Identifying cooperative transcription factors by combining ChIP-chip data and knockout data

被引:20
|
作者
Yang, Yi [1 ]
Zhang, Zili [2 ]
Li, Yixue [1 ]
Zhu, Xin-Guang [3 ]
Liu, Qi [1 ]
机构
[1] Shanghai Jiao Tong Univ, Sch Life Sci & Biotechnol, Shanghai 200240, Peoples R China
[2] Southwest Univ, Fac Comp & Informat Sci, Chongqing 400715, Peoples R China
[3] Chinese Acad Sci, Shanghai Inst Biol Sci, CAS MPG Partner Inst Computat Biol, Shanghai 200031, Peoples R China
关键词
SACCHAROMYCES-CEREVISIAE; YEAST; COMPLEX; GENOME;
D O I
10.1038/cr.2010.146
中图分类号
Q2 [细胞生物学];
学科分类号
071009 ; 090102 ;
摘要
引用
收藏
页码:1276 / 1278
页数:3
相关论文
共 50 条
  • [41] Application of gene set enrichment method to ChIP-chip data analysis
    Chen, Yidong
    Yang, Fan
    Meltzer, Paul S.
    [J]. 2008 IEEE INTERNATIONAL WORKSHOP ON GENOMIC SIGNAL PROCESSING AND STATISTICS, 2008, : 99 - 101
  • [42] Multiple testing methods for ChIP-chip high density oligonucleotide array data
    Keles, S. nd z
    Van der Laan, Mark J.
    Dudoit, Sandrine
    Cawley, Simon E.
    [J]. JOURNAL OF COMPUTATIONAL BIOLOGY, 2006, 13 (03) : 579 - 613
  • [43] Biological evaluation of biclustering algorithms using Gene Ontology and chIP-chip data
    Tchagang, Alain B.
    Tewfik, Ahmed H.
    Benos, Panayiotis V.
    [J]. 2008 IEEE INTERNATIONAL CONFERENCE ON ACOUSTICS, SPEECH AND SIGNAL PROCESSING, VOLS 1-12, 2008, : 637 - +
  • [44] De novo identification of in vivo binding sites from ChIP-chip data
    Jin, Victor
    Rabinovich, Alina
    O'Geen, Henny
    Iyengar, Sushma
    Farnham, Peggy
    [J]. BMC BIOINFORMATICS, 2008, 9 (Suppl 7)
  • [45] De novo identification of in vivo binding sites from ChIP-chip data
    Victor Jin
    Alina Rabinovich
    Henny O'Geen
    Sushma Iyengar
    Peggy Farnham
    [J]. BMC Bioinformatics, 9
  • [46] Chromatin immunoprecipitation (ChIP) of plant transcription factors followed by sequencing (ChIP-SEQ) or hybridization to whole genome arrays (ChIP-CHIP)
    Kerstin Kaufmann
    Jose M Muiño
    Magne Østerås
    Laurent Farinelli
    Pawel Krajewski
    Gerco C Angenent
    [J]. Nature Protocols, 2010, 5 : 457 - 472
  • [47] Chromatin immunoprecipitation (ChIP) of plant transcription factors followed by sequencing (ChIP-SEQ) or hybridization to whole genome arrays (ChIP-CHIP)
    Kaufmann, Kerstin
    Muino, Jose M.
    Osteras, Magne
    Farinelli, Laurent
    Krajewski, Pawel
    Angenent, Gerco C.
    [J]. NATURE PROTOCOLS, 2010, 5 (03) : 457 - 472
  • [48] Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data
    Choi, Hyungwon
    Nesvizhskii, Alexey I.
    Ghosh, Debashis
    Qin, Zhaohui S.
    [J]. BIOINFORMATICS, 2009, 25 (14) : 1715 - 1721
  • [49] CARPET: a web-based package for the analysis of ChIP-chip and expression tiling data
    Cesaroni, Matteo
    Cittaro, Davide
    Brozzi, Alessandro
    Pelicci, Pier Giuseppe
    Luzi, Lucilla
    [J]. BIOINFORMATICS, 2008, 24 (24) : 2918 - 2920
  • [50] Inferring Transcriptional Interactions by the Optimal Integration of ChIP-chip and Knock-out Data
    Cheng, Haoyu
    Jiang, Lihua
    Wu, Maoying
    Liu, Qi
    [J]. BIOINFORMATICS AND BIOLOGY INSIGHTS, 2009, 3 : 129 - 140