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Strand NGS supports a workflow for the analysis and visualization of ChIP-Seq data. The workflow provides the ability to identify transcription factor binding sites and histone modification sites using the PICS and MACS peak detection algorithms. It supports the ability to detect motifs in the peak regions using GADEM, and scan for known motifs in the genome or region of interest. Further downstream analysis such as GO, pathway analysis, etc can be performed on the set of affected genes.
Discover the most significant motifs present in the vicinity of the binding regions using an efficient implementation of the GADEM algorithm. Motifs in JASPAR format can be imported and occurrences of the motifs can be detected by scanning the whole genome.
Configurable pipelines for compute-intensive tasks using the Pipeline Manager. Allows interaction with the user interface even as pipeline executes in the background.
Use the packaged database of 2 million interactions (with supporting PubMed references) to find relationships between genes. Learn more