135 related articles for article (PubMed ID: 30477433)
1. SMuRF: a novel tool to identify regulatory elements enriched for somatic point mutations.
Guilhamon P; Lupien M
BMC Bioinformatics; 2018 Nov; 19(1):454. PubMed ID: 30477433
[TBL] [Abstract][Full Text] [Related]
2. Epigenomic annotation of noncoding mutations identifies mutated pathways in primary liver cancer.
Lowdon RF; Wang T
PLoS One; 2017; 12(3):e0174032. PubMed ID: 28333948
[TBL] [Abstract][Full Text] [Related]
3. SMuRF: portable and accurate ensemble prediction of somatic mutations.
Huang W; Guo YA; Muthukumar K; Baruah P; Chang MM; Jacobsen Skanderup A
Bioinformatics; 2019 Sep; 35(17):3157-3159. PubMed ID: 30649191
[TBL] [Abstract][Full Text] [Related]
4. Ensemble-Based Somatic Mutation Calling in Cancer Genomes.
Huang W; Guo YA; Chang MM; Skanderup AJ
Methods Mol Biol; 2020; 2120():37-46. PubMed ID: 32124310
[TBL] [Abstract][Full Text] [Related]
5. CompMoby: comparative MobyDick for detection of cis-regulatory motifs.
Chaivorapol C; Melton C; Wei G; Yeh RF; Ramalho-Santos M; Blelloch R; Li H
BMC Bioinformatics; 2008 Oct; 9():455. PubMed ID: 18950538
[TBL] [Abstract][Full Text] [Related]
6. A novel pairwise comparison method for in silico discovery of statistically significant cis-regulatory elements in eukaryotic promoter regions: application to Arabidopsis.
Shamloo-Dashtpagerdi R; Razi H; Aliakbari M; Lindlöf A; Ebrahimi M; Ebrahimie E
J Theor Biol; 2015 Jan; 364():364-76. PubMed ID: 25303887
[TBL] [Abstract][Full Text] [Related]
7. De novo prediction of cis-regulatory elements and modules through integrative analysis of a large number of ChIP datasets.
Niu M; Tabari ES; Su Z
BMC Genomics; 2014 Dec; 15():1047. PubMed ID: 25442502
[TBL] [Abstract][Full Text] [Related]
8. Regulatory landscape enrichment analysis (RLEA): a computational toolkit for non-coding variant enrichment and cell type prioritization.
Rosean S; Sosa EA; O'Shea D; Raj SM; Seoighe C; Greally JM
BMC Bioinformatics; 2024 May; 25(1):179. PubMed ID: 38714913
[TBL] [Abstract][Full Text] [Related]
9. Systems-wide Identification of cis-Regulatory Elements in Proteins.
Yeon JH; Heinkel F; Sung M; Na D; Gsponer J
Cell Syst; 2016 Feb; 2(2):89-100. PubMed ID: 27135163
[TBL] [Abstract][Full Text] [Related]
10. LARVA: an integrative framework for large-scale analysis of recurrent variants in noncoding annotations.
Lochovsky L; Zhang J; Fu Y; Khurana E; Gerstein M
Nucleic Acids Res; 2015 Sep; 43(17):8123-34. PubMed ID: 26304545
[TBL] [Abstract][Full Text] [Related]
11. C3D: a tool to predict 3D genomic interactions between cis-regulatory elements.
Mehdi T; Bailey SD; Guilhamon P; Lupien M
Bioinformatics; 2019 Mar; 35(5):877-879. PubMed ID: 30816925
[TBL] [Abstract][Full Text] [Related]
12. Transcript annotation tool (TransAT): an R package for retrieving annotations for transcript-specific genetic variants.
Shih CY; Chattopadhyay A; Wu CH; Tien YW; Lu TP
BMC Bioinformatics; 2021 Jun; 22(1):350. PubMed ID: 34182919
[TBL] [Abstract][Full Text] [Related]
13. Systematic prediction of cis-regulatory elements in the Chlamydomonas reinhardtii genome using comparative genomics.
Ding J; Li X; Hu H
Plant Physiol; 2012 Oct; 160(2):613-23. PubMed ID: 22915576
[TBL] [Abstract][Full Text] [Related]
14. 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]
15. Noncoding mutations target cis-regulatory elements of the FOXA1 plexus in prostate cancer.
Zhou S; Hawley JR; Soares F; Grillo G; Teng M; Madani Tonekaboni SA; Hua JT; Kron KJ; Mazrooei P; Ahmed M; Arlidge C; Yun HY; Livingstone J; Huang V; Yamaguchi TN; Espiritu SMG; Zhu Y; Severson TM; Murison A; Cameron S; Zwart W; van der Kwast T; Pugh TJ; Fraser M; Boutros PC; Bristow RG; He HH; Lupien M
Nat Commun; 2020 Jan; 11(1):441. PubMed ID: 31974375
[TBL] [Abstract][Full Text] [Related]
16. HALPER facilitates the identification of regulatory element orthologs across species.
Zhang X; Kaplow IM; Wirthlin M; Park TY; Pfenning AR
Bioinformatics; 2020 Aug; 36(15):4339-4340. PubMed ID: 32407523
[TBL] [Abstract][Full Text] [Related]
17. High-throughput cis-regulatory element discovery in the vector mosquito Aedes aegypti.
Behura SK; Sarro J; Li P; Mysore K; Severson DW; Emrich SJ; Duman-Scheel M
BMC Genomics; 2016 May; 17():341. PubMed ID: 27161480
[TBL] [Abstract][Full Text] [Related]
18. A saturating mutagenesis CRISPR-Cas9-mediated functional genomic screen identifies
Canver MC; Tripathi P; Bullen MJ; Olshansky M; Kumar Y; Wong LH; Turner SJ; Lessard S; Pinello L; Orkin SH; Das PP
J Biol Chem; 2020 Nov; 295(47):15797-15809. PubMed ID: 32994224
[TBL] [Abstract][Full Text] [Related]
19. fcScan: a versatile tool to cluster combinations of sites using genomic coordinates.
El-Kurdi A; Khalil GA; Khazen G; Khoueiry P
BMC Bioinformatics; 2020 May; 21(1):194. PubMed ID: 32429868
[TBL] [Abstract][Full Text] [Related]
20. 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]
[Next] [New Search]
