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| Status |
Public on Nov 26, 2024 |
| Title |
Hel2-HTP in wt background at 20°C, replicate 2 |
| Sample type |
SRA |
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| Source name |
BY4741
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| Organism |
Saccharomyces cerevisiae |
| Characteristics |
cell line: BY4741
genotype: Hel2-HTP::URA3
treatment: 20°C, SD-Trp, OD600 about 0.5
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| Treatment protocol |
UV-crosslinking
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| Growth protocol |
grow in SD-Trp media at 20 or 30°C, as indicated, until an OD600 of about 0.5
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| Extracted molecule |
other |
| Extraction protocol |
bead-beating, as described in manuscript
CRAC, as described in manuscript
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| Library strategy |
OTHER |
| Library source |
other |
| Library selection |
other |
| Instrument model |
Illumina MiniSeq |
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| Data processing |
pyCRAC pipeline; additional analyses as described in manuscript
adapters were cut with: flexbar (-n 3 -ao 4 -qt 30 -u 3 -g)
reads were aligned with: novoalign-c 55 -s 1 -r Random -o Native -l 17
hittables were generated with:pyCRAC package: pyReadCounters.py --rpkm
Assembly: Saccharomyces cerevisiae (Ensembl releaseEF4.74)
Supplementary files format and content: .txt files containing hittables of raw (non-collapsed) data. Collapsing was avoided to allow for adquate representation of tRNA and rRNA, which is prone to over-collapsing
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| Submission date |
Aug 16, 2024 |
| Last update date |
Nov 26, 2024 |
| Contact name |
Marie-Luise Winz |
| E-mail(s) |
[email protected]
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| Organization name |
Johannes Gutenberg-University Mainz
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| Street address |
Staudingerweg 5
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| City |
Mainz |
| ZIP/Postal code |
55128 |
| Country |
Germany |
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| Platform ID |
GPL22715 |
| Series (1) |
| GSE275093 |
Yeast elongation factor homolog New1 protects a subset of mRNAs from degradation by no-go decay |
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| Relations |
| BioSample |
SAMN43229702 |
| SRA |
SRX25739077 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM8465561_Hel2-HTP-20-2_hittable_reads.txt.gz |
127.6 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
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