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| Status |
Public on Nov 05, 2021 |
| Title |
FT_LCG_3 |
| Sample type |
SRA |
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| Source name |
skin
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| Organism |
Capra hircus |
| Characteristics |
phenotype: fine Liaoning cashmere
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| Extracted molecule |
total RNA |
| Extraction protocol |
To digest the RNA other than RPFs, cell or tissue lysate was treated with unspecific endoribonuclease RNase ǀ. Isolation of monosomes was performed by size-exclusion chromatography with MicroSpin S-400 HR columns. The RNA samples were then treated with rRNA depletion kit to deplete the samples of as much rRNA contamination as possible before PAGE purification of the relatively short (20~38 nt) RPFs. Following PAGE purification, the both ends of RPF were phosphorylated and ligated with 5’ and 3’ adapters respectively. Then the fragments were reversely transcribed to the cDNAs and amplified by PCR.
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| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Library strategy: Ribo-seq
Poly-N, adapter and low-quality were removed by in-house perl scripts ，Quality control analysis was performed by ng_qc.
Quantification of mapped results to gene level was carried out using HTSeq
Ribo-seq used TopHat2 for genome map
For samples with biological replicates, DESeq2 R package (1.14.1) was used for differential expression analysis
Genome_build: Capra hircus NCBI genome GCA_001704415.1
Supplementary_files_format_and_content: tab-delimited text files include readcount values for each Sample ...
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| Submission date |
Nov 01, 2021 |
| Last update date |
Nov 05, 2021 |
| Contact name |
yu zhang |
| E-mail(s) |
zhangyu0722123@126.com
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| Phone |
15241809413
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| Organization name |
Shenyang Agricultural University
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| Street address |
Dongling Street
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| City |
Shenyang |
| ZIP/Postal code |
110000 |
| Country |
China |
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| Platform ID |
GPL27106 |
| Series (1) |
| GSE186959 |
Selection of cashmere fineness functional genes by translatomics |
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| Relations |
| BioSample |
SAMN22822713 |
| SRA |
SRX12883816 |
| 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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