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Structural considerations for chromatin state models with transcription as a functional readout
Author(s) -
Chen Haodong,
Monte Emma,
Parvatiyar Michelle S.,
Rosa-Garrido Manuel,
Franklin Sarah,
Vondriska Thomas M.
Publication year - 2012
Publication title -
febs letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.593
H-Index - 257
eISSN - 1873-3468
pISSN - 0014-5793
DOI - 10.1016/j.febslet.2012.08.018
Subject(s) - chromatin , computational biology , biology , transcription (linguistics) , genetics , genome , dna microarray , gene , gene expression , linguistics , philosophy
Lacking from the rapidly evolving field of chromatin regulation is a discrete model of chromatin states. We propose that each state in such a model should meet two conditions: a structural component and a quantifiable effect on transcription. The practical benefits to the field of a model with greater than two states (including one with six states, as described herein) would be to improve interpretation of data from disparate organ systems, to reflect temporal and developmental dynamics and to integrate the, at present, conceptually and experimentally disparate analyses of individual genetic loci ( in vitro or using single gene approaches) and genome‐wide features (including ChlP‐seq, chromosomal capture and mRNA expression via microarrays/sequencing).