 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Mar 05, 2024 |
| Title |
H9 cells, sicontrol#1 |
| Sample type |
SRA |
| |
|
| Source name |
human embryonic stem cells (H9) treated by sicontrol
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: H9
treatment: sicontrol
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit (Qiagen). 1.4 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using Hieff NGS™ MaxUp Dual-mode mRNA Library Prep Kit for Illumina® following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
FPKM(C2)
|
| Data processing |
CLC Genomics Workbench v 11.0.1
Sequence reads were trimmed for adaptor sequence/low-quality sequence using CLC genomic benchwork (parameter- Quality limit: 0.05)
Trimmed sequence reads were mapped to GrCM38/mm10 using CLC genomic benchwork (parameters- mismath cost: 2 insertion cost: 3 deletion cost: 3 length fraction: 0.8 similarity fraction: 0.8)
Read count extraction and normalization were performed using CLC genomic benchwork
Assembly: mm10
Supplementary files format and content: tab-delimited text file includes TPM, FPKM, Count values for each Sample
|
| |
|
| Submission date |
Jul 06, 2023 |
| Last update date |
Mar 05, 2024 |
| Contact name |
caiping ren |
| E-mail(s) |
rencaiping@csu.edu.cn
|
| Phone |
13574872391
|
| Organization name |
Central South University
|
| Street address |
110 Xiangya Road,
|
| City |
Changsha |
| ZIP/Postal code |
410078 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE236745 |
ESRG regulates alternative splicing of TCF3 to maintain hESCs self-renewal and pluripotency |
|
| Relations |
| BioSample |
SAMN36344329 |
| SRA |
SRX20927806 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
|
|
|
|
 |
