|
|
GEO help: Mouse over screen elements for information. |
|
Status |
Public on Jan 24, 2024 |
Title |
LSECs; citrate buffer-injected mouse, rep. 1 |
Sample type |
SRA |
|
|
Source name |
Liver
|
Organism |
Mus musculus |
Characteristics |
tissue: Liver cell line: LSECs cell type: FAC-sorted LSECs (CD45-dim, STAB2-high, CD146-high) genotype: wild type treatment: intravenous injection with citrate buffer (0,05M) for 5 hours
|
Treatment protocol |
n/a
|
Growth protocol |
n/a
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA from sorted LSECs was extracted using TRIzol™ LS Reagent (ThermoScientific, #10296028) according to the manufacturer’s instructions with an additional step of RNA precipitation with glycogen (ThermoScientific, #R0551). Library was prepared using Ion AmpliSeq™ Transcriptome Mouse Gene Expression Kit according to the manufacturer’s protocol (Thermo Fisher Scientific)
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Ion Torrent Proton |
|
|
Description |
female Balb/c mouse
|
Data processing |
The raw reads were processed with Ion Torrent RNASEQAnalysis pipeline (Torrent Suite version 5.0.4) htseq-count, version 0.6.0, default parameters DESeq2, version 1.18.1, normalization Assembly: AmpliSeq Mouse Transcriptome v1 Supplementary files format and content: htseq normalized count
|
|
|
Submission date |
Jun 23, 2023 |
Last update date |
Jan 24, 2024 |
Contact name |
Michał Mikula |
E-mail(s) |
mikula.michal@gmail.com
|
Phone |
+48225462655
|
Organization name |
Maria Skłodowska-Curie National Research Institute of Oncology
|
Department |
Genetics
|
Street address |
Roentgena 5
|
City |
Warsaw |
ZIP/Postal code |
02781 |
Country |
Poland |
|
|
Platform ID |
GPL18635 |
Series (2) |
GSE235692 |
NRF2-independent iron-triggered signaling via MAPK p38-ETS1 regulates LSEC Bmp6 mRNA expression [I] |
GSE235976 |
NRF2-independent iron-triggered signaling via MAPK p38-ETS1 regulates LSEC Bmp6 mRNA expression |
|
Relations |
BioSample |
SAMN35881687 |
SRA |
SRX20765461 |
Supplementary file |
Size |
Download |
File type/resource |
GSM7507976_2L_Bufor2.counts.txt.gz |
101.7 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
|
|
|
|
|