|
| Status |
Public on Jul 10, 2024 |
| Title |
osteoblast, ad-Hif1a 3, Day6 |
| Sample type |
SRA |
| |
|
| Source name |
osteoblast
|
| Organism |
Mus musculus |
| Characteristics |
cell line: osteoblast
cell type: primary cultured calvarial pre-osteoblasts
genotype: Hif1a overexpression
treatment: osteoblast differentiation
|
| Treatment protocol |
Primary calvarial pre-osteoblasts from WT mice were cultured in the medium containing 50 μg/ml L-AA and 5 mM β-Gp for up to 6 days for osteogenic differentiation.
|
| Growth protocol |
Primary culture of calvarial pre-osteoblasts were maintained in DMEM containing 10% fetal bovine serum and 1% penicillin/streptomycin, in incubators with 5% CO2 at 37℃.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using a TaKaRa RNAiso Plus.
RNA libraries were prepared for sequencing using the CORALL RNA-seq V2 Library Prep Kit standard protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Illumina bcl2fastq (v2.20.0.422) used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence(using fastp), then mapped to GRCm39 whole genome using STAR
Calculation mapped reads using salmon
CPM + TMM calculation using conorm
Assembly: GRCm39
Supplementary files format and content: tab-delimited text files include Read count values for each Sample
|
| |
|
| Submission date |
Jul 08, 2024 |
| Last update date |
Jul 10, 2024 |
| Contact name |
Su-Jin Kim |
| E-mail(s) |
ksz1353@naver.com
|
| Phone |
+82-62-530-4868
|
| Organization name |
Chonnam National University
|
| Street address |
77, Yongbong-ro, Buk-gu, Gwangju, Republic of Korea
|
| City |
Gwangju |
| ZIP/Postal code |
61186 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE271730 |
Differential but complementary roles of HIF-1α and HIF-2α in the regulation of bone homeostasis |
|
| Relations |
| BioSample |
SAMN42390927 |
| SRA |
SRX25261471 |
