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| Status |
Public on Jul 20, 2018 |
| Title |
P42 single cell RNA-seq |
| Sample type |
SRA |
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| Source name |
Articular cartilage cells
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| Organism |
Homo sapiens |
| Characteristics |
tissue: Articular cartilage
cell type: Chondrocyte
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
For RNA-seq data, we constructed the sequencing libraries using NEBNext Ultra DNA Library Prep Kit for Illumina (NEB #7370L).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
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| Data processing |
Illumina CASAVA version 1.8 were used to the basecalling.
Sequencing adapters, low quality sequences and amplification primers were trimmed from the raw sequencing reads.
For RNA-seq data, trimmed clean reads were aligned to human reference genome (hg19) using TopHat (v 2.0.12) -pass mapping steps.
Genome_build: hg19
Supplementary_files_format_and_content: TPM.txt files include the TPM values of RefSeq genes
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| Submission date |
Oct 10, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Yuxuan Zheng |
| Organization name |
Fudan University
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| Street address |
825 Zhangheng Rd.
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| City |
Shanghai |
| ZIP/Postal code |
201203 |
| Country |
China |
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| Platform ID |
GPL20301 |
| Series (1) |
| GSE104782 |
Single-cell RNA-seq analysis reveals the progression of human osteoarthritis |
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| Relations |
| BioSample |
SAMN07767704 |
| SRA |
SRX3266918 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2807841_P42_TPM.txt.gz |
498.1 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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