annoPeak: a web application to annotate and visualize peaks from ChIP-seq/ChIP-exo-seq. Bioinformatics 2017 May 15;33(10):1570-1571
Date
02/09/2017Pubmed ID
28169395Pubmed Central ID
PMC5860050DOI
10.1093/bioinformatics/btx016Scopus ID
2-s2.0-85020271799 (requires institutional sign-in at Scopus site) 5 CitationsAbstract
SUMMARY: We developed annoPeak, a web application to annotate, visualize and compare predicted protein-binding regions derived from ChIP-seq/ChIP-exo-seq experiments using human and mouse cells. Users can upload peak regions from multiple experiments onto the annoPeak server to annotate them with biological context, identify associated target genes and categorize binding sites with respect to gene structure. Users can also compare multiple binding profiles intuitively with the help of visualization tools and tables provided by annoPeak. In general, annoPeak will help users identify patterns of genome wide transcription factor binding profiles, assess binding profiles in different biological contexts and generate new hypotheses.
AVAILABILITY AND IMPLEMENTATION: The web service is freely accessible through URL: http://ccc-annopeak.osumc.edu/annoPeak . Source code is available at https://github.com/XingTang2014/annoPeak .
CONTACT: gustavo.leone@osumc.edu or kun.huang@osumc.edu.
SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Author List
Tang X, Srivastava A, Liu H, Machiraju R, Huang K, Leone GAuthor
Gustavo Leone PhD Sr Associate Dean, Director, Professor in the Pathology department at Medical College of WisconsinMESH terms used to index this publication - Major topics in bold
AnimalsBinding Sites
Chromatin Immunoprecipitation
DNA
High-Throughput Nucleotide Sequencing
Humans
Mice
Promoter Regions, Genetic
Protein Binding
Sequence Analysis, DNA
Software
Transcription Factors
