University of Massachusetts Medical School Faculty Publications
UMMS Affiliation
RNA Therapeutics Institute
Publication Date
2015-04-26
Document Type
Article Preprint
Disciplines
Computational Biology | Genetic Phenomena | Genomics | Investigative Techniques
Abstract
Elucidating the 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. 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, translation, and protein levels 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.
Keywords
genomics, RNA, personalized medicine, lymphoblastoid cell lines, personalized gene expression control, ribosome occupancy
Rights and Permissions
The copyright holder for this preprint (which was not peer-reviewed) is the author/funder. It is made available under a CC-BY-NC-ND 4.0 International license.
DOI of Published Version
10.1101/018572
Source
bioRxiv 018572; doi: https://doi.org/10.1101/018572. Link to preprint on bioRxiv service.
Related Resources
Now published in Genome Research doi: 10.1101/gr.193342.115.
Journal/Book/Conference Title
bioRxiv
Repository Citation
Cenik, Can; Cenik, Elif Sarinay; Byeon, Gun W.; Grubert, Fabian; Candille, Sophie I.; Spacek, Damek; Alsallakh, Bilal; Tilgner, Hagen; Araya, Carlos L.; Tang, Hua; Ricci, Emiliano P.; and Snyder, Michael P., "Integrative analysis of RNA, translation and protein levels reveals distinct regulatory variation across humans" (2015). University of Massachusetts Medical School Faculty Publications. 1570.
https://escholarship.umassmed.edu/faculty_pubs/1570
Creative Commons License
This work is licensed under a Creative Commons Attribution-Noncommercial-No Derivative Works 4.0 License.
Included in
Computational Biology Commons, Genetic Phenomena Commons, Genomics Commons, Investigative Techniques Commons