|
| Status |
Public on Mar 21, 2024 |
| Title |
20mo, 2c treated, replicate 3 |
| Sample type |
SRA |
| |
|
| Source name |
ear
|
| Organism |
Mus musculus |
| Characteristics |
tissue: ear
age: 20mo
cell type: fibroblast
strain: C57BL/6
treatment: 2c treated
|
| Treatment protocol |
Cells were cultured in 6-well plates with 3 ml media in each well. Chemical cocktails were added to the media such that final DMSO and PBS concentration was each 0.5%. Media and treatments were replaced every 3 days.
|
| Growth protocol |
Fibroblasts were cultured in DMEM/F12 media supplemented with 1X anti-anti, 10% FBS, 1X beta-mercaptoethanol, and 1X non-essential amino acids (Gibco). Cells were grown at 37°C with 5% CO2 and 3% O2.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Cells were washed 3x with PBS, and lysed in the dish with Trizol. Isolation of total RNA was performed according to manufacturer's protocol (direct-zol, Zymo Research)
Libraries were prepared with TruSeq Stranded mRNA LT Sample Prep Kit according to TruSeq Stranded mRNA Sample Preparation Guide, Part # 15031047 Rev. E
mRNA-seq (polyA-enrichment)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
A3_2c
|
| Data processing |
Fastq files were mapped to the genome using STAR v.2.7.2b
Assembly: mm10 (GRCm38.p6)
Supplementary files format and content: excel file containing raw counts for each sample
|
| |
|
| Submission date |
Nov 03, 2023 |
| Last update date |
Mar 21, 2024 |
| Contact name |
Wayne Mitchell |
| E-mail(s) |
wmitchell2@bwh.harvard.edu
|
| Organization name |
Brigham and Women's Hospital
|
| Street address |
77 Avenue Louis Pasteur
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE246954 |
Multi-omics characterization of partial chemical reprogramming reveals evidence of cell rejuvenation [RNA-seq] |
| GSE247199 |
Multi-omics characterization of partial chemical reprogramming reveals evidence of cell rejuvenation |
|
| Relations |
| BioSample |
SAMN38086369 |
| SRA |
SRX22362629 |
