|
| Status |
Public on May 20, 2022 |
| Title |
healthy MNs (ctr_r2) |
| Sample type |
SRA |
| |
|
| Source name |
iPSC
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: iPSC
cell type: iPSC-derived motor neuron
disease state: healthy
treatment: motor neuron differentiation
time: Day 34
genotype: control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using microRNeasy mini kit (Qiagen).
1.0 ug of total RNA was used to construct sequencing libraries using the Lexogen 3'end FWD kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
Sequence reads were trimmed for adaptor sequence/low-quality sequence using cutadapt
Trimmed sequence reads were mapped to hg19 using bowtie. Forward reads from the paired-end files were combined with single reads for generating bam files using bowtie.
Read counts were estimated using R package feature count and normalization were performed using DESeq2
Assembly: hg19
Supplementary files format and content: tab-delimited text file includes raw readcounts per gene for each Sample
|
| |
|
| Submission date |
May 17, 2022 |
| Last update date |
May 20, 2022 |
| Contact name |
Akshay Bhinge |
| E-mail(s) |
drabhinge@gmail.com
|
| Organization name |
Living Systems Institute, University of Exeter
|
| Department |
Medical School
|
| Street address |
Stocker Road
|
| City |
Exeter |
| ZIP/Postal code |
EX4 4QD |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL15520 |
| Series (2) |
| GSE203172 |
Identifying miR-139 targets in motor neurons |
| GSE203173 |
FUS H517Q and healthy iPSC-derived motor neurons |
|
| Relations |
| BioSample |
SAMN28488279 |
| SRA |
SRX15302573 |
