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Results: 1 to 20 of 94

1.

Clinical Significance of CTNNB1 Mutation and Wnt Pathway Activation in Endometrioid Endometrial Carcinoma.

Liu Y, Patel L, Mills GB, Lu KH, Sood AK, Ding L, Kucherlapati R, Mardis ER, Levine DA, Shmulevich I, Broaddus RR, Zhang W.

J Natl Cancer Inst. 2014 Sep 10;106(9). pii: dju245. doi: 10.1093/jnci/dju245. Print 2014 Sep.

PMID:
25214561
[PubMed - in process]
2.

Biocellion: accelerating computer simulation of multicellular biological system models.

Kang S, Kahan S, McDermott J, Flann N, Shmulevich I.

Bioinformatics. 2014 Jul 26. pii: btu498. [Epub ahead of print]

PMID:
25064572
[PubMed - as supplied by publisher]
3.

CTCF haploinsufficiency destabilizes DNA methylation and predisposes to cancer.

Kemp CJ, Moore JM, Moser R, Bernard B, Teater M, Smith LE, Rabaia NA, Gurley KE, Guinney J, Busch SE, Shaknovich R, Lobanenkov VV, Liggitt D, Shmulevich I, Melnick A, Filippova GN.

Cell Rep. 2014 May 22;7(4):1020-9. doi: 10.1016/j.celrep.2014.04.004. Epub 2014 May 1.

PMID:
24794443
[PubMed - in process]
Free Article
4.

Two mature products of MIR-491 coordinate to suppress key cancer hallmarks in glioblastoma.

Li X, Liu Y, Granberg KJ, Wang Q, Moore LM, Ji P, Gumin J, Sulman EP, Calin GA, Haapasalo H, Nykter M, Shmulevich I, Fuller GN, Lang FF, Zhang W.

Oncogene. 2014 Apr 21. doi: 10.1038/onc.2014.98. [Epub ahead of print]

PMID:
24747968
[PubMed - as supplied by publisher]
5.

Multiscale representation of genomic signals.

Knijnenburg TA, Ramsey SA, Berman BP, Kennedy KA, Smit AF, Wessels LF, Laird PW, Aderem A, Shmulevich I.

Nat Methods. 2014 Jun;11(6):689-94. doi: 10.1038/nmeth.2924. Epub 2014 Apr 13.

PMID:
24727652
[PubMed - indexed for MEDLINE]
6.

MiR-506 suppresses proliferation and induces senescence by directly targeting the CDK4/6-FOXM1 axis in ovarian cancer.

Liu G, Sun Y, Ji P, Li X, Cogdell D, Yang D, Parker Kerrigan BC, Shmulevich I, Chen K, Sood AK, Xue F, Zhang W.

J Pathol. 2014 Jul;233(3):308-18. doi: 10.1002/path.4348. Epub 2014 May 21.

PMID:
24604117
[PubMed - indexed for MEDLINE]
7.

Post-transcriptional regulatory network of epithelial-to-mesenchymal and mesenchymal-to-epithelial transitions.

Guo F, Parker Kerrigan BC, Yang D, Hu L, Shmulevich I, Sood AK, Xue F, Zhang W.

J Hematol Oncol. 2014 Mar 5;7:19. doi: 10.1186/1756-8722-7-19.

PMID:
24598126
[PubMed - in process]
Free PMC Article
8.

Quantitative analysis of colony morphology in yeast.

Ruusuvuori P, Lin J, Scott AC, Tan Z, Sorsa S, Kallio A, Nykter M, Yli-Harja O, Shmulevich I, Dudley AM.

Biotechniques. 2014 Jan;56(1):18-27. doi: 10.2144/000114123.

PMID:
24447135
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

POMO--Plotting Omics analysis results for Multiple Organisms.

Lin J, Kreisberg R, Kallio A, Dudley AM, Nykter M, Shmulevich I, May P, Autio R.

BMC Genomics. 2013 Dec 24;14:918. doi: 10.1186/1471-2164-14-918.

PMID:
24365393
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

The somatic genomic landscape of glioblastoma.

Brennan CW, Verhaak RG, McKenna A, Campos B, Noushmehr H, Salama SR, Zheng S, Chakravarty D, Sanborn JZ, Berman SH, Beroukhim R, Bernard B, Wu CJ, Genovese G, Shmulevich I, Barnholtz-Sloan J, Zou L, Vegesna R, Shukla SA, Ciriello G, Yung WK, Zhang W, Sougnez C, Mikkelsen T, Aldape K, Bigner DD, Van Meir EG, Prados M, Sloan A, Black KL, Eschbacher J, Finocchiaro G, Friedman W, Andrews DW, Guha A, Iacocca M, O'Neill BP, Foltz G, Myers J, Weisenberger DJ, Penny R, Kucherlapati R, Perou CM, Hayes DN, Gibbs R, Marra M, Mills GB, Lander E, Spellman P, Wilson R, Sander C, Weinstein J, Meyerson M, Gabriel S, Laird PW, Haussler D, Getz G, Chin L; TCGA Research Network.

Cell. 2013 Oct 10;155(2):462-77. doi: 10.1016/j.cell.2013.09.034. Erratum in: Cell. 2014 Apr 24;157(3):753.

PMID:
24120142
[PubMed - indexed for MEDLINE]
11.

The Cancer Genome Atlas Pan-Cancer analysis project.

Cancer Genome Atlas Research Network, Weinstein JN, Collisson EA, Mills GB, Shaw KR, Ozenberger BA, Ellrott K, Shmulevich I, Sander C, Stuart JM.

Nat Genet. 2013 Oct;45(10):1113-20. doi: 10.1038/ng.2764.

PMID:
24071849
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

On the limitations of biological knowledge.

Dougherty ER, Shmulevich I.

Curr Genomics. 2012 Nov;13(7):574-87. doi: 10.2174/138920212803251445.

PMID:
23633917
[PubMed]
Free PMC Article
13.

Gene-pair expression signatures reveal lineage control.

Heinäniemi M, Nykter M, Kramer R, Wienecke-Baldacchino A, Sinkkonen L, Zhou JX, Kreisberg R, Kauffman SA, Huang S, Shmulevich I.

Nat Methods. 2013 Jun;10(6):577-83. doi: 10.1038/nmeth.2445. Epub 2013 Apr 21.

PMID:
23603899
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Information-theoretic analysis of the dynamics of an executable biological model.

Sadot A, Sarbu S, Kesseli J, Amir-Kroll H, Zhang W, Nykter M, Shmulevich I.

PLoS One. 2013;8(3):e59303. doi: 10.1371/journal.pone.0059303. Epub 2013 Mar 19.

PMID:
23527156
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Integrated analyses identify a master microRNA regulatory network for the mesenchymal subtype in serous ovarian cancer.

Yang D, Sun Y, Hu L, Zheng H, Ji P, Pecot CV, Zhao Y, Reynolds S, Cheng H, Rupaimoole R, Cogdell D, Nykter M, Broaddus R, Rodriguez-Aguayo C, Lopez-Berestein G, Liu J, Shmulevich I, Sood AK, Chen K, Zhang W.

Cancer Cell. 2013 Feb 11;23(2):186-99. doi: 10.1016/j.ccr.2012.12.020. Erratum in: Cancer Cell. 2013 May 13;23(5):705.

PMID:
23410973
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Systematic measurement of transcription factor-DNA interactions by targeted mass spectrometry identifies candidate gene regulatory proteins.

Mirzaei H, Knijnenburg TA, Kim B, Robinson M, Picotti P, Carter GW, Li S, Dilworth DJ, Eng JK, Aitchison JD, Shmulevich I, Galitski T, Aebersold R, Ranish J.

Proc Natl Acad Sci U S A. 2013 Feb 26;110(9):3645-50. doi: 10.1073/pnas.1216918110. Epub 2013 Feb 6.

PMID:
23388641
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Structure learning for Bayesian networks as models of biological networks.

Larjo A, Shmulevich I, Lähdesmäki H.

Methods Mol Biol. 2013;939:35-45. doi: 10.1007/978-1-62703-107-3_4.

PMID:
23192539
[PubMed - indexed for MEDLINE]
18.

Differing clinical impact of BRCA1 and BRCA2 mutations in serous ovarian cancer.

Liu G, Yang D, Sun Y, Shmulevich I, Xue F, Sood AK, Zhang W.

Pharmacogenomics. 2012 Oct;13(13):1523-35. doi: 10.2217/pgs.12.137. Review.

PMID:
23057551
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Fastbreak: a tool for analysis and visualization of structural variations in genomic data.

Bressler R, Lin J, Eakin A, Robinson T, Kreisberg R, Rovira H, Knijnenburg T, Boyle J, Shmulevich I.

EURASIP J Bioinform Syst Biol. 2012 Oct 9;2012(1):15. doi: 10.1186/1687-4153-2012-15.

PMID:
23046488
[PubMed]
Free PMC Article
20.

Transcriptome and small RNA deep sequencing reveals deregulation of miRNA biogenesis in human glioma.

Moore LM, Kivinen V, Liu Y, Annala M, Cogdell D, Liu X, Liu CG, Sawaya R, Yli-Harja O, Shmulevich I, Fuller GN, Zhang W, Nykter M.

J Pathol. 2013 Feb;229(3):449-59. doi: 10.1002/path.4109.

PMID:
23007860
[PubMed - indexed for MEDLINE]
Free PMC Article

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