609 related articles for article (PubMed ID: 27519564)
1. iTAR: a web server for identifying target genes of transcription factors using ChIP-seq or ChIP-chip data.
Yang CC; Andrews EH; Chen MH; Wang WY; Chen JJ; Gerstein M; Liu CC; Cheng C
BMC Genomics; 2016 Aug; 17(1):632. PubMed ID: 27519564
[TBL] [Abstract][Full Text] [Related]
2. The ChIP-Seq tools and web server: a resource for analyzing ChIP-seq and other types of genomic data.
Ambrosini G; Dreos R; Kumar S; Bucher P
BMC Genomics; 2016 Nov; 17(1):938. PubMed ID: 27863463
[TBL] [Abstract][Full Text] [Related]
3. ChIP-BIT: Bayesian inference of target genes using a novel joint probabilistic model of ChIP-seq profiles.
Chen X; Jung JG; Shajahan-Haq AN; Clarke R; Shih IeM; Wang Y; Magnani L; Wang TL; Xuan J
Nucleic Acids Res; 2016 Apr; 44(7):e65. PubMed ID: 26704972
[TBL] [Abstract][Full Text] [Related]
4. PscanChIP: Finding over-represented transcription factor-binding site motifs and their correlations in sequences from ChIP-Seq experiments.
Zambelli F; Pesole G; Pavesi G
Nucleic Acids Res; 2013 Jul; 41(Web Server issue):W535-43. PubMed ID: 23748563
[TBL] [Abstract][Full Text] [Related]
5. A map of direct TF-DNA interactions in the human genome.
Gheorghe M; Sandve GK; Khan A; Chèneby J; Ballester B; Mathelier A
Nucleic Acids Res; 2019 Feb; 47(4):e21. PubMed ID: 30517703
[TBL] [Abstract][Full Text] [Related]
6. Expresso: A database and web server for exploring the interaction of transcription factors and their target genes in
Aghamirzaie D; Raja Velmurugan K; Wu S; Altarawy D; Heath LS; Grene R
F1000Res; 2017; 6():372. PubMed ID: 28529706
[No Abstract] [Full Text] [Related]
7. Inferring condition-specific targets of human TF-TF complexes using ChIP-seq data.
Yang CC; Chen MH; Lin SY; Andrews EH; Cheng C; Liu CC; Chen JJ
BMC Genomics; 2017 Jan; 18(1):61. PubMed ID: 28068916
[TBL] [Abstract][Full Text] [Related]
8. SignalSpider: probabilistic pattern discovery on multiple normalized ChIP-Seq signal profiles.
Wong KC; Li Y; Peng C; Zhang Z
Bioinformatics; 2015 Jan; 31(1):17-24. PubMed ID: 25192742
[TBL] [Abstract][Full Text] [Related]
9. ChIPseek, a web-based analysis tool for ChIP data.
Chen TW; Li HP; Lee CC; Gan RC; Huang PJ; Wu TH; Lee CY; Chang YF; Tang P
BMC Genomics; 2014 Jun; 15(1):539. PubMed ID: 24974934
[TBL] [Abstract][Full Text] [Related]
10. TIP: a probabilistic method for identifying transcription factor target genes from ChIP-seq binding profiles.
Cheng C; Min R; Gerstein M
Bioinformatics; 2011 Dec; 27(23):3221-7. PubMed ID: 22039215
[TBL] [Abstract][Full Text] [Related]
11. ePIANNO: ePIgenomics ANNOtation tool.
Liu CH; Ho BC; Chen CL; Chang YH; Hsu YC; Li YC; Yuan SS; Huang YH; Chang CS; Li KC; Chen HY
PLoS One; 2016; 11(2):e0148321. PubMed ID: 26859295
[TBL] [Abstract][Full Text] [Related]
12. CAGER: classification analysis of gene expression regulation using multiple information sources.
Ruan J; Zhang W
BMC Bioinformatics; 2005 May; 6():114. PubMed ID: 15890068
[TBL] [Abstract][Full Text] [Related]
13. Chromatin immunoprecipitation and multiplex sequencing (ChIP-Seq) to identify global transcription factor binding sites in the nematode Caenorhabditis elegans.
Brdlik CM; Niu W; Snyder M
Methods Enzymol; 2014; 539():89-111. PubMed ID: 24581441
[TBL] [Abstract][Full Text] [Related]
14. MixChIP: a probabilistic method for cell type specific protein-DNA binding analysis.
Rautio S; Lähdesmäki H
BMC Bioinformatics; 2015 Dec; 16():413. PubMed ID: 26703974
[TBL] [Abstract][Full Text] [Related]
15. CASSys: an integrated software-system for the interactive analysis of ChIP-seq data.
Alawi M; Kurtz S; Beckstette M
J Integr Bioinform; 2011 Jun; 8(2):155. PubMed ID: 21690655
[TBL] [Abstract][Full Text] [Related]
16. MYBS: a comprehensive web server for mining transcription factor binding sites in yeast.
Tsai HK; Chou MY; Shih CH; Huang GT; Chang TH; Li WH
Nucleic Acids Res; 2007 Jul; 35(Web Server issue):W221-6. PubMed ID: 17537814
[TBL] [Abstract][Full Text] [Related]
17. MEME-ChIP: motif analysis of large DNA datasets.
Machanick P; Bailey TL
Bioinformatics; 2011 Jun; 27(12):1696-7. PubMed ID: 21486936
[TBL] [Abstract][Full Text] [Related]
18. Identifying peaks in *-seq data using shape information.
Strino F; Lappe M
BMC Bioinformatics; 2016 Jun; 17 Suppl 5(Suppl 5):206. PubMed ID: 27295177
[TBL] [Abstract][Full Text] [Related]
19. Differential motif enrichment analysis of paired ChIP-seq experiments.
Lesluyes T; Johnson J; Machanick P; Bailey TL
BMC Genomics; 2014 Sep; 15(1):752. PubMed ID: 25179504
[TBL] [Abstract][Full Text] [Related]
20. Seten: a tool for systematic identification and comparison of processes, phenotypes, and diseases associated with RNA-binding proteins from condition-specific CLIP-seq profiles.
Budak G; Srivastava R; Janga SC
RNA; 2017 Jun; 23(6):836-846. PubMed ID: 28336542
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]