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Items: 1 to 20 of 123

1.

Evaluating the evaluation of cancer driver genes.

Tokheim CJ, Papadopoulos N, Kinzler KW, Vogelstein B, Karchin R.

Proc Natl Acad Sci U S A. 2016 Dec 13;113(50):14330-14335. Epub 2016 Nov 22.

2.

DrGaP: a powerful tool for identifying driver genes and pathways in cancer sequencing studies.

Hua X, Xu H, Yang Y, Zhu J, Liu P, Lu Y.

Am J Hum Genet. 2013 Sep 5;93(3):439-51. doi: 10.1016/j.ajhg.2013.07.003. Epub 2013 Aug 15.

3.

Discovering potential cancer driver genes by an integrated network-based approach.

Shi K, Gao L, Wang B.

Mol Biosyst. 2016 Aug 16;12(9):2921-31. doi: 10.1039/c6mb00274a.

PMID:
27426053
4.

IDENTIFY CANCER DRIVER GENES THROUGH SHARED MENDELIAN DISEASE PATHOGENIC VARIANTS AND CANCER SOMATIC MUTATIONS.

Ma M, Wang C, Glicksberg BS, Schadt EE, Li SD, Chen R.

Pac Symp Biocomput. 2017;22:473-484. doi: 10.1142/9789813207813_0044.

5.

The Integrative Method Based on the Module-Network for Identifying Driver Genes in Cancer Subtypes.

Lu X, Li X, Liu P, Qian X, Miao Q, Peng S.

Molecules. 2018 Jan 24;23(2). pii: E183. doi: 10.3390/molecules23020183.

6.

De novo discovery of mutated driver pathways in cancer.

Vandin F, Upfal E, Raphael BJ.

Genome Res. 2012 Feb;22(2):375-85. doi: 10.1101/gr.120477.111. Epub 2011 Jun 7.

7.

Predicting the functional consequences of somatic missense mutations found in tumors.

Carter H, Karchin R.

Methods Mol Biol. 2014;1101:135-59. doi: 10.1007/978-1-62703-721-1_8.

PMID:
24233781
8.

MUFFINN: cancer gene discovery via network analysis of somatic mutation data.

Cho A, Shim JE, Kim E, Supek F, Lehner B, Lee I.

Genome Biol. 2016 Jun 23;17(1):129. doi: 10.1186/s13059-016-0989-x.

9.

Simultaneous identification of multiple driver pathways in cancer.

Leiserson MD, Blokh D, Sharan R, Raphael BJ.

PLoS Comput Biol. 2013;9(5):e1003054. doi: 10.1371/journal.pcbi.1003054. Epub 2013 May 23.

10.

Identifying driver mutations from sequencing data of heterogeneous tumors in the era of personalized genome sequencing.

Zhang J, Liu J, Sun J, Chen C, Foltz G, Lin B.

Brief Bioinform. 2014 Mar;15(2):244-55. doi: 10.1093/bib/bbt042. Epub 2013 Jul 1. Review.

PMID:
23818492
11.

Assessment of computational methods for predicting the effects of missense mutations in human cancers.

Gnad F, Baucom A, Mukhyala K, Manning G, Zhang Z.

BMC Genomics. 2013;14 Suppl 3:S7. doi: 10.1186/1471-2164-14-S3-S7. Epub 2013 May 28.

12.

Identification of constrained cancer driver genes based on mutation timing.

Sakoparnig T, Fried P, Beerenwinkel N.

PLoS Comput Biol. 2015 Jan 8;11(1):e1004027. doi: 10.1371/journal.pcbi.1004027. eCollection 2015 Jan.

13.

PATIENT-SPECIFIC DATA FUSION FOR CANCER STRATIFICATION AND PERSONALISED TREATMENT.

Gligorijević V, Malod-Dognin N, Pržulj N.

Pac Symp Biocomput. 2016;21:321-32.

14.

VarWalker: personalized mutation network analysis of putative cancer genes from next-generation sequencing data.

Jia P, Zhao Z.

PLoS Comput Biol. 2014 Feb 6;10(2):e1003460. doi: 10.1371/journal.pcbi.1003460. eCollection 2014 Feb.

15.

Frequent mutations in acetylation and ubiquitination sites suggest novel driver mechanisms of cancer.

Narayan S, Bader GD, Reimand J.

Genome Med. 2016 May 12;8(1):55. doi: 10.1186/s13073-016-0311-2.

16.

SomInaClust: detection of cancer genes based on somatic mutation patterns of inactivation and clustering.

Van den Eynden J, Fierro AC, Verbeke LP, Marchal K.

BMC Bioinformatics. 2015 Apr 23;16:125. doi: 10.1186/s12859-015-0555-7.

17.

Dynamic changes of driver genes' mutations across clinical stages in nine cancer types.

Li X.

Cancer Med. 2016 Jul;5(7):1556-65. doi: 10.1002/cam4.704. Epub 2016 Mar 19.

18.

Machine Learning Classification and Structure-Functional Analysis of Cancer Mutations Reveal Unique Dynamic and Network Signatures of Driver Sites in Oncogenes and Tumor Suppressor Genes.

Agajanian S, Odeyemi O, Bischoff N, Ratra S, Verkhivker GM.

J Chem Inf Model. 2018 Oct 22;58(10):2131-2150. doi: 10.1021/acs.jcim.8b00414. Epub 2018 Oct 3.

PMID:
30253099
19.

Driver Missense Mutation Identification Using Feature Selection and Model Fusion.

Soliman AT, Meng T, Chen SC, Iyengar SS, Iyengar P, Yordy J, Shyu ML.

J Comput Biol. 2015 Dec;22(12):1075-85. doi: 10.1089/cmb.2015.0110. Epub 2015 Sep 24.

PMID:
26402258
20.

Systematic analysis of mutation distribution in three dimensional protein structures identifies cancer driver genes.

Fujimoto A, Okada Y, Boroevich KA, Tsunoda T, Taniguchi H, Nakagawa H.

Sci Rep. 2016 May 26;6:26483. doi: 10.1038/srep26483.

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