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Items: 11

1.

Savant: genome browser for high-throughput sequencing data.

Fiume M, Williams V, Brook A, Brudno M.

Bioinformatics. 2010 Aug 15;26(16):1938-44. doi: 10.1093/bioinformatics/btq332. Epub 2010 Jun 20.

2.

Visualizing genomes: techniques and challenges.

Nielsen CB, Cantor M, Dubchak I, Gordon D, Wang T.

Nat Methods. 2010 Mar;7(3 Suppl):S5-S15. doi: 10.1038/nmeth.1422. Epub 2010 Feb 25. Review.

PMID:
20195257
3.

Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1.

Verhaak RG, Hoadley KA, Purdom E, Wang V, Qi Y, Wilkerson MD, Miller CR, Ding L, Golub T, Mesirov JP, Alexe G, Lawrence M, O'Kelly M, Tamayo P, Weir BA, Gabriel S, Winckler W, Gupta S, Jakkula L, Feiler HS, Hodgson JG, James CD, Sarkaria JN, Brennan C, Kahn A, Spellman PT, Wilson RK, Speed TP, Gray JW, Meyerson M, Getz G, Perou CM, Hayes DN; Cancer Genome Atlas Research Network.

Cancer Cell. 2010 Jan 19;17(1):98-110. doi: 10.1016/j.ccr.2009.12.020.

4.

Tablet--next generation sequence assembly visualization.

Milne I, Bayer M, Cardle L, Shaw P, Stephen G, Wright F, Marshall D.

Bioinformatics. 2010 Feb 1;26(3):401-2. doi: 10.1093/bioinformatics/btp666. Epub 2009 Dec 4.

5.

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.

6.

MapView: visualization of short reads alignment on a desktop computer.

Bao H, Guo H, Wang J, Zhou R, Lu X, Shi S.

Bioinformatics. 2009 Jun 15;25(12):1554-5. doi: 10.1093/bioinformatics/btp255. Epub 2009 Apr 15.

PMID:
19369497
7.

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals.

Guttman M, Amit I, Garber M, French C, Lin MF, Feldser D, Huarte M, Zuk O, Carey BW, Cassady JP, Cabili MN, Jaenisch R, Mikkelsen TS, Jacks T, Hacohen N, Bernstein BE, Kellis M, Regev A, Rinn JL, Lander ES.

Nature. 2009 Mar 12;458(7235):223-7. doi: 10.1038/nature07672. Epub 2009 Feb 1.

8.

Comprehensive genomic characterization defines human glioblastoma genes and core pathways.

Cancer Genome Atlas Research Network.

Nature. 2008 Oct 23;455(7216):1061-8. doi: 10.1038/nature07385. Epub 2008 Sep 4. Erratum in: Nature. 2013 Feb 28;494(7438):506.

9.

EagleView: a genome assembly viewer for next-generation sequencing technologies.

Huang W, Marth G.

Genome Res. 2008 Sep;18(9):1538-43. doi: 10.1101/gr.076067.108. Epub 2008 Jun 11.

10.

The ENCODE (ENCyclopedia Of DNA Elements) Project.

ENCODE Project Consortium.

Science. 2004 Oct 22;306(5696):636-40.

PMID:
15499007
11.

Artemis: sequence visualization and annotation.

Rutherford K, Parkhill J, Crook J, Horsnell T, Rice P, Rajandream MA, Barrell B.

Bioinformatics. 2000 Oct;16(10):944-5.

PMID:
11120685

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