Jan et al. 2014 (PRJNA260073)
General Details
| Title | Principles of ER Co-Translational Translocation Revealed by Proximity-Specific Ribosome Profiling |
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| Organism | |
| Number of Samples | 48 |
| Release Date | 2014/09/02 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP046016 |
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| ENA | SRP046016 |
| GEO | GSE61012 |
| BioProject | PRJNA260073 |
Publication
| Title | |
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| Authors | Jan CH,Williams CC,Weissman JS |
| Journal | Science (New York, N.Y.) |
| Publication Date | 2014 Nov 7 |
| Abstract | Localized protein synthesis is a fundamental mechanism for creating distinct subcellular environments. Here we developed a generalizable proximity-specific ribosome profiling strategy that enables global analysis of translation in defined subcellular locations. We applied this approach to the endoplasmic reticulum (ER) in yeast and mammals. We observed the large majority of secretory proteins to be cotranslationally translocated, including substrates capable of posttranslational insertion in vitro. Distinct translocon complexes engaged nascent chains at different points during synthesis. Whereas most proteins engaged the ER immediately after or even before signal sequence (SS) emergence, a class of Sec66-dependent proteins entered with a looped SS conformation. Finally, we observed rapid ribosome exchange into the cytosol after translation termination. These data provide insights into how distinct translocation mechanisms act in concert to promote efficient cotranslational recruitment. Copyright © 2014, American Association for the Advancement of Science. |
| PMC | PMC4285348 |
| PMID | 25378630 |
| 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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| SRR1562883 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide |  |
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| SRR1562884 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562885 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562886 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562887 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562888 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562889 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562890 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562891 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562892 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562893 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562894 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562895 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562896 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562897 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562898 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562899 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562900 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562901 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562902 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562903 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562904 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562905 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562906 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562907 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562908 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562909 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562910 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562911 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562912 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562913 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562914 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562915 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562916 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562917 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562918 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562919 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562920 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562921 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562922 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562923 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562924 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562925 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562926 | PRJNA260073 | Saccharomyces cerevisiae | RNA-Seq | Cycloheximide | |
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| SRR1562927 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562928 | PRJNA260073 | Saccharomyces cerevisiae | Cycloheximide | |
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| SRR1562929 | PRJNA260073 | Homo sapiens | RNA-Seq | Cycloheximide | |
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| SRR1562930 | PRJNA260073 | Homo sapiens | 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) |
ⓘ For more Information on the columns shown here see: About