|
| Status |
Public on Jun 07, 2023 |
| Title |
H1_WT_3 |
| Sample type |
SRA |
| |
|
| Source name |
H1 hESC
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: H1 hESC
genotype: WT
treatment: Non-targeting control siRNA
|
| Growth protocol |
HEK 293T cells were maintained in DMEM/GlutaMAX + 10% FBS in humidified atmosphere with 5% CO2 at 37C
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was harvested using the Macherey-Nagel NucleoSpin Mini Kit
RNA libraries for RNA-seq were prepared by Novogene
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Mapping to reference was performed with hisat2 (Version 2.0.5) using default parameters
Quantification was performed with featureCounts (Version 1.5.0-p3)
Differential analysis was performed using DESeq2 (Version 1.20.0) and edgeR (Version 0.22.0)
Assembly: GRCm38/mm10
Supplementary files format and content: Tab-delimited text file includes FPKM values for each Sample
|
| |
|
| Submission date |
Jun 05, 2023 |
| Last update date |
Jun 07, 2023 |
| Contact name |
Michael Rapé |
| E-mail(s) |
mrape@berkeley.edu
|
| Organization name |
University of California Berkeley
|
| Department |
Molecular and Cell Biology
|
| Street address |
330F Li Ka Shing Center
|
| City |
Berkeley |
| State/province |
CA |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE234200 |
Orphan quality control shapes network dynamics and gene expression |
|
| Relations |
| BioSample |
SAMN35639517 |
| SRA |
SRX20599675 |
