These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

627 related articles for article (PubMed ID: 22955984)

  • 1. Sequence and chromatin determinants of cell-type-specific transcription factor binding.
    Arvey A; Agius P; Noble WS; Leslie C
    Genome Res; 2012 Sep; 22(9):1723-34. PubMed ID: 22955984
    [TBL] [Abstract][Full Text] [Related]  

  • 2. 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]  

  • 3. SeqGL Identifies Context-Dependent Binding Signals in Genome-Wide Regulatory Element Maps.
    Setty M; Leslie CS
    PLoS Comput Biol; 2015 May; 11(5):e1004271. PubMed ID: 26016777
    [TBL] [Abstract][Full Text] [Related]  

  • 4. 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]  

  • 5. Uncovering cis-regulatory sequence requirements for context-specific transcription factor binding.
    Yáñez-Cuna JO; Dinh HQ; Kvon EZ; Shlyueva D; Stark A
    Genome Res; 2012 Oct; 22(10):2018-30. PubMed ID: 22534400
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Cell-type specificity of ChIP-predicted transcription factor binding sites.
    Håndstad T; Rye M; Močnik R; Drabløs F; Sætrom P
    BMC Genomics; 2012 Aug; 13():372. PubMed ID: 22863112
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Predicting transcription factor site occupancy using DNA sequence intrinsic and cell-type specific chromatin features.
    Kumar S; Bucher P
    BMC Bioinformatics; 2016 Jan; 17 Suppl 1(Suppl 1):4. PubMed ID: 26818008
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Predicting cell-type-specific gene expression from regions of open chromatin.
    Natarajan A; Yardimci GG; Sheffield NC; Crawford GE; Ohler U
    Genome Res; 2012 Sep; 22(9):1711-22. PubMed ID: 22955983
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Factorbook.org: a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium.
    Wang J; Zhuang J; Iyer S; Lin XY; Greven MC; Kim BH; Moore J; Pierce BG; Dong X; Virgil D; Birney E; Hung JH; Weng Z
    Nucleic Acids Res; 2013 Jan; 41(Database issue):D171-6. PubMed ID: 23203885
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Role of chromatin and transcriptional co-regulators in mediating p63-genome interactions in keratinocytes.
    Sethi I; Sinha S; Buck MJ
    BMC Genomics; 2014 Nov; 15(1):1042. PubMed ID: 25433490
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Interplay between chromatin state, regulator binding, and regulatory motifs in six human cell types.
    Ernst J; Kellis M
    Genome Res; 2013 Jul; 23(7):1142-54. PubMed ID: 23595227
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Transcription factor-binding k-mer analysis clarifies the cell type dependency of binding specificities and cis-regulatory SNPs in humans.
    Tahara S; Tsuchiya T; Matsumoto H; Ozaki H
    BMC Genomics; 2023 Oct; 24(1):597. PubMed ID: 37805453
    [TBL] [Abstract][Full Text] [Related]  

  • 13. MEDEA: analysis of transcription factor binding motifs in accessible chromatin.
    Mariani L; Weinand K; Gisselbrecht SS; Bulyk ML
    Genome Res; 2020 May; 30(5):736-748. PubMed ID: 32424069
    [TBL] [Abstract][Full Text] [Related]  

  • 14. High resolution models of transcription factor-DNA affinities improve in vitro and in vivo binding predictions.
    Agius P; Arvey A; Chang W; Noble WS; Leslie C
    PLoS Comput Biol; 2010 Sep; 6(9):. PubMed ID: 20838582
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements.
    Kundaje A; Kyriazopoulou-Panagiotopoulou S; Libbrecht M; Smith CL; Raha D; Winters EE; Johnson SM; Snyder M; Batzoglou S; Sidow A
    Genome Res; 2012 Sep; 22(9):1735-47. PubMed ID: 22955985
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Relationship between histone modifications and transcription factor binding is protein family specific.
    Xin B; Rohs R
    Genome Res; 2018 Mar; 28(3):321-333. PubMed ID: 29326300
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Combining transcription factor binding affinities with open-chromatin data for accurate gene expression prediction.
    Schmidt F; Gasparoni N; Gasparoni G; Gianmoena K; Cadenas C; Polansky JK; Ebert P; Nordström K; Barann M; Sinha A; Fröhler S; Xiong J; Dehghani Amirabad A; Behjati Ardakani F; Hutter B; Zipprich G; Felder B; Eils J; Brors B; Chen W; Hengstler JG; Hamann A; Lengauer T; Rosenstiel P; Walter J; Schulz MH
    Nucleic Acids Res; 2017 Jan; 45(1):54-66. PubMed ID: 27899623
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data.
    Pique-Regi R; Degner JF; Pai AA; Gaffney DJ; Gilad Y; Pritchard JK
    Genome Res; 2011 Mar; 21(3):447-55. PubMed ID: 21106904
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Genome-Scale Analysis of Cell-Specific Regulatory Codes Using Nuclear Enzymes.
    Baek S; Sung MH
    Methods Mol Biol; 2016; 1418():225-40. PubMed ID: 27008018
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Wellington-bootstrap: differential DNase-seq footprinting identifies cell-type determining transcription factors.
    Piper J; Assi SA; Cauchy P; Ladroue C; Cockerill PN; Bonifer C; Ott S
    BMC Genomics; 2015 Nov; 16():1000. PubMed ID: 26608661
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 32.