|
| Status |
Public on Apr 22, 2020 |
| Title |
CD34+ cells isolated from peripheral blood of TCIRG1-mutated patient [ARO25] |
| Sample type |
SRA |
| |
|
| Source name |
peripheral blood
|
| Organism |
Homo sapiens |
| Characteristics |
time point: day 0 (uncultured)
cell type: CD34+ cells isolated from peripheral blood of TCIRG1-mutated patient
|
| Growth protocol |
uncultured
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA of CD34+ cells was extracted using ReliaPrep RNA Cell Miniprep System (Promega)
SMART-Seq v4 Ultra low-input RNA kit for sequencing (Takara Bio)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
ARO25
|
| Data processing |
Basecalling using blc2fastq and trimming using cutadapt
Alignment using STAR and gene abundance estimation using featurecounts
Differential gene expression computed using edgeR
Genome_build: GRCh38
Supplementary_files_format_and_content: txt file, output of featurecounts
|
| |
|
| Submission date |
Jun 18, 2019 |
| Last update date |
Apr 22, 2020 |
| Contact name |
Ivan Merelli |
| E-mail(s) |
[email protected]
|
| Phone |
+390226422600
|
| Organization name |
Consiglio Nazionale delle Ricerche
|
| Department |
Istituto di Tecnologie Biomediche
|
| Lab |
Bioinformatics
|
| Street address |
via F.lli Cervi 93
|
| City |
Segrate |
| State/province |
Milano |
| ZIP/Postal code |
20090 |
| Country |
Italy |
| |
|
| Platform ID |
GPL21290 |
| Series (1) |
| GSE132889 |
RNAseq of circulating CD34+ cells derived from TCIRG1-defective patients |
|
| Relations |
| BioSample |
SAMN12084391 |
| SRA |
SRX6085401 |
