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Journal Abstract Search

324 related items for PubMed ID: 31750523

  • 1. A single ChIP-seq dataset is sufficient for comprehensive analysis of motifs co-occurrence with MCOT package.
    Levitsky V, Zemlyanskaya E, Oshchepkov D, Podkolodnaya O, Ignatieva E, Grosse I, Mironova V, Merkulova T.
    Nucleic Acids Res; 2019 Dec 02; 47(21):e139. PubMed ID: 31750523
    [Abstract] [Full Text] [Related]

  • 2. Web-MCOT Server for Motif Co-Occurrence Search in ChIP-Seq Data.
    Levitsky VG, Mukhin AM, Oshchepkov DY, Zemlyanskaya EV, Lashin SA.
    Int J Mol Sci; 2022 Aug 11; 23(16):. PubMed ID: 36012247
    [Abstract] [Full Text] [Related]

  • 3. Asymmetric Conservation within Pairs of Co-Occurred Motifs Mediates Weak Direct Binding of Transcription Factors in ChIP-Seq Data.
    Levitsky V, Oshchepkov D, Zemlyanskaya E, Merkulova T.
    Int J Mol Sci; 2020 Aug 21; 21(17):. PubMed ID: 32825662
    [Abstract] [Full Text] [Related]

  • 4. FisherMP: fully parallel algorithm for detecting combinatorial motifs from large ChIP-seq datasets.
    Zhang S, Liang Y, Wang X, Su Z, Chen Y.
    DNA Res; 2019 Jun 01; 26(3):231-242. PubMed ID: 30957858
    [Abstract] [Full Text] [Related]

  • 5. Crunch: integrated processing and modeling of ChIP-seq data in terms of regulatory motifs.
    Berger S, Pachkov M, Arnold P, Omidi S, Kelley N, Salatino S, van Nimwegen E.
    Genome Res; 2019 Jul 01; 29(7):1164-1177. PubMed ID: 31138617
    [Abstract] [Full Text] [Related]

  • 6. Identification of Predictive Cis-Regulatory Elements Using a Discriminative Objective Function and a Dynamic Search Space.
    Karnik R, Beer MA.
    PLoS One; 2015 Jul 01; 10(10):e0140557. PubMed ID: 26465884
    [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 02; 15():1047. PubMed ID: 25442502
    [Abstract] [Full Text] [Related]

  • 8. 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 Dec 02; 7(12):e52055. PubMed ID: 23272209
    [Abstract] [Full Text] [Related]

  • 9. PlantPAN3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants.
    Chow CN, Lee TY, Hung YC, Li GZ, Tseng KC, Liu YH, Kuo PL, Zheng HQ, Chang WC.
    Nucleic Acids Res; 2019 Jan 08; 47(D1):D1155-D1163. PubMed ID: 30395277
    [Abstract] [Full Text] [Related]

  • 10. RSAT::Plants: Motif Discovery in ChIP-Seq Peaks of Plant Genomes.
    Castro-Mondragon JA, Rioualen C, Contreras-Moreira B, van Helden J.
    Methods Mol Biol; 2016 Jan 08; 1482():297-322. PubMed ID: 27557775
    [Abstract] [Full Text] [Related]

  • 11. Analysis of Co-Associated Transcription Factors via Ordered Adjacency Differences on Motif Distribution.
    Pan G, Tang J, Guo F.
    Sci Rep; 2017 Feb 27; 7():43597. PubMed ID: 28240320
    [Abstract] [Full Text] [Related]

  • 12. SIOMICS: a novel approach for systematic identification of motifs in ChIP-seq data.
    Ding J, Hu H, Li X.
    Nucleic Acids Res; 2014 Mar 27; 42(5):e35. PubMed ID: 24322294
    [Abstract] [Full Text] [Related]

  • 13. Systematic discovery of cofactor motifs from ChIP-seq data by SIOMICS.
    Ding J, Dhillon V, Li X, Hu H.
    Methods; 2015 Jun 27; 79-80():47-51. PubMed ID: 25171961
    [Abstract] [Full Text] [Related]

  • 14. Heterodimeric DNA motif synthesis and validations.
    Wong KC, Lin J, Li X, Lin Q, Liang C, Song YQ.
    Nucleic Acids Res; 2019 Feb 28; 47(4):1628-1636. PubMed ID: 30590725
    [Abstract] [Full Text] [Related]

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  • 16. 7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs.
    Ibn-Salem J, Andrade-Navarro MA.
    BMC Genomics; 2019 Oct 25; 20(1):777. PubMed ID: 31653198
    [Abstract] [Full Text] [Related]

  • 17. DREME: motif discovery in transcription factor ChIP-seq data.
    Bailey TL.
    Bioinformatics; 2011 Jun 15; 27(12):1653-9. PubMed ID: 21543442
    [Abstract] [Full Text] [Related]

  • 18. A practical comparison of methods for detecting transcription factor binding sites in ChIP-seq experiments.
    Laajala TD, Raghav S, Tuomela S, Lahesmaa R, Aittokallio T, Elo LL.
    BMC Genomics; 2009 Dec 18; 10():618. PubMed ID: 20017957
    [Abstract] [Full Text] [Related]

  • 19. Structure-aided prediction of mammalian transcription factor complexes in conserved non-coding elements.
    Guturu H, Doxey AC, Wenger AM, Bejerano G.
    Philos Trans R Soc Lond B Biol Sci; 2013 Dec 19; 368(1632):20130029. PubMed ID: 24218641
    [Abstract] [Full Text] [Related]

  • 20. EXTREME: an online EM algorithm for motif discovery.
    Quang D, Xie X.
    Bioinformatics; 2014 Jun 15; 30(12):1667-73. PubMed ID: 24532725
    [Abstract] [Full Text] [Related]

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