Epub 2012 Mar 12.

PMID:
22411711
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

GenExp: an interactive web-based genomic DAS client with client-side data rendering.

Gel Moreno B, Messeguer Peypoch X.

PLoS One. 2011;6(7):e21270. doi: 10.1371/journal.pone.0021270. Epub 2011 Jul 5.

PMID:
21750706
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Using the Generic Genome Browser (GBrowse).

Donlin MJ.

Curr Protoc Bioinformatics. 2009 Dec;Chapter 9:Unit 9.9. doi: 10.1002/0471250953.bi0909s28.

PMID:
19957275
[PubMed - indexed for MEDLINE]
9.

The distributed annotation system.

Dowell RD, Jokerst RM, Day A, Eddy SR, Stein L.

BMC Bioinformatics. 2001;2:7. Epub 2001 Oct 10.

PMID:
11667947
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

The UCSC Genome Browser.

Karolchik D, Hinrichs AS, Kent WJ.

Curr Protoc Bioinformatics. 2007 Mar;Chapter 1:Unit 1.4. doi: 10.1002/0471250953.bi0104s17.

PMID:
18428780
[PubMed - indexed for MEDLINE]
11.

The UCSC Genome Browser.

Karolchik D, Hinrichs AS, Kent WJ.

Curr Protoc Bioinformatics. 2009 Dec;Chapter 1:Unit1.4. doi: 10.1002/0471250953.bi0104s28.

PMID:
19957273
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Bioinformatics visualization and integration with open standards: the Bluejay genomic browser.

Turinsky AL, Ah-Seng AC, Gordon PM, Stromer JN, Taschuk ML, Xu EW, Sensen CW.

In Silico Biol. 2005;5(2):187-98.

PMID:
15972014
[PubMed - indexed for MEDLINE]
13.

Statistical Viewer: a tool to upload and integrate linkage and association data as plots displayed within the Ensembl genome browser.

Stenger JE, Xu H, Haynes C, Hauser ER, Pericak-Vance M, Goldschmidt-Clermont PJ, Vance JM.

BMC Bioinformatics. 2005 Apr 12;6:95.

PMID:
15826305
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

WebGBrowse--a web server for GBrowse.

Podicheti R, Gollapudi R, Dong Q.

Bioinformatics. 2009 Jun 15;25(12):1550-1. doi: 10.1093/bioinformatics/btp239. Epub 2009 Apr 8.

PMID:
19357095
[PubMed - indexed for MEDLINE]
Free Article
15.

Apollo2Go: a web service adapter for the Apollo genome viewer to enable distributed genome annotation.

Klee K, Ernst R, Spannagl M, Mayer KF.

BMC Bioinformatics. 2007 Aug 30;8:320.

PMID:
17760972
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Recent developments of the chemistry development kit (CDK) - an open-source java library for chemo- and bioinformatics.

Steinbeck C, Hoppe C, Kuhn S, Floris M, Guha R, Willighagen EL.

Curr Pharm Des. 2006;12(17):2111-20. Review.

PMID:
16796559
[PubMed - indexed for MEDLINE]
17.

UCSC genome browser tutorial.

Zweig AS, Karolchik D, Kuhn RM, Haussler D, Kent WJ.

Genomics. 2008 Aug;92(2):75-84. doi: 10.1016/j.ygeno.2008.02.003. Epub 2008 Jun 2. Review.

PMID:
18514479
[PubMed - indexed for MEDLINE]
Free Article
18.

The generic genome browser: a building block for a model organism system database.

Stein LD, Mungall C, Shu S, Caudy M, Mangone M, Day A, Nickerson E, Stajich JE, Harris TW, Arva A, Lewis S.

Genome Res. 2002 Oct;12(10):1599-610.

PMID:
12368253
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Using the Ensembl genome server to browse genomic sequence data.

Fernández-Suárez XM, Schuster MK.

Curr Protoc Bioinformatics. 2007 Jan;Chapter 1:Unit 1.15. doi: 10.1002/0471250953.bi0115s16.

PMID:
18428779
[PubMed - indexed for MEDLINE]
20.

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.

PMID:
19166610
[PubMed - indexed for MEDLINE]
Free PMC Article

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