Transcriptomics

Dataset Information

297

Integrative analysis of RNA, translation and protein levels reveals distinct regulatory variation across humans


ABSTRACT: Elucidating the extent and consequences of genetic differences between humans is essential for understanding phenotypic diversity and personalized medicine. Although variation in RNA levels, transcription factor binding and chromatin have been explored, little is known about global variation in translation and its genetic determinants among humans. We used ribosome profiling, RNA sequencing, and mass spectrometry to perform an integrated analysis in lymphoblastoid cell lines from a diverse group of individuals. We find significant differences in RNA levels, translation, and protein abundance suggesting diverse mechanisms of personalized gene expression control. Combined analysis of RNA expression and ribosome occupancy improves the identification of individual protein level differences. Finally, we identify genetic differences that specifically modulate ribosome occupancy - many of these differences lie close to start codons and upstream ORFs. Our results reveal a new level of gene expression variation among humans and indicate that genetic variants can cause changes in protein levels through effects on translation. Ribosome profiling and RNA sequencing experiments from human lymphoblastoid cells

ORGANISM(S): Homo sapiens  

SUBMITTER: Carlos L Araya   Fabian Grubert  Michael P Snyder  Bilal Alsallakh  Hua Tang  Hagen Tilgner  Emiliano Ricci  Elif Sarinay Cenik  Sophie I Candille  Damek Spacek  Gun W Byeon  Can Cenik  Jason A Reuter 

PROVIDER: E-GEOD-65912 | ArrayExpress | 2015-02-14

SECONDARY ACCESSION(S): SRP055009GSE65912PRJNA275386

REPOSITORIES: GEO, ArrayExpress, ENA

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