|
| Status |
Public on Feb 24, 2021 |
| Title |
RNASeq of homo sapiens: co-cultured wt microglia (13_Mi_WT_Co) |
| Sample type |
SRA |
| |
|
| Source name |
microglia
|
| Organism |
Homo sapiens |
| Characteristics |
isolate: BIONi010-C iPSC line deposited at EBISC
age: 15-19
Sex: male
cell_line: BIONi010-C
health_state: normal
karyotype: 46,XY
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Cells were lysed and the RNA purified using the High Pure RNA Isolation Kit from Roche following the provided protocol. RNA purity was assessed using the Agilent 2100 Bioanalyzer.
Strand-specific mRNA-seq libraries were generated from 1 ug total RNA using the TruSeq Stranded mRNA library prep kit (Illumina) according to manufacturer's instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
differentiation 3
|
| Data processing |
Basecalling and sample de-multiplexing was performed with bcl2fastq v2.17.1.14 and default parameters
Reads were quality check with fastqc default parameters
Reads for each sample/replicate were mapped against the mouse genome assembly using STAR read aligner v2.5.2a
RefSeq annotated genes were quantified with samtools v1.5 and in-house scripts
Genome_build: hg38
Supplementary_files_format_and_content: Read counts per gene
|
| |
|
| Submission date |
Oct 06, 2020 |
| Last update date |
Feb 24, 2021 |
| Contact name |
Roland Schmucki |
| E-mail(s) |
roland.schmucki@roche.com
|
| Organization name |
F. Hoffmann - La Roche AG
|
| Street address |
Grenzacherstrase
|
| City |
Basel |
| ZIP/Postal code |
4058 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL20301 |
| Series (1) |
| GSE159108 |
Generation and characterization of human iPSC-derived microglia-like cells for the use in drug discovery |
|
| Relations |
| BioSample |
SAMN16378730 |
| SRA |
SRX9248318 |
