Welcome to Fly T-WEoN documentation!¶
The Fly Tool for Weighted Epigenomic Network (Fly T-WEoN) is a Cytoscape app that incorporates a filtering method to determine context-specific gene regulatory networks (GRNs). The method employs diverse data to filter out regulatory connections between genes. The tool uses histone modifications through Chromatin Inmunoprecipitation followed by DNA sequencing (ChIP-seq), gene expression through RNA-seq, and chromatin accesibility through DNase-seq data to perform analysis of a GRN. A serie of heuristic filters removes experimentally determined and computational inferred regulations (such as Transcription factors and regulatory RNAs) from a GRN considered as a Reference Network (e.g. a GRN with all known connections, regardless the developmental stage or cell type). The corresponding context-specific GRN considers weighted information, and the generated network can be further analyzed within the Cytoscape software.