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Items: 1 to 20 of 35


Global analysis of somatic structural genomic alterations and their impact on gene expression in diverse human cancers.

Alaei-Mahabadi B, Bhadury J, Karlsson JW, Nilsson JA, Larsson E.

Proc Natl Acad Sci U S A. 2016 Nov 29;113(48):13768-13773. Epub 2016 Nov 16.


The tandem duplicator phenotype as a distinct genomic configuration in cancer.

Menghi F, Inaki K, Woo X, Kumar PA, Grzeda KR, Malhotra A, Yadav V, Kim H, Marquez EJ, Ucar D, Shreckengast PT, Wagner JP, MacIntyre G, Murthy Karuturi KR, Scully R, Keck J, Chuang JH, Liu ET.

Proc Natl Acad Sci U S A. 2016 Apr 26;113(17):E2373-82. doi: 10.1073/pnas.1520010113. Epub 2016 Apr 7.


Many obesity-associated SNPs strongly associate with DNA methylation changes at proximal promoters and enhancers.

Voisin S, Almén MS, Zheleznyakova GY, Lundberg L, Zarei S, Castillo S, Eriksson FE, Nilsson EK, Blüher M, Böttcher Y, Kovacs P, Klovins J, Rask-Andersen M, Schiöth HB.

Genome Med. 2015 Oct 8;7:103. doi: 10.1186/s13073-015-0225-4.


Contralateral breast cancer can represent a metastatic spread of the first primary tumor: determination of clonal relationship between contralateral breast cancers using next-generation whole genome sequencing.

Alkner S, Tang MH, Brueffer C, Dahlgren M, Chen Y, Olsson E, Winter C, Baker S, Ehinger A, Rydén L, Saal LH, Fernö M, Gruvberger-Saal SK.

Breast Cancer Res. 2015 Aug 5;17:102. doi: 10.1186/s13058-015-0608-x.


The Obesity-Linked Gene Nudt3 Drosophila Homolog Aps Is Associated With Insulin Signaling.

Williams MJ, Eriksson A, Shaik M, Voisin S, Yamskova O, Paulsson J, Thombare K, Fredriksson R, Schiöth HB.

Mol Endocrinol. 2015 Sep;29(9):1303-19. doi: 10.1210/ME.2015-1077. Epub 2015 Jul 13.


TP53 intron 1 hotspot rearrangements are specific to sporadic osteosarcoma and can cause Li-Fraumeni syndrome.

Ribi S, Baumhoer D, Lee K, Edison, Teo AS, Madan B, Zhang K, Kohlmann WK, Yao F, Lee WH, Hoi Q, Cai S, Woo XY, Tan P, Jundt G, Smida J, Nathrath M, Sung WK, Schiffman JD, Virshup DM, Hillmer AM.

Oncotarget. 2015 Apr 10;6(10):7727-40.


Comprehensive characterization of the genomic alterations in human gastric cancer.

Cui J, Yin Y, Ma Q, Wang G, Olman V, Zhang Y, Chou WC, Hong CS, Zhang C, Cao S, Mao X, Li Y, Qin S, Zhao S, Jiang J, Hastings P, Li F, Xu Y.

Int J Cancer. 2015 Jul 1;137(1):86-95. doi: 10.1002/ijc.29352. Epub 2014 Dec 3.


Functional chromatin features are associated with structural mutations in cancer.

Grzeda KR, Royer-Bertrand B, Inaki K, Kim H, Hillmer AM, Liu ET, Chuang JH.

BMC Genomics. 2014 Nov 23;15:1013. doi: 10.1186/1471-2164-15-1013.


Systems consequences of amplicon formation in human breast cancer.

Inaki K, Menghi F, Woo XY, Wagner JP, Jacques PÉ, Lee YF, Shreckengast PT, Soon WW, Malhotra A, Teo AS, Hillmer AM, Khng AJ, Ruan X, Ong SH, Bertrand D, Nagarajan N, Karuturi RK, Miranda AH, Liu ET.

Genome Res. 2014 Oct;24(10):1559-71. doi: 10.1101/gr.164871.113. Epub 2014 Sep 3.


GAP-Seq: a method for identification of DNA palindromes.

Yang H, Volfovsky N, Rattray A, Chen X, Tanaka H, Strathern J.

BMC Genomics. 2014 May 22;15:394. doi: 10.1186/1471-2164-15-394.


Detection of chromosomal breakpoints in patients with developmental delay and speech disorders.

Utami KH, Hillmer AM, Aksoy I, Chew EG, Teo AS, Zhang Z, Lee CW, Chen PJ, Seng CC, Ariyaratne PN, Rouam SL, Soo LS, Yousoof S, Prokudin I, Peters G, Collins F, Wilson M, Kakakios A, Haddad G, Menuet A, Perche O, Tay SK, Sung KW, Ruan X, Ruan Y, Liu ET, Briault S, Jamieson RV, Davila S, Cacheux V.

PLoS One. 2014 Mar 6;9(6):e90852. doi: 10.1371/journal.pone.0090852. eCollection 2014.


Dissecting the chromatin interactome of microRNA genes.

Chen D, Fu LY, Zhang Z, Li G, Zhang H, Jiang L, Harrison AP, Shanahan HP, Klukas C, Zhang HY, Ruan Y, Chen LL, Chen M.

Nucleic Acids Res. 2014 Mar;42(5):3028-43. doi: 10.1093/nar/gkt1294. Epub 2013 Dec 18.


Discovery of recurrent structural variants in nasopharyngeal carcinoma.

Valouev A, Weng Z, Sweeney RT, Varma S, Le QT, Kong C, Sidow A, West RB.

Genome Res. 2014 Feb;24(2):300-9. doi: 10.1101/gr.156224.113. Epub 2013 Nov 8.


Genome-wide analysis of HPV integration in human cancers reveals recurrent, focal genomic instability.

Akagi K, Li J, Broutian TR, Padilla-Nash H, Xiao W, Jiang B, Rocco JW, Teknos TN, Kumar B, Wangsa D, He D, Ried T, Symer DE, Gillison ML.

Genome Res. 2014 Feb;24(2):185-99. doi: 10.1101/gr.164806.113. Epub 2013 Nov 7.


Mate pair sequencing for the detection of chromosomal aberrations in patients with intellectual disability and congenital malformations.

Vergult S, Van Binsbergen E, Sante T, Nowak S, Vanakker O, Claes K, Poppe B, Van der Aa N, van Roosmalen MJ, Duran K, Tavakoli-Yaraki M, Swinkels M, van den Boogaard MJ, van Haelst M, Roelens F, Speleman F, Cuppen E, Mortier G, Kloosterman WP, Menten B.

Eur J Hum Genet. 2014 May;22(5):652-9. doi: 10.1038/ejhg.2013.220. Epub 2013 Oct 9.


Homology-mediated end-capping as a primary step of sister chromatid fusion in the breakage-fusion-bridge cycles.

Marotta M, Chen X, Watanabe T, Faber PW, Diede SJ, Tapscott S, Tubbs R, Kondratova A, Stephens R, Tanaka H.

Nucleic Acids Res. 2013 Nov;41(21):9732-40. doi: 10.1093/nar/gkt762. Epub 2013 Aug 23.


Diverse mechanisms of somatic structural variations in human cancer genomes.

Yang L, Luquette LJ, Gehlenborg N, Xi R, Haseley PS, Hsieh CH, Zhang C, Ren X, Protopopov A, Chin L, Kucherlapati R, Lee C, Park PJ.

Cell. 2013 May 9;153(4):919-29. doi: 10.1016/j.cell.2013.04.010. Erratum in: Cell. 2014 Jun 19;157(7):1736.


On the power and the systematic biases of the detection of chromosomal inversions by paired-end genome sequencing.

Lucas Lledó JI, Cáceres M.

PLoS One. 2013 Apr 23;8(4):e61292. doi: 10.1371/journal.pone.0061292. Print 2013.


Improving mammalian genome scaffolding using large insert mate-pair next-generation sequencing.

van Heesch S, Kloosterman WP, Lansu N, Ruzius FP, Levandowsky E, Lee CC, Zhou S, Goldstein S, Schwartz DC, Harkins TT, Guryev V, Cuppen E.

BMC Genomics. 2013 Apr 16;14:257. doi: 10.1186/1471-2164-14-257.

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