CisGenome Software

Abstract (Set) Chromatin immunoprecipitation followed by genome tiling array analysis (ChIP-chip) or by massively parallel sequencing (ChIP-seq) is an extremely powerful tool to understand gene regulatory programs in development and disease. CisGenome is a software system for analyzing genome-wide chromatin immunoprecipitation (ChIP) data. Developed by researchers at Johns Hopkins University and Stanford University, CisGenome software is designed to meet all basic needs of ChIP data analyses, including data visualization, data normalization, peak detection, false discovery rate (FDR) computation, gene-peak association, and sequence and motif analysis. CisGenome is a standalone system that bench biologists can use to analyze their own data locally on personal computers, and it has a modular design that allows computational biologists to build large batch jobs for customized analyses on computer servers. This allows researchers to decipher gene regulatory networks by synthesizing multiple sources of information including gene expression, protein-DNA interactions, genome sequences, transcription factor binding motifs and existing knowledge on signaling and metabolic pathways. Description (Set) Available for download at: Proposed Use (Set) ChIP-chip and ChIP-seq Analysis, Genome Information Retrieval

Inventor(s): Ji, Hongkai

Type of Offer: Licensing

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