Stern-Ginossar et al. 2015 (PRJNA177721)
General Details
| Title | Decoding human cytomegalovirus using ribosome profiling |
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| Organism | |
| Number of Samples | 10 |
| Release Date | 2012/10/15 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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| Visit Trips-Viz |
Repository Details
| SRA | SRP016143 |
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| ENA | SRP016143 |
| GEO | |
| BioProject | PRJNA177721 |
Publication
| Title | |
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| 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) | ||
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| SRR592954 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Cycloheximide |  |
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| SRR592955 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Cycloheximide | |
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| SRR592956 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Cycloheximide | |
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| SRR592957 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Harringtonine | |
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| SRR592958 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Harringtonine | |
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| SRR592959 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Lactimidomycin | |
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| SRR592960 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Lactimidomycin | |
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| SRR592961 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Frozen | |
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| SRR592962 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Frozen | |
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| SRR609197 | PRJNA177721 | Human betaherpesvirus 5 | HCMV-infected human foreskin fibroblasts | Ribo-Seq | Cycloheximide | |
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| 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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