|
| Status |
Public on Aug 29, 2022 |
| Title |
CR25 6h CTRL |
| Sample type |
SRA |
| |
|
| Source name |
Chondrocytes
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Chondrocytes
patient: CR25
time: 6h
cl treatment: 0
bs treatment: 0
|
| Treatment protocol |
Chondrocytes are cultured in 1% FBS, glutamine, ascorbic acid and proline with or without CL and BS for 6h or 24h
|
| Growth protocol |
Primary OA chondrocytes were isolated from cartilage after enzymatic digestion and growth in alginate beads in high glucose DMEM containing 1% FBS, 2mM glutamine, 50 µg/ml ascorbic acid and 20 µg/ml proline during 3 days
|
| Extracted molecule |
total RNA |
| Extraction protocol |
18 beads were pooled, degelified in 0,1M cold citrate and cells were homogenized in 600 µl RTL lysis buffer (Qiagen) then extract using Rneasy mini kit from Qiagen according to the manufacturer's instructions. Dnase step were performed during extraction. Samples were eluted in 30 µl RNase free H2O
0,1 µg of RNA from each culture condition was used for this analysis. Libraries were prepared with the Illumina Truseq stranded mRNA sample prep kit according to the manufacturer's instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
TIL-CR25-1
|
| Data processing |
Raw data were demultiplexed into individual libraries. After filtering out reads mapping to rRNA, tRNA, mitochondrial RNA, and other contaminants (e.g., adapters, etc.) using bowtie2
Assembly: GRCh38
Supplementary files format and content: reads were aligned onto the human reference genome (GRCh38 and Ensembl 105 annotation) and quantified with Star to give the Counts file.
|
| |
|
| Submission date |
Apr 28, 2022 |
| Last update date |
Aug 29, 2022 |
| Contact name |
Christelle Sanchez |
| E-mail(s) |
christelle.sanchez@uliege.be
|
| Organization name |
ULiege
|
| Lab |
dBRU
|
| Street address |
Quai G. Kurth 45
|
| City |
Liège |
| ZIP/Postal code |
4020 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE201779 |
Curcuma longa and Boswellia serrata extracts modulate different and complementary pathways on human chondrocytes in vitro: deciphering of a transcriptomic study |
|
| Relations |
| BioSample |
SAMN27928306 |
| SRA |
SRX15039330 |
