|
| Status |
Public on Mar 10, 2023 |
| Title |
E185_WT_1204_mb |
| Sample type |
SRA |
| |
|
| Source name |
skeletal and muscle tissue
|
| Organism |
Mus musculus |
| Characteristics |
tissue: E18.5 mouse embryonic mandibular tissue
tissue: skeletal and muscle tissue
genotype: WT
treatment: Surgical separation
|
| Growth protocol |
C3H10T1/2 mesenchymal cells were maintained in cultured in at 37◦C with 5% CO2, and were cultured in MEN-a containing 10% FBS (10099141C, Gibco™), 1% penicillin/streptomycin, 1% Non-Essential Amino Acids, and 1% GlutaMAX™ Supplement. E18.5 mouse embryonic mandibular tissue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using a total RNA extraction kit (LS1040, Promega). 2 ug of total RNA was used for the construction of sequencing libraries.
The RNA sequencing library was prepared with NEBNext UltraTM RNA Library Prep Kit for Illumina and was sequenced on an Illumina novaseq6000.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The PE150 raw reads of RNA-Seq libraries were filtered by removing adaptor sequences, contamination and low-quality (phred quality < 20) reads. Reads quality was assessed using FastQC.
Sequenced reads were then mapped to the mm10 genome using STAR aligner version 2.7.3a. Reads were counted using htseq-count version 0.12.4 at the union mode.
Assembly: mm10
Supplementary files format and content: counts
|
| |
|
| Submission date |
Oct 28, 2022 |
| Last update date |
Mar 10, 2023 |
| Contact name |
Songyuan Luo |
| E-mail(s) |
songyuanluo@sjtu.edu.cn
|
| Organization name |
Shanghai Ninth People’s Hospital
|
| Street address |
639 Zhi-Zao-Ju Road
|
| City |
Shanghai |
| ZIP/Postal code |
200011 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE216759 |
Ectomesenchymal Six1 controls mandibular skeleton formation [RNA-seq] |
| GSE216761 |
Ectomesenchymal Six1 controls mandibular skeleton formation. |
|
| Relations |
| BioSample |
SAMN31501109 |
| SRA |
SRX18057548 |
