TABLE 2.
Data sets
| Name | Authors | Description | GEO accession number | Year |
|---|---|---|---|---|
| Promoter sequences direct cytoplasmic localization and translation of mRNAs during starvation in yeast. | Zid BM, O'Shea EK | Ribosome profiling of glucose-starved yeast | GSE56622 | 2014 |
| Genome-wide analysis of translational efficiency reveals distinct but overlapping functions of yeast DEAD-box RNA helicases Ded1 and eIF4A. | Sen ND, Zhou F, Ingolia NT, Hinnebusch AG | Ribosome profiling of Ded1-depleted yeast | GSE66411 | 2015 |
| Improved ribosome-footprint and mRNA measurements provide insights into dynamics and regulation of yeast translation. | Weinberg DE, Shah P, Eichhorn SW, Hussmann JA, Plotkin JB, Bartel DP | Ribosome profiling of wild-type yeast | GSE75897 | 2016 |
| eIF4B stimulates translation of long mRNAs with structured 5′ UTRs and low closed-loop potential but weak dependence on eIF4G. | Sen ND, Zhou F, Harris M, Ingolia NT, Hinnebusch AG | Ribosome profiling of eIF4B-depleted yeast | GSE81966 | 2016 |
| Translation initiation factor eIF4G1 preferentially binds yeast transcript leaders containing conserved oligo-uridine motifs. | Zinshteyn B, Rojas-Duran MF, Gilbert WV | Ribosome profiling of eIF4G-depleted yeast | GSE87614 | 2017 |
| Cycloheximide can distort measurements of mRNA levels and translation efficiency. | Santos DA, Shi L, Tu BP, Weissman JS | Ribosome profiling of amino acid-starved yeast | GSE125038 | 2019 |
| eIF3 and Its mRNA-entry-channel arm contribute to the recruitment of mRNAs with long 5′-untranslated regions. | Stanciu A, Luo JC, Funes L, Hewage SG, Aitken CE | Ribosome profiling of eIF3 mutants | GSE190601 | 2022 |
| This study | eIF3 RBNS | GSE180046 | 2024 | |
| This study | DMS-seq | GSE264057 | 2024 |
