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Items: 19

1.

Mapping and sequencing of structural variation from eight human genomes.

Kidd JM, Cooper GM, Donahue WF, Hayden HS, Sampas N, Graves T, Hansen N, Teague B, Alkan C, Antonacci F, Haugen E, Zerr T, Yamada NA, Tsang P, Newman TL, Tüzün E, Cheng Z, Ebling HM, Tusneem N, David R, Gillett W, Phelps KA, Weaver M, Saranga D, Brand A, Tao W, Gustafson E, McKernan K, Chen L, Malig M, Smith JD, Korn JM, McCarroll SA, Altshuler DA, Peiffer DA, Dorschner M, Stamatoyannopoulos J, Schwartz D, Nickerson DA, Mullikin JC, Wilson RK, Bruhn L, Olson MV, Kaul R, Smith DR, Eichler EE.

Nature. 2008 May 1;453(7191):56-64. doi: 10.1038/nature06862.

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.

3.

Evaluation of paired-end sequencing strategies for detection of genome rearrangements in cancer.

Bashir A, Volik S, Collins C, Bafna V, Raphael BJ.

PLoS Comput Biol. 2008 Apr 25;4(4):e1000051. doi: 10.1371/journal.pcbi.1000051.

4.

Paired-end mapping reveals extensive structural variation in the human genome.

Korbel JO, Urban AE, Affourtit JP, Godwin B, Grubert F, Simons JF, Kim PM, Palejev D, Carriero NJ, Du L, Taillon BE, Chen Z, Tanzer A, Saunders AC, Chi J, Yang F, Carter NP, Hurles ME, Weissman SM, Harkins TT, Gerstein MB, Egholm M, Snyder M.

Science. 2007 Oct 19;318(5849):420-6. Epub 2007 Sep 27.

5.

Architectures of somatic genomic rearrangement in human cancer amplicons at sequence-level resolution.

Bignell GR, Santarius T, Pole JC, Butler AP, Perry J, Pleasance E, Greenman C, Menzies A, Taylor S, Edkins S, Campbell P, Quail M, Plumb B, Matthews L, McLay K, Edwards PA, Rogers J, Wooster R, Futreal PA, Stratton MR.

Genome Res. 2007 Sep;17(9):1296-303. Epub 2007 Aug 3.

6.

The impact of translocations and gene fusions on cancer causation.

Mitelman F, Johansson B, Mertens F.

Nat Rev Cancer. 2007 Apr;7(4):233-45. Epub 2007 Mar 15. Review.

PMID:
17361217
7.

Transposon insertion site profiling chip (TIP-chip).

Wheelan SJ, Scheifele LZ, Martínez-Murillo F, Irizarry RA, Boeke JD.

Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):17632-7. Epub 2006 Nov 13.

8.

Multiplex sequencing of paired-end ditags (MS-PET): a strategy for the ultra-high-throughput analysis of transcriptomes and genomes.

Ng P, Tan JJ, Ooi HS, Lee YL, Chiu KP, Fullwood MJ, Srinivasan KG, Perbost C, Du L, Sung WK, Wei CL, Ruan Y.

Nucleic Acids Res. 2006 Jul 13;34(12):e84.

9.

Analysis of gross-chromosomal rearrangements in Saccharomyces cerevisiae.

Schmidt KH, Pennaneach V, Putnam CD, Kolodner RD.

Methods Enzymol. 2006;409:462-76.

PMID:
16793418
10.

A global map of p53 transcription-factor binding sites in the human genome.

Wei CL, Wu Q, Vega VB, Chiu KP, Ng P, Zhang T, Shahab A, Yong HC, Fu Y, Weng Z, Liu J, Zhao XD, Chew JL, Lee YL, Kuznetsov VA, Sung WK, Miller LD, Lim B, Liu ET, Yu Q, Ng HH, Ruan Y.

Cell. 2006 Jan 13;124(1):207-19.

11.

Accurate multiplex polony sequencing of an evolved bacterial genome.

Shendure J, Porreca GJ, Reppas NB, Lin X, McCutcheon JP, Rosenbaum AM, Wang MD, Zhang K, Mitra RD, Church GM.

Science. 2005 Sep 9;309(5741):1728-32. Epub 2005 Aug 4.

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].

13.

Chromosome aberrations in solid tumors.

Albertson DG, Collins C, McCormick F, Gray JW.

Nat Genet. 2003 Aug;34(4):369-76. Review.

PMID:
12923544
15.
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17.

Polymorphisms on the right arm of yeast chromosome III associated with Ty transposition and recombination events.

Warmington JR, Green RP, Newlon CS, Oliver SG.

Nucleic Acids Res. 1987 Nov 11;15(21):8963-82.

18.

Analysis of a circular derivative of Saccharomyces cerevisiae chromosome III: a physical map and identification and location of ARS elements.

Newlon CS, Lipchitz LR, Collins I, Deshpande A, Devenish RJ, Green RP, Klein HL, Palzkill TG, Ren RB, Synn S, et al.

Genetics. 1991 Oct;129(2):343-57. Erratum in: Genetics 1992 Jan;130(1):235.

19.

The complete DNA sequence of yeast chromosome III.

Oliver SG, van der Aart QJ, Agostoni-Carbone ML, Aigle M, Alberghina L, Alexandraki D, Antoine G, Anwar R, Ballesta JP, Benit P, et al.

Nature. 1992 May 7;357(6373):38-46.

PMID:
1574125

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