|
| Status |
Public on May 10, 2019 |
| Title |
WT1-3d |
| Sample type |
SRA |
| |
|
| Source name |
WT_3d_mesoderm-like cells
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6
cell type: mouse ES-derived mesoderm-like cells
genotype/variation: wild type
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was isolated from cells collected at differentiation day 3 using TRIzol Reagent (Invitrogen). Isolated RNA was enriched by Poly(A) tails and fragmented. Sequencing libraries were prepared according to Illumina manufacturer instruction. Paired-end RNA-seq of 2x100 base pair reads were sequenced on Illumina Hiseq2000 platform or 2x150 base pair reads were sequenced on Hiseq X-ten
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Basecalls performed using CASAVA version 1.7
Sequences are aligned to transcriptome with Salmon (v0.8.2)
Transcripts Per Million were calculated by Salmon(v0.8.2)by defalut parameters
Genome_build: hg38
Supplementary_files_format_and_content: comma seprated file(.csv) include TPM values for all samples
|
| |
|
| Submission date |
Jan 30, 2019 |
| Last update date |
May 10, 2019 |
| Contact name |
Jing Hu |
| E-mail(s) |
hujine@sina.cn
|
| Phone |
021-54923340
|
| Organization name |
Shanghai Jiaotong university school of medicine
|
| Street address |
280 Chongqing road
|
| City |
Shanghai |
| ZIP/Postal code |
200025 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (1) |
| GSE125877 |
Stk40 deletion elevates c-JUN protein level and impairs mesoderm differentiation |
|
| Relations |
| BioSample |
SAMN10845669 |
| SRA |
SRX5310343 |
