|
| Status |
Public on Apr 18, 2023 |
| Title |
TC28a2 cells transfected with control vector, replicate 3 |
| Sample type |
SRA |
| |
|
| Source name |
TC28a2
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: TC28a2
cell type: chondrocytes
genotype: control vector
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from TC28a2 cells transfected with a vector control (n=3) or FAP overexpression vector (n=3) 48 hours post-transfection using TRIzol. RNA quality was confirmed using NanoDrop measurements of OD 260/280 and 260/230.
DRUG-seq (high throughput low-cost RNA-Seq) libraries were generated for all replicas and the libraries sequenced on Illumina NextSeq 2000.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 2000 |
| |
|
| Description |
TC28a2_Control_Rep3
|
| Data processing |
Raw FASTQ files were aligned using HISAT2 and assigned to genomic features with the featureCounts function of the Subread package.
Assembly: GRCh38
Supplementary files format and content: Counts matrix
|
| |
|
| Submission date |
Dec 05, 2022 |
| Last update date |
Apr 18, 2023 |
| Contact name |
Padma Natarajan |
| E-mail(s) |
ccbb@scripps.edu
|
| Organization name |
The Scripps Research Institute
|
| Department |
CCBB
|
| Street address |
10550 N.Torrey Pines Road
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL30173 |
| Series (2) |
| GSE220068 |
A senescent cell population with ZEB1 transcription factor as its main regulator promotes osteoarthritis in cartilage and meniscus [TC28_FAP_DRUGseq] |
| GSE220244 |
A senescent cell population with ZEB1 transcription factor as its main regulator promotes osteoarthritis in cartilage and meniscus |
|
| Relations |
| BioSample |
SAMN32040396 |
| SRA |
SRX18490801 |
