RT Journal Article SR Electronic T1 StateHub-StatePaintR: rapid and reproducible chromatin state evaluation for custom genome annotation JF bioRxiv FD Cold Spring Harbor Laboratory SP 127720 DO 10.1101/127720 A1 Simon G. Coetzee A1 Zachary Ramjan A1 Huy Q. Dinh A1 Benjamin P. Berman A1 Dennis J. Hazelett YR 2017 UL http://biorxiv.org/content/early/2017/05/23/127720.abstract AB Genome annotation is critical to understand the function of disease variants, especially for clinical applications. To meet this need there are segmentations available from public consortia reflecting varying unsupervised approaches to functional annotation based on epigenetics data, but there remains a need for transparent, reproducible, and easily interpreted genomic maps of the functional biology of chromatin. We introduce here methods for defining chromatin state with a combinatorial epigenomic model using an annotation tool, StatePaintR and a website database, StateHub. Annotations are fully documented with change history and versioning, authorship information, and original source files. The tool calculates quantitative state scores based on genome-wide ranking, allowing prioritization and enrichment testing, facilitating quantitative analysis. StateHub hosts annotation tracks for major public consortia as a resource, and allows users to submit their own alternative models.