|
| Status |
Public on Apr 17, 2024 |
| Title |
H9 WT D0 RNAseq Replicate 2 |
| Sample type |
SRA |
| |
|
| Source name |
embryonic stem cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: embryonic stem cells
stem cell_source: H9 hESC
passage: p10-p60
timepoint: D0
|
| Growth protocol |
Embryonic stem cells were mainatined in mTeSR media on Vitronectin coated cultureware.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the NucleoSpin® RNA kit (Takara Bio)
RNA-seq library preparation was performed using the KAPA RNA HyperPrep Kit with RiboErase (Roche) per the manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
D0_Raw_Counts.txt
|
| Data processing |
Raw reads for RNAseq samples were quality trimmed using cutadapt (v3.4) and aligned using STAR (v2.5.4b).
Aligned reads were quantified using featureCounts (v1.4.6-p4) from the subreads package.
Assembly: hg38
Supplementary files format and content: tab-deliminated text file containing raw counts for each sample
|
| |
|
| Submission date |
Jul 27, 2023 |
| Last update date |
Apr 17, 2024 |
| Contact name |
Kristen Kroll |
| Organization name |
Washington University School of Medicine
|
| Department |
Developmental Biology
|
| Lab |
Kristen Kroll
|
| Street address |
320 McDonnell Sciences/660 S. Euclid Ave.
|
| City |
Saint Louis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (2) |
| GSE239396 |
Assessment of gene expression changes during human cortical interneuron development |
| GSE239481 |
Defining Cis-regulatory Elements and Transcription Factors that Control Human Cortical Interneuron Development |
|
| Relations |
| BioSample |
SAMN36726323 |
