204 related articles for article (PubMed ID: 28854983)
1. Identification of cis-regulatory mutations generating de novo edges in personalized cancer gene regulatory networks.
Kalender Atak Z; Imrichova H; Svetlichnyy D; Hulselmans G; Christiaens V; Reumers J; Ceulemans H; Aerts S
Genome Med; 2017 Aug; 9(1):80. PubMed ID: 28854983
[TBL] [Abstract][Full Text] [Related]
2. The search for cis-regulatory driver mutations in cancer genomes.
Poulos RC; Sloane MA; Hesson LB; Wong JW
Oncotarget; 2015 Oct; 6(32):32509-25. PubMed ID: 26356674
[TBL] [Abstract][Full Text] [Related]
3. Cis-regulatory somatic mutations and gene-expression alteration in B-cell lymphomas.
Mathelier A; Lefebvre C; Zhang AW; Arenillas DJ; Ding J; Wasserman WW; Shah SP
Genome Biol; 2015 Apr; 16(1):84. PubMed ID: 25903198
[TBL] [Abstract][Full Text] [Related]
4. Identification of High-Impact cis-Regulatory Mutations Using Transcription Factor Specific Random Forest Models.
Svetlichnyy D; Imrichova H; Fiers M; Kalender Atak Z; Aerts S
PLoS Comput Biol; 2015 Nov; 11(11):e1004590. PubMed ID: 26562774
[TBL] [Abstract][Full Text] [Related]
5. Functional annotation of noncoding mutations in cancer.
Umer HM; Smolinska K; Komorowski J; Wadelius C
Life Sci Alliance; 2021 Sep; 4(9):. PubMed ID: 34282050
[TBL] [Abstract][Full Text] [Related]
6. Cancer Gene Discovery by Network Analysis of Somatic Mutations Using the MUFFINN Server.
Han H; Lehner B; Lee I
Methods Mol Biol; 2019; 1907():37-50. PubMed ID: 30542989
[TBL] [Abstract][Full Text] [Related]
7. Candidate Cancer Driver Mutations in Distal Regulatory Elements and Long-Range Chromatin Interaction Networks.
Zhu H; Uusküla-Reimand L; Isaev K; Wadi L; Alizada A; Shuai S; Huang V; Aduluso-Nwaobasi D; Paczkowska M; Abd-Rabbo D; Ocsenas O; Liang M; Thompson JD; Li Y; Ruan L; Krassowski M; Dzneladze I; Simpson JT; Lupien M; Stein LD; Boutros PC; Wilson MD; Reimand J
Mol Cell; 2020 Mar; 77(6):1307-1321.e10. PubMed ID: 31954095
[TBL] [Abstract][Full Text] [Related]
8. FunSeq2: a framework for prioritizing noncoding regulatory variants in cancer.
Fu Y; Liu Z; Lou S; Bedford J; Mu XJ; Yip KY; Khurana E; Gerstein M
Genome Biol; 2014; 15(10):480. PubMed ID: 25273974
[TBL] [Abstract][Full Text] [Related]
9. LNDriver: identifying driver genes by integrating mutation and expression data based on gene-gene interaction network.
Wei PJ; Zhang D; Xia J; Zheng CH
BMC Bioinformatics; 2016 Dec; 17(Suppl 17):467. PubMed ID: 28155630
[TBL] [Abstract][Full Text] [Related]
10. Systematic Screening of Promoter Regions Pinpoints Functional Cis-Regulatory Mutations in a Cutaneous Melanoma Genome.
Poulos RC; Thoms JA; Shah A; Beck D; Pimanda JE; Wong JW
Mol Cancer Res; 2015 Aug; 13(8):1218-26. PubMed ID: 26082173
[TBL] [Abstract][Full Text] [Related]
11. i-cisTarget 2015 update: generalized cis-regulatory enrichment analysis in human, mouse and fly.
Imrichová H; Hulselmans G; Atak ZK; Potier D; Aerts S
Nucleic Acids Res; 2015 Jul; 43(W1):W57-64. PubMed ID: 25925574
[TBL] [Abstract][Full Text] [Related]
12. SalMotifDB: a tool for analyzing putative transcription factor binding sites in salmonid genomes.
Mulugeta TD; Nome T; To TH; Gundappa MK; Macqueen DJ; Våge DI; Sandve SR; Hvidsten TR
BMC Genomics; 2019 Sep; 20(1):694. PubMed ID: 31477007
[TBL] [Abstract][Full Text] [Related]
13. Identification of candidate cancer drivers by integrative Epi-DNA and Gene Expression (iEDGE) data analysis.
Li A; Chapuy B; Varelas X; Sebastiani P; Monti S
Sci Rep; 2019 Nov; 9(1):16904. PubMed ID: 31729402
[TBL] [Abstract][Full Text] [Related]
14. i-cisTarget: an integrative genomics method for the prediction of regulatory features and cis-regulatory modules.
Herrmann C; Van de Sande B; Potier D; Aerts S
Nucleic Acids Res; 2012 Aug; 40(15):e114. PubMed ID: 22718975
[TBL] [Abstract][Full Text] [Related]
15. Cross-species de novo identification of cis-regulatory modules with GibbsModule: application to gene regulation in embryonic stem cells.
Xie D; Cai J; Chia NY; Ng HH; Zhong S
Genome Res; 2008 Aug; 18(8):1325-35. PubMed ID: 18490265
[TBL] [Abstract][Full Text] [Related]
16. VarWalker: personalized mutation network analysis of putative cancer genes from next-generation sequencing data.
Jia P; Zhao Z
PLoS Comput Biol; 2014 Feb; 10(2):e1003460. PubMed ID: 24516372
[TBL] [Abstract][Full Text] [Related]
17. Snowball: resampling combined with distance-based regression to discover transcriptional consequences of a driver mutation.
Xu Y; Guo X; Sun J; Zhao Z
Bioinformatics; 2015 Jan; 31(1):84-93. PubMed ID: 25192743
[TBL] [Abstract][Full Text] [Related]
18. Identification of altered cis-regulatory elements in human disease.
Mathelier A; Shi W; Wasserman WW
Trends Genet; 2015 Feb; 31(2):67-76. PubMed ID: 25637093
[TBL] [Abstract][Full Text] [Related]
19. DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer.
Bashashati A; Haffari G; Ding J; Ha G; Lui K; Rosner J; Huntsman DG; Caldas C; Aparicio SA; Shah SP
Genome Biol; 2012 Dec; 13(12):R124. PubMed ID: 23383675
[TBL] [Abstract][Full Text] [Related]
20. A system for detecting high impact-low frequency mutations in primary tumors and metastases.
Anjanappa M; Hao Y; Simpson ER; Bhat-Nakshatri P; Nelson JB; Tersey SA; Mirmira RG; Cohen-Gadol AA; Saadatzadeh MR; Li L; Fang F; Nephew KP; Miller KD; Liu Y; Nakshatri H
Oncogene; 2018 Jan; 37(2):185-196. PubMed ID: 28892047
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
