Genomic and chromatin signals underlying transcription start-site selection

TY - JOUR

T1 - Genomic and chromatin signals underlying transcription start-site selection

AU - Valen, Eivind

AU - Sandelin, Albin Gustav

N1 - Copyright © 2011 Elsevier Ltd. All rights reserved.

PY - 2011/11

Y1 - 2011/11

N2 - A central question in cellular biology is how the cell regulates transcription and discerns when and where to initiate it. Locating transcription start sites (TSSs), the signals that specify them, and ultimately elucidating the mechanisms of regulated initiation has therefore been a recurrent theme. In recent years substantial progress has been made towards this goal, spurred by the possibility of applying genome-wide, sequencing-based analysis. We now have a large collection of high-resolution datasets identifying locations of TSSs, protein-DNA interactions, and chromatin features over whole genomes; the field is now faced with the daunting challenge of translating these descriptive maps into quantitative and predictive models describing the underlying biology. We review here the genomic and chromatin features that underlie TSS selection and usage, focusing on the differences between the major classes of core promoters.

AB - A central question in cellular biology is how the cell regulates transcription and discerns when and where to initiate it. Locating transcription start sites (TSSs), the signals that specify them, and ultimately elucidating the mechanisms of regulated initiation has therefore been a recurrent theme. In recent years substantial progress has been made towards this goal, spurred by the possibility of applying genome-wide, sequencing-based analysis. We now have a large collection of high-resolution datasets identifying locations of TSSs, protein-DNA interactions, and chromatin features over whole genomes; the field is now faced with the daunting challenge of translating these descriptive maps into quantitative and predictive models describing the underlying biology. We review here the genomic and chromatin features that underlie TSS selection and usage, focusing on the differences between the major classes of core promoters.

U2 - 10.1016/j.tig.2011.08.001

DO - 10.1016/j.tig.2011.08.001

M3 - Journal article

C2 - 21924514

SN - 0168-9525

VL - 27

SP - 475

EP - 485

JO - Trends in Genetics

JF - Trends in Genetics

IS - 11

ER -