204 related articles for article (PubMed ID: 30352610)
1. Genome-wide map of human and mouse transcription factor binding sites aggregated from ChIP-Seq data.
Vorontsov IE; Fedorova AD; Yevshin IS; Sharipov RN; Kolpakov FA; Makeev VJ; Kulakovskiy IV
BMC Res Notes; 2018 Oct; 11(1):756. PubMed ID: 30352610
[TBL] [Abstract][Full Text] [Related]
2. ChIPSummitDB: a ChIP-seq-based database of human transcription factor binding sites and the topological arrangements of the proteins bound to them.
Czipa E; Schiller M; Nagy T; Kontra L; Steiner L; Koller J; Pálné-Szén O; Barta E
Database (Oxford); 2020 Jan; 2020():. PubMed ID: 31942977
[TBL] [Abstract][Full Text] [Related]
3. COPS: detecting co-occurrence and spatial arrangement of transcription factor binding motifs in genome-wide datasets.
Ha N; Polychronidou M; Lohmann I
PLoS One; 2012; 7(12):e52055. PubMed ID: 23272209
[TBL] [Abstract][Full Text] [Related]
4. ChIPXpress: using publicly available gene expression data to improve ChIP-seq and ChIP-chip target gene ranking.
Wu G; Ji H
BMC Bioinformatics; 2013 Jun; 14():188. PubMed ID: 23758851
[TBL] [Abstract][Full Text] [Related]
5. Statistics of protein-DNA binding and the total number of binding sites for a transcription factor in the mammalian genome.
Kuznetsov VA; Singh O; Jenjaroenpun P
BMC Genomics; 2010 Feb; 11 Suppl 1(Suppl 1):S12. PubMed ID: 20158869
[TBL] [Abstract][Full Text] [Related]
6. A biophysical model for analysis of transcription factor interaction and binding site arrangement from genome-wide binding data.
He X; Chen CC; Hong F; Fang F; Sinha S; Ng HH; Zhong S
PLoS One; 2009 Dec; 4(12):e8155. PubMed ID: 19956545
[TBL] [Abstract][Full Text] [Related]
7. 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]
8. An improved ChIP-seq peak detection system for simultaneously identifying post-translational modified transcription factors by combinatorial fusion, using SUMOylation as an example.
Cheng CY; Chu CH; Hsu HW; Hsu FR; Tang CY; Wang WC; Kung HJ; Chang PC
BMC Genomics; 2014; 15 Suppl 1(Suppl 1):S1. PubMed ID: 24564277
[TBL] [Abstract][Full Text] [Related]
9. Non-targeted transcription factors motifs are a systemic component of ChIP-seq datasets.
Worsley Hunt R; Wasserman WW
Genome Biol; 2014 Jul; 15(7):412. PubMed ID: 25070602
[TBL] [Abstract][Full Text] [Related]
10. Information content differentiates enhancers from silencers in mouse photoreceptors.
Friedman RZ; Granas DM; Myers CA; Corbo JC; Cohen BA; White MA
Elife; 2021 Sep; 10():. PubMed ID: 34486522
[TBL] [Abstract][Full Text] [Related]
11. Discovering unknown human and mouse transcription factor binding sites and their characteristics from ChIP-seq data.
Yu CP; Kuo CH; Nelson CW; Chen CA; Soh ZT; Lin JJ; Hsiao RX; Chang CY; Li WH
Proc Natl Acad Sci U S A; 2021 May; 118(20):. PubMed ID: 33975951
[TBL] [Abstract][Full Text] [Related]
12. BinDNase: a discriminatory approach for transcription factor binding prediction using DNase I hypersensitivity data.
Kähärä J; Lähdesmäki H
Bioinformatics; 2015 Sep; 31(17):2852-9. PubMed ID: 25957350
[TBL] [Abstract][Full Text] [Related]
13. 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]
14. The native cistrome and sequence motif families of the maize ear.
Savadel SD; Hartwig T; Turpin ZM; Vera DL; Lung PY; Sui X; Blank M; Frommer WB; Dennis JH; Zhang J; Bass HW
PLoS Genet; 2021 Aug; 17(8):e1009689. PubMed ID: 34383745
[TBL] [Abstract][Full Text] [Related]
15. hTFtarget: A Comprehensive Database for Regulations of Human Transcription Factors and Their Targets.
Zhang Q; Liu W; Zhang HM; Xie GY; Miao YR; Xia M; Guo AY
Genomics Proteomics Bioinformatics; 2020 Apr; 18(2):120-128. PubMed ID: 32858223
[TBL] [Abstract][Full Text] [Related]
16. Pinpointing transcription factor binding sites from ChIP-seq data with SeqSite.
Wang X; Zhang X
BMC Syst Biol; 2011; 5 Suppl 2(Suppl 2):S3. PubMed ID: 22784574
[TBL] [Abstract][Full Text] [Related]
17. Cistrome Data Browser: expanded datasets and new tools for gene regulatory analysis.
Zheng R; Wan C; Mei S; Qin Q; Wu Q; Sun H; Chen CH; Brown M; Zhang X; Meyer CA; Liu XS
Nucleic Acids Res; 2019 Jan; 47(D1):D729-D735. PubMed ID: 30462313
[TBL] [Abstract][Full Text] [Related]
18. Identification of Plant Transcription Factor DNA-Binding Sites Using seq-DAP-seq.
Hutin S; Blanc-Mathieu R; Rieu P; Parcy F; Lai X; Zubieta C
Methods Mol Biol; 2023; 2698():119-145. PubMed ID: 37682473
[TBL] [Abstract][Full Text] [Related]
19. Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors.
Wang J; Zhuang J; Iyer S; Lin X; Whitfield TW; Greven MC; Pierce BG; Dong X; Kundaje A; Cheng Y; Rando OJ; Birney E; Myers RM; Noble WS; Snyder M; Weng Z
Genome Res; 2012 Sep; 22(9):1798-812. PubMed ID: 22955990
[TBL] [Abstract][Full Text] [Related]
20. Improving analysis of transcription factor binding sites within ChIP-Seq data based on topological motif enrichment.
Worsley Hunt R; Mathelier A; Del Peso L; Wasserman WW
BMC Genomics; 2014 Jun; 15(1):472. PubMed ID: 24927817
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
