Maps of context-dependent putative regulatory regions and genomic signal interactions
نویسندگان
چکیده
منابع مشابه
Maps of context-dependent putative regulatory regions and genomic signal interactions
Gene transcription is regulated mainly by transcription factors (TFs). ENCODE and Roadmap Epigenomics provide global binding profiles of TFs, which can be used to identify regulatory regions. To this end we implemented a method to systematically construct cell-type and species-specific maps of regulatory regions and TF-TF interactions. We illustrated the approach by developing maps for five hum...
متن کاملAnnotatr: Genomic Regions in Context
Motivation Analysis of next-generation sequencing data often results in a list of genomic regions. These may include differentially methylated CpGs/regions, transcription factor binding sites, interacting chromatin regions, or GWAS-associated SNPs, among others. A common analysis step is to annotate such genomic regions to genomic annotations (promoters, exons, enhancers, etc.). Existing tools ...
متن کاملInferring Regulatory Signal from Genomic Data
2008 i ACKNOWLEDGEMENTS I am greatly indebted to Dr. Sung Wing-Kin for being my supervisor in this project. He has been unyielding in providing me with guidance and inspiration. Our many invaluable discussions helped me significantly to navigate through the research process. I extend my utmost gratitude for his constant encouragement and support. Karuturi Radha Krishna Murthy for the many great...
متن کاملMining Putative Regulatory Elements in Gene Promoter Regions
This study attempts to discover putative binding site on how combinations of the known regulatory sites and over-represented repetitive elements are distributed in the promoter regions of groups of functionally related genes. The association rules mined would facilitate to predict putative regulatory elements and identify genes potentially co-regulated by the putative regulatory elements. The o...
متن کاملInvestigating extended regulatory regions of genomic DNA sequences
MOTIVATION Despite the growing volume of data on primary nucleotide sequences, the regulatory regions remain a major puzzle with regard to their function. Numerous recognising programs considering a diversity of properties of regulatory regions have been developed. The system proposed here allows the specific contextual, conformational and physico-chemical properties to be revealed based on ana...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2016
ISSN: 0305-1048,1362-4962
DOI: 10.1093/nar/gkw800