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Items: 1 to 20 of 87

1.

A comprehensive transcriptional portrait of human cancer cell lines.

Klijn C, Durinck S, Stawiski EW, Haverty PM, Jiang Z, Liu H, Degenhardt J, Mayba O, Gnad F, Liu J, Pau G, Reeder J, Cao Y, Mukhyala K, Selvaraj SK, Yu M, Zynda GJ, Brauer MJ, Wu TD, Gentleman RC, Manning G, Yauch RL, Bourgon R, Stokoe D, Modrusan Z, Neve RM, de Sauvage FJ, Settleman J, Seshagiri S, Zhang Z.

Nat Biotechnol. 2015 Mar;33(3):306-12. doi: 10.1038/nbt.3080. Epub 2014 Dec 8.

PMID:
25485619
2.

Chimeric transcript discovery by paired-end transcriptome sequencing.

Maher CA, Palanisamy N, Brenner JC, Cao X, Kalyana-Sundaram S, Luo S, Khrebtukova I, Barrette TR, Grasso C, Yu J, Lonigro RJ, Schroth G, Kumar-Sinha C, Chinnaiyan AM.

Proc Natl Acad Sci U S A. 2009 Jul 28;106(30):12353-8. doi: 10.1073/pnas.0904720106. Epub 2009 Jul 10.

3.

deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data.

McPherson A, Hormozdiari F, Zayed A, Giuliany R, Ha G, Sun MG, Griffith M, Heravi Moussavi A, Senz J, Melnyk N, Pacheco M, Marra MA, Hirst M, Nielsen TO, Sahinalp SC, Huntsman D, Shah SP.

PLoS Comput Biol. 2011 May;7(5):e1001138. doi: 10.1371/journal.pcbi.1001138. Epub 2011 May 19.

4.

Cross-cancer profiling of molecular alterations within the human autophagy interaction network.

Lebovitz CB, Robertson AG, Goya R, Jones SJ, Morin RD, Marra MA, Gorski SM.

Autophagy. 2015;11(9):1668-87. doi: 10.1080/15548627.2015.1067362.

5.

Identification of gene fusion transcripts by transcriptome sequencing in BRCA1-mutated breast cancers and cell lines.

Ha KC, Lalonde E, Li L, Cavallone L, Natrajan R, Lambros MB, Mitsopoulos C, Hakas J, Kozarewa I, Fenwick K, Lord CJ, Ashworth A, Vincent-Salomon A, Basik M, Reis-Filho JS, Majewski J, Foulkes WD.

BMC Med Genomics. 2011 Oct 27;4:75. doi: 10.1186/1755-8794-4-75.

6.

Comprehensive genomic characterization of cutaneous malignant melanoma cell lines derived from metastatic lesions by whole-exome sequencing and SNP array profiling.

Cifola I, Pietrelli A, Consolandi C, Severgnini M, Mangano E, Russo V, De Bellis G, Battaglia C.

PLoS One. 2013 May 21;8(5):e63597. doi: 10.1371/journal.pone.0063597. Print 2013.

7.

The landscape of antisense gene expression in human cancers.

Balbin OA, Malik R, Dhanasekaran SM, Prensner JR, Cao X, Wu YM, Robinson D, Wang R, Chen G, Beer DG, Nesvizhskii AI, Chinnaiyan AM.

Genome Res. 2015 Jul;25(7):1068-79. doi: 10.1101/gr.180596.114. Epub 2015 Jun 10.

8.

Elucidating the cancer-specific genetic alteration spectrum of glioblastoma derived cell lines from whole exome and RNA sequencing.

Patil V, Pal J, Somasundaram K.

Oncotarget. 2015 Dec 22;6(41):43452-71. doi: 10.18632/oncotarget.6171.

9.

Exome sequencing reveals comprehensive genomic alterations across eight cancer cell lines.

Chang H, Jackson DG, Kayne PS, Ross-Macdonald PB, Ryseck RP, Siemers NO.

PLoS One. 2011;6(6):e21097. doi: 10.1371/journal.pone.0021097. Epub 2011 Jun 20.

10.

FOXA1 defines cancer cell specificity.

Zhang G, Zhao Y, Liu Y, Kao LP, Wang X, Skerry B, Li Z.

Sci Adv. 2016 Mar 18;2(3):e1501473. doi: 10.1126/sciadv.1501473. eCollection 2016 Mar.

11.

Large differences in global transcriptional regulatory programs of normal and tumor colon cells.

Cordero D, Solé X, Crous-Bou M, Sanz-Pamplona R, Paré-Brunet L, Guinó E, Olivares D, Berenguer A, Santos C, Salazar R, Biondo S, Moreno V.

BMC Cancer. 2014 Sep 24;14:708. doi: 10.1186/1471-2407-14-708.

12.

Molecular evolutionary analysis of cancer cell lines.

Zhang Y, Italia MJ, Auger KR, Halsey WS, Van Horn SF, Sathe GM, Magid-Slav M, Brown JR, Holbrook JD.

Mol Cancer Ther. 2010 Feb;9(2):279-91. doi: 10.1158/1535-7163.MCT-09-0508. Epub 2010 Feb 2.

13.

Development and Verification of an RNA Sequencing (RNA-Seq) Assay for the Detection of Gene Fusions in Tumors.

Winters JL, Davila JI, McDonald AM, Nair AA, Fadra N, Wehrs RN, Thomas BC, Balcom JR, Jin L, Wu X, Voss JS, Klee EW, Oliver GR, Graham RP, Neff JL, Rumilla KM, Aypar U, Kipp BR, Jenkins RB, Jen J, Halling KC.

J Mol Diagn. 2018 Jul;20(4):495-511. doi: 10.1016/j.jmoldx.2018.03.007. Epub 2018 Jun 19.

14.

The first insight into the tissue specific taxus transcriptome via Illumina second generation sequencing.

Hao da C, Ge G, Xiao P, Zhang Y, Yang L.

PLoS One. 2011;6(6):e21220. doi: 10.1371/journal.pone.0021220. Epub 2011 Jun 22.

15.

Networks of intergenic long-range enhancers and snpRNAs drive castration-resistant phenotype of prostate cancer and contribute to pathogenesis of multiple common human disorders.

Glinskii AB, Ma S, Ma J, Grant D, Lim CU, Guest I, Sell S, Buttyan R, Glinsky GV.

Cell Cycle. 2011 Oct 15;10(20):3571-97. doi: 10.4161/cc.10.20.17842.

16.

Genomic Landscape of Primary Mediastinal B-Cell Lymphoma Cell Lines.

Dai H, Ehrentraut S, Nagel S, Eberth S, Pommerenke C, Dirks WG, Geffers R, Kalavalapalli S, Kaufmann M, Meyer C, Faehnrich S, Chen S, Drexler HG, MacLeod RA.

PLoS One. 2015 Nov 23;10(11):e0139663. doi: 10.1371/journal.pone.0139663. eCollection 2015.

17.

Isogenic human mammary epithelial cell lines: novel tools for target identification and validation. Comprehensive characterization of an isogenic human mammary epithelial cell model provides evidence for epithelial-mesenchymal transition.

Ulbricht U, Sommer A, Beckmann G, Lutzenberger M, Seidel H, Kreft B, Toschi L.

Breast Cancer Res Treat. 2013 Apr;138(2):437-56. doi: 10.1007/s10549-013-2472-7. Epub 2013 Mar 13.

PMID:
23483306
18.

TumorFusions: an integrative resource for cancer-associated transcript fusions.

Hu X, Wang Q, Tang M, Barthel F, Amin S, Yoshihara K, Lang FM, Martinez-Ledesma E, Lee SH, Zheng S, Verhaak RGW.

Nucleic Acids Res. 2018 Jan 4;46(D1):D1144-D1149. doi: 10.1093/nar/gkx1018.

19.

High-throughput resequencing of target-captured cDNA in cancer cells.

Ueno T, Yamashita Y, Soda M, Fukumura K, Ando M, Yamato A, Kawazu M, Choi YL, Mano H.

Cancer Sci. 2012 Jan;103(1):131-5. doi: 10.1111/j.1349-7006.2011.02105.x. Epub 2011 Oct 13.

20.

Functional synergies yet distinct modulators affected by genetic alterations in common human cancers.

Bessarabova M, Pustovalova O, Shi W, Serebriyskaya T, Ishkin A, Polyak K, Velculescu VE, Nikolskaya T, Nikolsky Y.

Cancer Res. 2011 May 15;71(10):3471-81. doi: 10.1158/0008-5472.CAN-10-3038. Epub 2011 Mar 11.

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