|
| Status |
Public on Feb 23, 2023 |
| Title |
d1_gplc |
| Sample type |
SRA |
| |
|
| Source name |
Growth plate like chondrocyte (GPLC) cells
|
| Organism |
Mus musculus |
| Characteristics |
cell line: Growth plate like chondrocyte (GPLC) cells
time: Day 1
|
| Growth protocol |
Growth plate like chondrocyte (GPLC) cells were maintained in DMEM supplemented with 10% fetal bovine serum (FBS), 100 U/mL Penicillin/ 100mg/mL Streptomycin, 50 ug/mL Ascorbic acid, and 1X Insulin/Transferrin/Selenium in humidified atmosphere with 5% CO2 at 37C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from sorted cells using QIAGEN Rneasy Plus Mini Kit and concentrations were quantified using NanoDrop.
Libraries were prepared by the Harvard Medical School's Biopolymers Facility via KAPA HyperPrep with Ribo-Erase Library Prep
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
Reads were mapped to mouse genome GRCm38 using STAR Aligner and gene-based readcounts were generated using featureCounts.
Differential gene expression was performed in edgeR after library size normalization. CPM values were compared.
Assembly: GRCm38
Supplementary files format and content: .xlsx spreadsheet containing CPM values
|
| |
|
| Submission date |
Feb 22, 2023 |
| Last update date |
Feb 23, 2023 |
| Contact name |
Nora E Renthal |
| E-mail(s) |
Nora.Renthal@childrens.harvard.edu
|
| Organization name |
Boston Children's Hospital
|
| Department |
Endocrinology
|
| Lab |
Hirschhorn Lab
|
| Street address |
3 Blackfan Circle
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL16417 |
| Series (1) |
| GSE225796 |
Genes with specificity for expression in the round cell layer of the growth plate are enriched in genomewide association study (GWAS) of human height |
|
| Relations |
| BioSample |
SAMN33412246 |
| SRA |
SRX19469615 |
