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Results: 1 to 20 of 29

1.

A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis.

Down TA, Rakyan VK, Turner DJ, Flicek P, Li H, Kulesha E, Gräf S, Johnson N, Herrero J, Tomazou EM, Thorne NP, Bäckdahl L, Herberth M, Howe KL, Jackson DK, Miretti MM, Marioni JC, Birney E, Hubbard TJ, Durbin R, Tavaré S, Beck S.

Nat Biotechnol. 2008 Jul;26(7):779-85. doi: 10.1038/nbt1414.

PMID:
18612301
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Identification of somatically acquired rearrangements in cancer using genome-wide massively parallel paired-end sequencing.

Campbell PJ, Stephens PJ, Pleasance ED, O'Meara S, Li H, Santarius T, Stebbings LA, Leroy C, Edkins S, Hardy C, Teague JW, Menzies A, Goodhead I, Turner DJ, Clee CM, Quail MA, Cox A, Brown C, Durbin R, Hurles ME, Edwards PA, Bignell GR, Stratton MR, Futreal PA.

Nat Genet. 2008 Jun;40(6):722-9. doi: 10.1038/ng.128. Epub 2008 Apr 27.

PMID:
18438408
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Velvet: algorithms for de novo short read assembly using de Bruijn graphs.

Zerbino DR, Birney E.

Genome Res. 2008 May;18(5):821-9. doi: 10.1101/gr.074492.107. Epub 2008 Mar 18.

PMID:
18349386
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Whole-genome sequencing and variant discovery in C. elegans.

Hillier LW, Marth GT, Quinlan AR, Dooling D, Fewell G, Barnett D, Fox P, Glasscock JI, Hickenbotham M, Huang W, Magrini VJ, Richt RJ, Sander SN, Stewart DA, Stromberg M, Tsung EF, Wylie T, Schedl T, Wilson RK, Mardis ER.

Nat Methods. 2008 Feb;5(2):183-8. doi: 10.1038/nmeth.1179. Epub 2008 Jan 20.

PMID:
18204455
[PubMed - indexed for MEDLINE]
5.

Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing.

Robertson G, Hirst M, Bainbridge M, Bilenky M, Zhao Y, Zeng T, Euskirchen G, Bernier B, Varhol R, Delaney A, Thiessen N, Griffith OL, He A, Marra M, Snyder M, Jones S.

Nat Methods. 2007 Aug;4(8):651-7. Epub 2007 Jun 11.

PMID:
17558387
[PubMed - indexed for MEDLINE]
6.

Genome-wide mapping of in vivo protein-DNA interactions.

Johnson DS, Mortazavi A, Myers RM, Wold B.

Science. 2007 Jun 8;316(5830):1497-502. Epub 2007 May 31.

PMID:
17540862
[PubMed - indexed for MEDLINE]
Free Article
7.

High-resolution profiling of histone methylations in the human genome.

Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, Wang Z, Wei G, Chepelev I, Zhao K.

Cell. 2007 May 18;129(4):823-37.

PMID:
17512414
[PubMed - indexed for MEDLINE]
Free Article
8.

Multidrug-resistant Salmonella enterica serovar paratyphi A harbors IncHI1 plasmids similar to those found in serovar typhi.

Holt KE, Thomson NR, Wain J, Phan MD, Nair S, Hasan R, Bhutta ZA, Quail MA, Norbertczak H, Walker D, Dougan G, Parkhill J.

J Bacteriol. 2007 Jun;189(11):4257-64. Epub 2007 Mar 23.

PMID:
17384186
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Whole-genome re-sequencing.

Bentley DR.

Curr Opin Genet Dev. 2006 Dec;16(6):545-52. Epub 2006 Oct 18. Review.

PMID:
17055251
[PubMed - indexed for MEDLINE]
10.

Automating sequence-based detection and genotyping of SNPs from diploid samples.

Stephens M, Sloan JS, Robertson PD, Scheet P, Nickerson DA.

Nat Genet. 2006 Mar;38(3):375-81. Epub 2006 Feb 19.

PMID:
16493422
[PubMed - indexed for MEDLINE]
11.

SNPdetector: a software tool for sensitive and accurate SNP detection.

Zhang J, Wheeler DA, Yakub I, Wei S, Sood R, Rowe W, Liu PP, Gibbs RA, Buetow KH.

PLoS Comput Biol. 2005 Oct;1(5):e53. Epub 2005 Oct 28.

PMID:
16261194
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Genome sequencing in microfabricated high-density picolitre reactors.

Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA, Berka J, Braverman MS, Chen YJ, Chen Z, Dewell SB, Du L, Fierro JM, Gomes XV, Godwin BC, He W, Helgesen S, Ho CH, Irzyk GP, Jando SC, Alenquer ML, Jarvie TP, Jirage KB, Kim JB, Knight JR, Lanza JR, Leamon JH, Lefkowitz SM, Lei M, Li J, Lohman KL, Lu H, Makhijani VB, McDade KE, McKenna MP, Myers EW, Nickerson E, Nobile JR, Plant R, Puc BP, Ronan MT, Roth GT, Sarkis GJ, Simons JF, Simpson JW, Srinivasan M, Tartaro KR, Tomasz A, Vogt KA, Volkmer GA, Wang SH, Wang Y, Weiner MP, Yu P, Begley RF, Rothberg JM.

Nature. 2005 Sep 15;437(7057):376-80. Epub 2005 Jul 31. Erratum in: Nature. 2006 May 4;441(7089):120. Ho, Chun He [corrected to Ho, Chun Heen].

PMID:
16056220
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

novoSNP, a novel computational tool for sequence variation discovery.

Weckx S, Del-Favero J, Rademakers R, Claes L, Cruts M, De Jonghe P, Van Broeckhoven C, De Rijk P.

Genome Res. 2005 Mar;15(3):436-42.

PMID:
15741513
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

GMAP: a genomic mapping and alignment program for mRNA and EST sequences.

Wu TD, Watanabe CK.

Bioinformatics. 2005 May 1;21(9):1859-75. Epub 2005 Feb 22.

PMID:
15728110
[PubMed - indexed for MEDLINE]
Free Article
15.

Comparison of genome degradation in Paratyphi A and Typhi, human-restricted serovars of Salmonella enterica that cause typhoid.

McClelland M, Sanderson KE, Clifton SW, Latreille P, Porwollik S, Sabo A, Meyer R, Bieri T, Ozersky P, McLellan M, Harkins CR, Wang C, Nguyen C, Berghoff A, Elliott G, Kohlberg S, Strong C, Du F, Carter J, Kremizki C, Layman D, Leonard S, Sun H, Fulton L, Nash W, Miner T, Minx P, Delehaunty K, Fronick C, Magrini V, Nhan M, Warren W, Florea L, Spieth J, Wilson RK.

Nat Genet. 2004 Dec;36(12):1268-74. Epub 2004 Nov 7.

PMID:
15531882
[PubMed - indexed for MEDLINE]
16.

Human-mouse alignments with BLASTZ.

Schwartz S, Kent WJ, Smit A, Zhang Z, Baertsch R, Hardison RC, Haussler D, Miller W.

Genome Res. 2003 Jan;13(1):103-7. Erratum in: Genome Res. 2004 Apr;14(4):786.

PMID:
12529312
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

PatternHunter: faster and more sensitive homology search.

Ma B, Tromp J, Li M.

Bioinformatics. 2002 Mar;18(3):440-5.

PMID:
11934743
[PubMed - indexed for MEDLINE]
Free Article
18.

BLAT--the BLAST-like alignment tool.

Kent WJ.

Genome Res. 2002 Apr;12(4):656-64.

PMID:
11932250
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Generating samples under a Wright-Fisher neutral model of genetic variation.

Hudson RR.

Bioinformatics. 2002 Feb;18(2):337-8.

PMID:
11847089
[PubMed - indexed for MEDLINE]
Free Article
20.

SSAHA: a fast search method for large DNA databases.

Ning Z, Cox AJ, Mullikin JC.

Genome Res. 2001 Oct;11(10):1725-9.

PMID:
11591649
[PubMed - indexed for MEDLINE]
Free PMC Article

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