GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM6760647 Query DataSets for GSM6760647
Status Public on Nov 28, 2023
Title Hep_Sox4_3
Sample type SRA
Source name Liver
Organism Mus musculus
Characteristics tissue: Liver
cell type: Hepatocytes
genotype: Sox4
treatment: AAV8-TBG-HA-Sox4 (Sox4 expression vector) injected
Treatment protocol Mice were injected with adeno-associated viruses (AAVs) packaged with mouse Sox4 expression vector (AAV8-TBG-HA-Sox4-P2A-Cre) or empty vector (AAV8-TBG-Cre). Hepatocytes were harvested 4 days post injection by a standard 2-step liberase digestion method followed by a Percoll enrichment step.
Extracted molecule total RNA
Extraction protocol RNA was isolated with Nucleospin RNA kit (Takara)
Library was prepared by Novogene (Sacramento, CA)
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
Description T3566
Data processing Reads were mapped to GRCm39 mouse genome using the STAR aligner (version 2.7.10b).
Read counts were obtained using the featureCounts package (v2.0.1)
Read counts were imported to DESeq2, and normalization was performed using the "median of ratios normalization" method.
Assembly: GRCm39
Supplementary files format and content: Tab-delimited normalized data including all the samples.
Submission date Nov 28, 2022
Last update date Nov 28, 2023
Contact name Takeshi Katsuda
Phone +1-215-746-5559
Organization name University of Pennsylvania
Department Perelman School of Medicine
Lab Gastroenterology Division
Street address 421 Curie Blvd, BRB II/III Rm531
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
Platform ID GPL24247
Series (2)
GSE218947 Influence of Sox4 on transcriptomic changes in adult hepatocytes
GSE221225 Sox4 in adult hepatocytes
BioSample SAMN31899466
SRA SRX18406152

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap