|
| Status |
Public on Oct 26, 2022 |
| Title |
Sympathetic neurons from H9 hESCs, day 35, biol rep 2 |
| Sample type |
SRA |
| |
|
| Source name |
WA09
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: WA09
cell type: hESC
genotype: WT
treatment: sympathetic neuron differentiation
|
| Growth protocol |
hPSCs were mainatined on vitronectin in Essential media 8 and differntiated according to Wu et al., JoVE 2020
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using TRIZOL and purified following manufacturer's protocol.
Libraries were prepared using KAPA’s Stranded mRNA-seq kit (#KK4821) with halved reaction volumes. mRNA was selected using oligo-dT beads, followed by RNA fragmentation and cDNA generation using random hexamer priming.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 2000 |
| |
|
| Data processing |
All analyses were done on the Galaxy web platform (www.usegalaxy.org)
Low quality bases were trimmed from sequencing reads using Trimmomatic (version 0.38)
Reads were mapped to the human genome using HISAT2 (version 2.21) using default parameters.
Reads per gene were counted using HTseq (version 0.91) with a minimum alignment quality value of 10.
Assembly: GRCh38.p13
Supplementary files format and content: tab-delimited text file, include raw counts per gene
|
| |
|
| Submission date |
Aug 29, 2022 |
| Last update date |
Jan 26, 2024 |
| Contact name |
Nadja Zeltner |
| E-mail(s) |
zeltnerlab@gmail.com
|
| Phone |
2012216857
|
| Organization name |
University of Georgia
|
| Street address |
325 Riverbend road
|
| City |
Athens GA |
| State/province |
GA |
| ZIP/Postal code |
30601 |
| Country |
USA |
| |
|
| Platform ID |
GPL30173 |
| Series (1) |
| GSE212255 |
Differential gene expression in human pluriptent stem cell-derived sympathetic neurons |
|
| Relations |
| BioSample |
SAMN30561468 |
| SRA |
SRX17305702 |
