Stern-Ginossar et al. 2015 (PRJNA177721)

General Details

Title Decoding human cytomegalovirus using ribosome profiling
Organism
Number of Samples 10
Release Date 2012/10/15 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP016143
ENA SRP016143
GEO GSE41605
BioProject PRJNA177721

Publication

Title
Authors Stern-Ginossar N, Weisburd B, Michalski A, Le VT, Hein MY, Huang SX, Ma M, Shen B, Qian SB, Hengel H, Mann M, Ingolia NT, Weissman JS
Journal Science (New York, N.Y.)
Publication Date 2012 Nov 23
Abstract The human cytomegalovirus (HCMV) genome was sequenced 20 years ago. However, like those of other complex viruses, our understanding of its protein coding potential is far from complete. We used ribosome profiling and transcript analysis to experimentally define the HCMV translation products and follow their temporal expression. We identified hundreds of previously unidentified open reading frames and confirmed a fraction by means of mass spectrometry. We found that regulated use of alternative transcript start sites plays a broad role in enabling tight temporal control of HCMV protein expression and allowing multiple distinct polypeptides to be generated from a single genomic locus. Our results reveal an unanticipated complexity to the HCMV coding capacity and illustrate the role of regulated changes in transcript start sites in generating this complexity.
PMC PMC3817102
PMID 23180859
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR592954 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Cycloheximide
SRR592955 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Cycloheximide
SRR592956 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Cycloheximide
SRR592957 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Harringtonine
SRR592958 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Harringtonine
SRR592959 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Lactimidomycin
SRR592960 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Lactimidomycin
SRR592961 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Frozen
SRR592962 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Frozen
SRR609197 PRJNA177721 Human betaherpesvirus 5 Fibroblast Ribo-Seq Cycloheximide
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)

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