Journal
NUCLEIC ACIDS RESEARCH
Volume 44, Issue D1, Pages D1148-D1153Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkv962
Keywords
-
Categories
Funding
- National Science Foundation [MCB-1412948]
- Div Of Molecular and Cellular Bioscience
- Direct For Biological Sciences [1412948] Funding Source: National Science Foundation
Ask authors/readers for more resources
Gene expression is regulated by orchestrated binding of regulatory proteins to promoters and other cis-regulatory DNA elements (CREs). Several plant databases have been developed for mapping promoters or DNA motifs associated with promoters. However, there is a lack of databases that allow investigation for all CREs. Here we present PlantDHS (http://plantdhs.org), a plant DNase I hypersensitive site (DHS) database that integrates histone modification, RNA sequencing, nucleosome positioning/occupancy, transcription factor binding sites, and genomic sequence within an easily navigated user interface. DHSs are indicative of all CREs, including promoters, enhancers, silencers, insulators and transcription factor binding sites; all of which play immense roles in global gene expression regulation. PlantDHS provides a platform to predict all CREs associated with individual genes from three model plant species, including Arabidopsis thaliana, Brachypodium distachyon and rice (Oryza sativa). PlantDHS is especially valuable in the detection of distant CREs that are located away from promoters.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available