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| Status |
Public on Mar 16, 2021 |
| Title |
oocyte sirt6-1 |
| Sample type |
SRA |
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| Source name |
porcine oocyte
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| Organism |
Sus scrofa |
| Characteristics |
tissue: oocyte
development stage: Metaphase II
group: sirt6 inhibited
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| Extracted molecule |
total RNA |
| Extraction protocol |
The cell was lysised and the RNA was amplificated according to Smart-seq2 procedures.
The mRNA library was constructed using NEBNext UltraTM RNA Library Prep Kit for Illumina (NEB, Ipswich, MA) according to the instruction manual, which includes sequential RNA fragmentation, reverse transcription using random primers, second strand cDNA synthesis, end repair, dA-tailing, adapter ligation, U excision, and PCR enrichment.
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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 RNA-seq reads passed filter were trimmed to remove low-quality bases and adaptor sequences. Reads then were aligned to the mm10 reference genome using tophat2 (v2.0.13)
Reads aligned to genes are counted by cufflinks (v2.2.1). The FPKMs are normalized using cuffnorm. Differentially expressed genes are calculated using cuffdiff.
Genome_build: susScr11
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
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| Submission date |
Nov 09, 2020 |
| Last update date |
Mar 16, 2021 |
| Contact name |
Li Yu |
| E-mail(s) |
2018105031@njau.edu.cn
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| Organization name |
College of Animal Science and Technology, Nanjing Agricultural University
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| Street address |
No. 1 Weigang, Nanjing City, Jiangsu Province
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| City |
Nanjing |
| ZIP/Postal code |
210000 |
| Country |
China |
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| Platform ID |
GPL22918 |
| Series (1) |
| GSE161068 |
SIRT6 maintains redox homeostasis to promote porcine oocyte maturation |
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| Relations |
| BioSample |
SAMN16708775 |
| SRA |
SRX9461174 |
| 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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