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| Status |
Public on Mar 27, 2024 |
| Title |
Study of the eIFG1-eIF1 interaction by TCP-seq on translation initiation in HEK 293T cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Other
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| Summary |
Start codon recognition by the 48S complex is a critical step in translation. However, understanding the in vivo initiation and its regulation at a global scale is limited. Here, we analyzed translation complex profiling (TCP-seq) data to determine the impact of eIF4G1-eIF1 inhibition and the 48S organization. Our analysis provides the first global view of leaky scanning and reveal the central roles of mRNA features and eIF4G1-eIF1 in its regulation. Specifically, non-leaky genes are enriched with a Kozak bearing a C at -1 position while those with short 5’ UTR with TISU. Additionally, the stability of the 48S complex and its integrity during scanning are impaired upon eIF4G1-eIF1 inhibition. Detailed analysis of initiation site footprints revealed three main classes conserved from yeast to human. Our analysis provides a general overview of AUG selection and evidence for conformational rearrangements in vivo.
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| Overall design |
Comparative initiation profiling analysis of TCP-seq and RNA-seq data for HEK 293T cells treated with DMSO or with i14G1-12 (3 replicates per conditions)
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| Contributor(s) |
Weiss B, Dikstein R |
| Citation missing |
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| Submission date |
Feb 26, 2023 |
| Last update date |
Mar 27, 2024 |
| Contact name |
Benjamin Weiss |
| Organization name |
Weizmann Institute of Science
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| Street address |
234 Herzl Street
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| City |
Rehovot |
| ZIP/Postal code |
761001 |
| Country |
Israel |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (12)
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| GSM7065371 |
HEK 293T cells, TCP seq, i14G1-12 rep 1 |
| GSM7065372 |
HEK 293T cells, TCP seq, i14G1-12 rep 2 |
| GSM7065373 |
HEK 293T cells, TCP seq, i14G1-12 rep 3 |
| GSM7065374 |
HEK 293T cells, RNA-seq, DMSO rep 1 |
| GSM7065375 |
HEK 293T cells, RNA-seq, DMSO rep 2 |
| GSM7065376 |
HEK 293T cells, RNA-seq, DMSO rep 3 |
| GSM7065377 |
HEK 293T cells, RNA-seq, i14G1-12 rep 1 |
| GSM7065378 |
HEK 293T cells, RNA-seq, i14G1-12 rep 2 |
| GSM7065379 |
HEK 293T cells, RNA-seq, i14G1-12 rep 3 |
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| Relations |
| BioProject |
PRJNA938913 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE226132_Counts.txt.gz |
310.9 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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