BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

224 related articles for article (PubMed ID: 27625391)

  • 1. ChIA-PET2: a versatile and flexible pipeline for ChIA-PET data analysis.
    Li G; Chen Y; Snyder MP; Zhang MQ
    Nucleic Acids Res; 2017 Jan; 45(1):e4. PubMed ID: 27625391
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Mango: a bias-correcting ChIA-PET analysis pipeline.
    Phanstiel DH; Boyle AP; Heidari N; Snyder MP
    Bioinformatics; 2015 Oct; 31(19):3092-8. PubMed ID: 26034063
    [TBL] [Abstract][Full Text] [Related]  

  • 3. ChIAPoP: a new tool for ChIA-PET data analysis.
    Huang W; Medvedovic M; Zhang J; Niu L
    Nucleic Acids Res; 2019 Apr; 47(7):e37. PubMed ID: 30753588
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Chromatin Interaction Analysis with Updated ChIA-PET Tool (V3).
    Li G; Sun T; Chang H; Cai L; Hong P; Zhou Q
    Genes (Basel); 2019 Jul; 10(7):. PubMed ID: 31336684
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Long-read ChIA-PET for base-pair-resolution mapping of haplotype-specific chromatin interactions.
    Li X; Luo OJ; Wang P; Zheng M; Wang D; Piecuch E; Zhu JJ; Tian SZ; Tang Z; Li G; Ruan Y
    Nat Protoc; 2017 May; 12(5):899-915. PubMed ID: 28358394
    [TBL] [Abstract][Full Text] [Related]  

  • 6. ChIA-PIPE: A fully automated pipeline for comprehensive ChIA-PET data analysis and visualization.
    Lee B; Wang J; Cai L; Kim M; Namburi S; Tjong H; Feng Y; Wang P; Tang Z; Abbas A; Wei CL; Ruan Y; Li S
    Sci Adv; 2020 Jul; 6(28):eaay2078. PubMed ID: 32832596
    [TBL] [Abstract][Full Text] [Related]  

  • 7. ChIAMM: A Mixture Model for Statistical Analysis of Long-Range Chromatin Interactions From ChIA-PET Experiments.
    Arega Y; Jiang H; Wang S; Zhang J; Niu X; Li G
    Front Genet; 2020; 11():616160. PubMed ID: 33381154
    [TBL] [Abstract][Full Text] [Related]  

  • 8. ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing.
    Li G; Fullwood MJ; Xu H; Mulawadi FH; Velkov S; Vega V; Ariyaratne PN; Mohamed YB; Ooi HS; Tennakoon C; Wei CL; Ruan Y; Sung WK
    Genome Biol; 2010; 11(2):R22. PubMed ID: 20181287
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Methods for comparative ChIA-PET and Hi-C data analysis.
    Capurso D; Tang Z; Ruan Y
    Methods; 2020 Jan; 170():69-74. PubMed ID: 31629084
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Chromatin Immunoprecipitation for Chromatin Interaction Analysis Using Paired-End-Tag (ChIA-PET) Sequencing in Tadpole Tissues.
    Buisine N; Ruan X; Ruan Y; Sachs LM
    Cold Spring Harb Protoc; 2018 Aug; 2018(8):. PubMed ID: 29895563
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Free energy-based model of CTCF-mediated chromatin looping in the human genome.
    Dawson WK; Lazniewski M; Plewczynski D
    Methods; 2020 Oct; 181-182():35-51. PubMed ID: 32645447
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Chromatin Interaction Analysis with Paired-End Tag (ChIA-PET) sequencing technology and application.
    Li G; Cai L; Chang H; Hong P; Zhou Q; Kulakova EV; Kolchanov NA; Ruan Y
    BMC Genomics; 2014; 15 Suppl 12(Suppl 12):S11. PubMed ID: 25563301
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Deciphering Noncoding RNA and Chromatin Interactions: Multiplex Chromatin Interaction Analysis by Paired-End Tag Sequencing (mChIA-PET).
    Choy J; Fullwood MJ
    Methods Mol Biol; 2017; 1468():63-89. PubMed ID: 27662871
    [TBL] [Abstract][Full Text] [Related]  

  • 14. DeepChIA-PET: Accurately predicting ChIA-PET from Hi-C and ChIP-seq with deep dilated networks.
    Liu T; Wang Z
    PLoS Comput Biol; 2023 Jul; 19(7):e1011307. PubMed ID: 37440599
    [TBL] [Abstract][Full Text] [Related]  

  • 15. cLoops2: a full-stack comprehensive analytical tool for chromatin interactions.
    Cao Y; Liu S; Ren G; Tang Q; Zhao K
    Nucleic Acids Res; 2022 Jan; 50(1):57-71. PubMed ID: 34928392
    [TBL] [Abstract][Full Text] [Related]  

  • 16. MICC: an R package for identifying chromatin interactions from ChIA-PET data.
    He C; Zhang MQ; Wang X
    Bioinformatics; 2015 Dec; 31(23):3832-4. PubMed ID: 26231426
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Chromatin loop anchors predict transcript and exon usage.
    Zhang Y; Cai Y; Roca X; Kwoh CK; Fullwood MJ
    Brief Bioinform; 2021 Nov; 22(6):. PubMed ID: 34263910
    [TBL] [Abstract][Full Text] [Related]  

  • 18. The Allele Catalog Tool: a web-based interactive tool for allele discovery and analysis.
    Chan YO; Dietz N; Zeng S; Wang J; Flint-Garcia S; Salazar-Vidal MN; Škrabišová M; Bilyeu K; Joshi T
    BMC Genomics; 2023 Mar; 24(1):107. PubMed ID: 36899307
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Chromatin Interaction Analysis with Paired-End Tag Sequencing (ChIA-PET) for mapping chromatin interactions and understanding transcription regulation.
    Goh Y; Fullwood MJ; Poh HM; Peh SQ; Ong CT; Zhang J; Ruan X; Ruan Y
    J Vis Exp; 2012 Apr; (62):. PubMed ID: 22564980
    [TBL] [Abstract][Full Text] [Related]  

  • 20. High resolution discovery of chromatin interactions.
    Guo Y; Krismer K; Closser M; Wichterle H; Gifford DK
    Nucleic Acids Res; 2019 Apr; 47(6):e35. PubMed ID: 30953075
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 12.