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Items: 1 to 20 of 103

1.

High order chromatin architecture shapes the landscape of chromosomal alterations in cancer.

Fudenberg G, Getz G, Meyerson M, Mirny LA.

Nat Biotechnol. 2011 Nov 20;29(12):1109-13. doi: 10.1038/nbt.2049.

2.

Genomic instability: close-up on cancer copy number alterations.

Burgess DJ.

Nat Rev Genet. 2011 Nov 29;13(1):5. doi: 10.1038/nrg3133. No abstract available.

PMID:
22124481
3.

Genomic rearrangement in three dimensions.

Hastings PJ, Rosenberg SM.

Nat Biotechnol. 2011 Dec 8;29(12):1096-8. doi: 10.1038/nbt.2064. No abstract available.

PMID:
22158363
4.
5.

Comparative analysis of somatic copy-number alterations across different human cancer types reveals two distinct classes of breakpoint hotspots.

Li Y, Zhang L, Ball RL, Liang X, Li J, Lin Z, Liang H.

Hum Mol Genet. 2012 Nov 15;21(22):4957-65. doi: 10.1093/hmg/dds340. Epub 2012 Aug 16.

6.

The landscape of somatic chromosomal copy number aberrations in GEM models of prostate carcinoma.

Bianchi-Frias D, Hernandez SA, Coleman R, Wu H, Nelson PS.

Mol Cancer Res. 2015 Feb;13(2):339-47. doi: 10.1158/1541-7786.MCR-14-0262. Epub 2014 Oct 8.

7.

DNA replication timing and long-range DNA interactions predict mutational landscapes of cancer genomes.

De S, Michor F.

Nat Biotechnol. 2011 Nov 20;29(12):1103-8. doi: 10.1038/nbt.2030.

8.

DNA secondary structures and epigenetic determinants of cancer genome evolution.

De S, Michor F.

Nat Struct Mol Biol. 2011 Jul 3;18(8):950-5. doi: 10.1038/nsmb.2089.

9.

Genomic determinants of somatic copy number alterations across human cancers.

Zhang Y, Xu H, Frishman D.

Hum Mol Genet. 2016 Mar 1;25(5):1019-30. doi: 10.1093/hmg/ddv623. Epub 2016 Jan 4.

PMID:
26732428
10.

Comparative analysis of methods for identifying somatic copy number alterations from deep sequencing data.

Alkodsi A, Louhimo R, Hautaniemi S.

Brief Bioinform. 2015 Mar;16(2):242-54. doi: 10.1093/bib/bbu004. Epub 2014 Mar 5.

PMID:
24599115
11.

COPS: a sensitive and accurate tool for detecting somatic Copy Number Alterations using short-read sequence data from paired samples.

Krishnan NM, Gaur P, Chaudhary R, Rao AA, Panda B.

PLoS One. 2012;7(10):e47812. doi: 10.1371/journal.pone.0047812. Epub 2012 Oct 22.

12.

Genome-wide identification of significant aberrations in cancer genome.

Yuan X, Yu G, Hou X, Shih IeM, Clarke R, Zhang J, Hoffman EP, Wang RR, Zhang Z, Wang Y.

BMC Genomics. 2012 Jul 27;13:342. doi: 10.1186/1471-2164-13-342.

13.

Three-dimensional genome architecture influences partner selection for chromosomal translocations in human disease.

Engreitz JM, Agarwala V, Mirny LA.

PLoS One. 2012;7(9):e44196. doi: 10.1371/journal.pone.0044196. Epub 2012 Sep 28.

14.

Precise inference of copy number alterations in tumor samples from SNP arrays.

Chen GK, Chang X, Curtis C, Wang K.

Bioinformatics. 2013 Dec 1;29(23):2964-70. doi: 10.1093/bioinformatics/btt521. Epub 2013 Sep 9.

15.

Selection and evolution in the genomic landscape of copy number alterations in ductal carcinoma in situ (DCIS) and its progression to invasive carcinoma of ductal/no special type: a meta-analysis.

Rane SU, Mirza H, Grigoriadis A, Pinder SE.

Breast Cancer Res Treat. 2015 Aug;153(1):101-21. doi: 10.1007/s10549-015-3509-x. Epub 2015 Aug 9.

PMID:
26255059
16.

Comprehensive mapping of long-range interactions reveals folding principles of the human genome.

Lieberman-Aiden E, van Berkum NL, Williams L, Imakaev M, Ragoczy T, Telling A, Amit I, Lajoie BR, Sabo PJ, Dorschner MO, Sandstrom R, Bernstein B, Bender MA, Groudine M, Gnirke A, Stamatoyannopoulos J, Mirny LA, Lander ES, Dekker J.

Science. 2009 Oct 9;326(5950):289-93. doi: 10.1126/science.1181369.

17.

Detection of chromosomal alterations in the circulation of cancer patients with whole-genome sequencing.

Leary RJ, Sausen M, Kinde I, Papadopoulos N, Carpten JD, Craig D, O'Shaughnessy J, Kinzler KW, Parmigiani G, Vogelstein B, Diaz LA Jr, Velculescu VE.

Sci Transl Med. 2012 Nov 28;4(162):162ra154. doi: 10.1126/scitranslmed.3004742.

18.

Dynamic chromatin loops bridge health and disease in the nuclear landscape.

Göndör A.

Semin Cancer Biol. 2013 Apr;23(2):90-8. doi: 10.1016/j.semcancer.2013.01.002. Epub 2013 Feb 1. Review.

PMID:
23376421
19.

Genome-wide analysis of recurrent copy-number alterations and copy-neutral loss of heterozygosity in head and neck squamous cell carcinoma.

Marescalco MS, Capizzi C, Condorelli DF, Barresi V.

J Oral Pathol Med. 2014 Jan;43(1):20-7. doi: 10.1111/jop.12087. Epub 2013 Jun 10.

PMID:
23750501
20.

Pan-cancer patterns of somatic copy number alteration.

Zack TI, Schumacher SE, Carter SL, Cherniack AD, Saksena G, Tabak B, Lawrence MS, Zhsng CZ, Wala J, Mermel CH, Sougnez C, Gabriel SB, Hernandez B, Shen H, Laird PW, Getz G, Meyerson M, Beroukhim R.

Nat Genet. 2013 Oct;45(10):1134-40. doi: 10.1038/ng.2760.

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