TY - JOUR T1 - C-State: An interactive web app for simultaneous multi-gene visualization and comparative epigenetic pattern search JF - bioRxiv DO - 10.1101/163634 SP - 163634 AU - Divya Tej Sowpati AU - Surabhi Srivastava AU - Jyotsna Dhawan AU - Rakesh K Mishra Y1 - 2017/01/01 UR - http://biorxiv.org/content/early/2017/07/14/163634.abstract N2 - 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.APIApplication programming interfaceBEDBrowser Extensible DataChIPChromatin immunoprecipitationESCembryonic stem cellFAQFrequently Asked QuestionsGUIGraphical User InterfaceIGVIntegrative Genomics ViewerMVVMModel-View-View ModelNGSNext Generation SequencingSVGScalable Vector GraphicsTSSTranscription start site ER -