ChIPseek protocols

ChIPseek specifications

Information


Unique identifier OMICS_04869
Name ChIPseek
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Petrus Tang <>

Publication for ChIPseek

ChIPseek IN pipelines

 (2)
2017
PMCID: 5440673
PMID: 28504269
DOI: 10.1038/ncomms15321

[…] chip-seq peaks were identified and analysed using homer51 (-f: 2.0, -l: 2.0 and -c: 1.0) with false discovery rate<0.01., the assignment of yap peaks to target genes was obtained by the web tool chipseek52. through this step, it was possible to assign peaks to transcription start site (by default defined from −1 kb to +100 bp), transcription termination site (by default defined from −100 bp […]

2016
PMCID: 5021938
PMID: 27623747
DOI: 10.1038/srep32611

[…] utilized a model-based analysis of chip-seq (macs) algorithm3233. the overlap analysis, plot of genomic location, sequence extraction, motif identification, and peak filtering were performed using chipseek: a web-based analysis for chip data34. chipseek also employs scripts from bedtools35 using a genome binning algorithm used by the ucsc genome browser to sort genomic regions into groups […]

ChIPseek institution(s)
Molecular Medicine Research Center, Chang Gung University, Taoyuan, Taiwan; Bioinformatics Center, Chang Gung University, Taoyuan, Taiwan; Graduate Institute of Biomedical Sciences, Chang Gung University, Taoyuan, Taiwan; Department of Microbiology and Immunology, Medical School of Chang Gung University, Taoyuan, Taiwan; Department of Biological Science and Technology, National Chiao Tung University, HsinChu, Taiwan; Institute of Biomedical Informatics, National Yang-Ming University, Taipei, Taiwan
ChIPseek funding source(s)
Supported by grants from the Chang Gung Memorial Hospital (CMRPD160141-3 and CMRPD1A0352) the Ministry of Education, Taiwan and the Ministry of Science and Technology, Taiwan (NSC102-2319-B-400-001).

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