|
| Status |
Public on Mar 04, 2024 |
| Title |
GS_77_T0 |
| Sample type |
SRA |
| |
|
| Source name |
Lung
|
| Organism |
Sus scrofa |
| Characteristics |
tissue: Lung
timepoint: T0
treatment: EVLP gold standard
|
| Treatment protocol |
EVLP with or without pediatric dialysis
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Arcturus PicoPure RNA isolation kit or Trizol + NucleoSpin RNA kit
NextSeq 500 Mid output kit V2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
RNA-Seq of Sus scrofa : ex vivo lung sample treated by the gold standard EVLP protocol
design description: NextSeq 500 mid output kit v2
|
| Data processing |
Demultiplexing (bcl2fastq2 v2.2.18.12)
Sequence cleaning (Cutadapt v1.15)
Mapping (tophat2 v2.0.14)
Gene counts (featureCounts - subread v1.6.0)
Differential analysis (DESEq2 v1.18.1)
Assembly: Sscrofa11.1 - Ensembl 101
Supplementary files format and content: tab delimited raw counts file
|
| |
|
| Submission date |
Aug 30, 2023 |
| Last update date |
Mar 04, 2024 |
| Contact name |
Jouneau Luc |
| E-mail(s) |
luc.jouneau@inrae.fr
|
| Organization name |
INRA
|
| Lab |
VIM
|
| Street address |
Domaine de Vilvert
|
| City |
Jouy-en-Josas |
| ZIP/Postal code |
78352 |
| Country |
France |
| |
|
| Platform ID |
GPL20983 |
| Series (1) |
| GSE241921 |
Ex vivo lung perfusion with dialysis in pig (timepoints T0H, T6H and T12H) |
|
| Relations |
| BioSample |
SAMN37196864 |
| SRA |
SRX21515766 |
