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| Status |
Public on Jun 30, 2023 |
| Title |
Mcm5_mut_rep3 |
| Sample type |
SRA |
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| Source name |
whole fish
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| Organism |
Danio rerio |
| Characteristics |
tissue: whole fish
genotype: mcm5 mutants
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA of wild type or mcm5 mutated zebrafish at 3.5dpf was extracted, and mRNA was enriched by olig(T) beads.
Add Fragmentation Buffer to randomly break mRNA into short fragments. Reverse transcription synthesis of cDNA using short fragments as templates, and then perfom end repair and A-tail addition for all cDNA. Following add UMI tags and sequencing adapters onto the cDNAs. Finally, PCR amplification was performed to obtain the library.. All the DNA libraries were sequenced by HiSeq X Ten. And the clean data were generated from the raw data by removing the adapters.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
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| Data processing |
All the clean data were aligned to the zebrafish genome by hisat2 software.
Supplementary files format and content: Raw_count.txt
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| Submission date |
Jun 29, 2023 |
| Last update date |
Jun 30, 2023 |
| Contact name |
Yong Dong |
| E-mail(s) |
dongyong@cmc.edu.cn
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| Organization name |
Chengdu medical college
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| Department |
Immunology
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| Street address |
Xindu road 783, Xindu district
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| City |
chengdu |
| State/province |
sichuan |
| ZIP/Postal code |
610500 |
| Country |
China |
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| Platform ID |
GPL23085 |
| Series (1) |
| GSE236184 |
Silencing of the Stat1-bcl2 axis accelerates efficient apoptosis of immature T lymphocytes with DNA damage in zebrafish mcm5 mutants |
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| Relations |
| BioSample |
SAMN36083228 |
| SRA |
SRX20830395 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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