|
Status |
Public on Oct 27, 2013 |
Title |
pre2-2_NC |
Sample type |
SRA |
|
|
Source name |
mouse embryonic fibroblasts (MEFs)
|
Organism |
Mus musculus |
Characteristics |
cell type: OG2 transgenic mouse embryonic fibroblasts (MEFs) passage: P10 strain: 1/2 129SVJ+3/8 C57B6+1/8 CBA medium: vitamin C (vc) treatment: control siRNA
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted by Trizol-based protocol. The libraries were prepared according to Illumina TruSeq® RNA sample preparation Kit.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina MiSeq |
|
|
Description |
extracting total RNA 48h later after transfecting Control siRNA(including 36h Vc treatment)
|
Data processing |
Illumina Casava1.8 software used for basecalling. Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence. Transcripts per million(TPM) were calculated using RSEM(1.1.21) with parameters(-p 8 --estimated-rspd --no-bam-output). Genome_build: mm9 Supplementary_files_format_and_content: TXT files including tau values for each RNA-seq samples, and TPM values are generated for all the samples.
|
|
|
Submission date |
Jun 21, 2013 |
Last update date |
May 15, 2019 |
Contact name |
Lihui Lin |
E-mail(s) |
lin_lihui@gibh.ac.cn
|
Phone |
020-32015291
|
Organization name |
Guangzhou Institutes Of Biomedicine and Health Chinese Academy Of Science
|
Department |
Stem cell
|
Lab |
Pei Duanqing
|
Street address |
No.190, Kaiyuan Street
|
City |
Guangzhou |
State/province |
Guangdong |
ZIP/Postal code |
GD20 |
Country |
China |
|
|
Platform ID |
GPL16417 |
Series (1) |
GSE48206 |
Gene Expression Profile for knocking down Tet1 in pre-iPSCs culturing in Vc medium. |
|
Relations |
BioSample |
SAMN02211825 |
SRA |
SRX313012 |