title: CistromeFinder for ChIP-seq and DNase-seq data reuse.
abstract: CONCLUSIONS
  Chromatin immunoprecipitation and DNase I hypersensitivity assays with high-throughput sequencing have greatly accelerated the understanding of transcriptional and epigenetic regulation, although data reuse for the community of experimental biologists has been challenging. We created a data portal CistromeFinder that can help query, evaluate and visualize publicly available Chromatin immunoprecipitation and DNase I hypersensitivity assays with high-throughput sequencing data in human and mouse. The database currently contains 6378 samples over 4391 datasets, 313 factors and 102 cell lines or cell populations. Each dataset has gone through a consistent analysis and quality control pipeline; therefore, users could evaluate the overall quality of each dataset before examining binding sites near their genes of interest. CistromeFinder is integrated with UCSC genome browser for visualization, Primer3Plus for ChIP-qPCR primer design and CistromeMap for submitting newly available datasets. It also allows users to leave comments to facilitate data evaluation and update.
  
  
  BACKGROUND
  http://cistrome.org/finder.
  
  
  BACKGROUND
  xsliu@jimmy.harvard.edu or henry_long@dfci.harvard.edu.
authors.affiliation: Department of Bioinformatics, School of Life Science and Technology, Tongji University, Shanghai 20092, China.
authors.forename: Hanfei
authors.initials: H
authors.lastname: Sun
authors.forename: Bo
authors.initials: B
authors.lastname: Qin
authors.forename: Tao
authors.initials: T
authors.lastname: Liu
authors.forename: Qixuan
authors.initials: Q
authors.lastname: Wang
authors.forename: Jing
authors.initials: J
authors.lastname: Liu
authors.forename: Juan
authors.initials: J
authors.lastname: Wang
authors.forename: Xueqiu
authors.initials: X
authors.lastname: Lin
authors.forename: Yulin
authors.initials: Y
authors.lastname: Yang
authors.forename: Len
authors.initials: L
authors.lastname: Taing
authors.forename: Prakash K
authors.initials: PK
authors.lastname: Rao
authors.forename: Myles
authors.initials: M
authors.lastname: Brown
authors.forename: Yong
authors.initials: Y
authors.lastname: Zhang
authors.forename: Henry W
authors.initials: HW
authors.lastname: Long
authors.forename: X Shirley
authors.initials: XS
authors.lastname: Liu
mesh_terms: D000818:Animals; D002460:Cell Line; D047369:Chromatin Immunoprecipitation; D030541:Databases, Genetic; D003850:Deoxyribonuclease I / Q000378:metabolism; D044127:Epigenesis, Genetic; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D016247:Information Storage and Retrieval; D051379:Mice; D020411:Oligonucleotide Array Sequence Analysis; D012984:Software
chemical_list: D003850:Deoxyribonuclease I