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| Status |
Public on Apr 13, 2022 |
| Title |
WB |
| Sample type |
SRA |
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| Source name |
pectoralis muscle
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| Organism |
Gallus gallus |
| Characteristics |
tissue: pectoralis muscle
disease state: wooden breast birds
genotype: commercial breeds
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| Extracted molecule |
total RNA |
| Extraction protocol |
Samples were dissociated with enzymatic digestion with collagenase I for 30 minutes at a concentration of 0.15 g per 100 mL. Then single-cell suspension were obtained by passing the dissociated cell suspensions through a 40 μm cell strainer. All isolated cells were applied to magnetic bead separation method to remove dead cells. Then trypan blue (Thermo Fisher Scientific, waltham, MA, USA) and Automated Cell Counter (TC 20TM, BIO-RED Inc., CA, USA) were used to evaluate the viability of filtrated single cells. Noteworthy, the lipid cells were excluded. Following counting, the appropriate volume was calculated for a target capture of 8000 cells.
RNA libraries were prepared with Chromium Single cell 3'Reagent v3 Kits according to the manufacturer's protocol.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v3.1.0 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
Assembly: Gallus-gallus-6.0
Supplementary files format and content: Matrix table with raw gene counts for every gene and every cell
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| Submission date |
Apr 08, 2022 |
| Last update date |
Apr 13, 2022 |
| Contact name |
Kelang Kang |
| E-mail(s) |
kangkelang@126.com
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| Organization name |
Hunan Agriculture University
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| Street address |
No.1 Nongda Road, Furong District, Changsha, China
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| City |
Changsha |
| State/province |
Hunan |
| ZIP/Postal code |
410125 |
| Country |
China |
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| Platform ID |
GPL26853 |
| Series (1) |
| GSE200516 |
Single-cell analysis reveals gene expression profiles and cell types in wooden breast myopathy |
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| Relations |
| BioSample |
SAMN27482453 |
| SRA |
SRX14790887 |
| 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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