|
| Status |
Public on Apr 06, 2023 |
| Title |
Liver tissue sample [408HC] |
| Sample type |
SRA |
| |
|
| Source name |
Liver tissue
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Hepatocyte
|
| Treatment protocol |
N/A
|
| Growth protocol |
Liver cell populations (Hepatocytes, hepatobiliary cells and ductular reaction cells) were isolated by laser capture microdissection as previously described in Aguilar-Bravo et al, Hepatology 2019
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA-Seq analysis was performed using 1-10ng of RNA per sample. For each sample, libraries were created using the AmpliSeq Transcriptome Human Gene Expression Kit (ThermoFisher Scientific, ref. A26325) and the User Guide MAN0010743 (Revision C.0) with minor modifications.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Ion Torrent Proton |
| |
|
| Description |
Hepatocyte: 408HC
|
| Data processing |
FASTQ files were trimmed with Quality Score method
Torrent Suite Software v 5.2 was used for basecalling, alignment, and mapping validated reads to HG19 transcriptome and AmpliSeq specific bed files.
Assembly: Genome_build: hg19
Supplementary files format and content: read counts RNA-seq
|
| |
|
| Submission date |
Mar 22, 2022 |
| Last update date |
Apr 06, 2023 |
| Contact name |
Juanjo Lozano |
| E-mail(s) |
juanjo.lozano@ciberehd.org
|
| Organization name |
CIBEREHD
|
| Department |
Plataforma de Bioinformatica
|
| Street address |
C/ Rosselló 153
|
| City |
Barcelona |
| ZIP/Postal code |
08036 |
| Country |
Spain |
| |
|
| Platform ID |
GPL17303 |
| Series (1) |
| GSE199168 |
CXCR4 DRIVES HEPATOCYTE REPROGRAMMING IN ALCOHOL-RELATED LIVER DISEASE |
|
| Relations |
| BioSample |
SAMN26871139 |
| SRA |
SRX14566331 |
