Dataset Information
C-State: an interactive web app for simultaneous multi-gene visualization and comparative epigenetic pattern search.
Ontology highlight
ABSTRACT: Background
Comparative epigenomic analysis across multiple genes presents a bottleneck for bench biologists working with NGS data. Despite the development of standardized peak analysis algorithms, the identification of novel epigenetic patterns and their visualization across gene subsets remains a challenge.Results
We developed a fast and interactive web app, C-State (Chromatin-State), to query and plot chromatin landscapes across multiple loci and cell types. C-State has an interactive, JavaScript-based graphical user interface and runs locally in modern web browsers that are pre-installed on all computers, thus eliminating the need for cumbersome data transfer, pre-processing and prior programming knowledge.Conclusions
C-State is unique in its ability to extract and analyze multi-gene epigenetic information. It allows for powerful GUI-based pattern searching and visualization. We include a case study to demonstrate its potential for identifying user-defined epigenetic trends in context of gene expression profiles.
SUBMITTER: Sowpati DT
PROVIDER: S-EPMC5606219 | biostudies-literature | 2017 Sep
REPOSITORIES: biostudies-literature
Publications
C-State: an interactive web app for simultaneous multi-gene visualization and comparative epigenetic pattern search.
BMC bioinformatics 20170913 Suppl 10
<h4>Background</h4>Comparative epigenomic analysis across multiple genes presents a bottleneck for bench biologists working with NGS data. Despite the development of standardized peak analysis algorithms, the identification of novel epigenetic patterns and their visualization across gene subsets remains a challenge.<h4>Results</h4>We developed a fast and interactive web app, C-State (Chromatin-State), to query and plot chromatin landscapes across multiple loci and cell types. C-State has an inte ...[more]