Transcriptomics

Dataset Information

5

A Unifying Model for Molecular Determinants of the Pre-selection Vβ Repertoire [ChIP-chip]


ABSTRACT: Chip-chip from pro-T(DN) cells from Rag1KO mice for H3K27ac, P300 and FAIRE The primary antigen receptor repertoire is sculpted by the process of V(D)J recombination, which must strike a balance between diversification and favoring gene segments with specialized functions. The precise determinants of how often gene segments are chosen to complete variable region coding exons remain elusive. We have quantified Vβ usage in the pre-selection Tcrb repertoire and report relative contributions of 14 distinct features in shaping their recombination efficiencies, including transcription, chromatin environment, spatial proximity to their DβJβ targets, and quality of recombinase recognition elements. Computational analyses provide a unifying model, revealing a minimal set of eight parameters that are predictive of Vβusage, dominated by chromatin modifications associated with transcription, but largely independent of the precise spatial proximity to DβJβclusters. Rag1KO DN epigenetic landscape at Tcrb

ORGANISM(S): Mus musculus  

SUBMITTER: Maxim Artyomov   Suhasni Gopalakrishnan  Eugene M Oltz  Alexander Predeus 

PROVIDER: E-GEOD-42851 | ArrayExpress | 2013-08-14

SECONDARY ACCESSION(S): GSE42851PRJNA183642

REPOSITORIES: GEO, ArrayExpress

Dataset's files

Source:
Action DRS
E-GEOD-42851.additional.1.zip Other
E-GEOD-42851.idf.txt Idf
E-GEOD-42851.processed.1.zip Processed
E-GEOD-42851.raw.1.zip Raw
E-GEOD-42851.raw.2.zip Raw
Items per page:
1 - 5 of 6

Similar Datasets

2014-01-03 | E-GEOD-53766 | ArrayExpress
2013-11-22 | E-GEOD-45614 | ArrayExpress
2013-11-13 | E-GEOD-52301 | ArrayExpress
2013-11-08 | E-GEOD-52190 | ArrayExpress
2013-11-13 | E-GEOD-52300 | ArrayExpress
2010-12-10 | E-GEOD-21495 | ArrayExpress
2007-08-23 | E-GEOD-8472 | ArrayExpress
2011-11-30 | E-GEOD-33998 | ArrayExpress
2012-03-29 | E-GEOD-28373 | ArrayExpress
2010-05-20 | E-GEOD-15145 | ArrayExpress