NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE189398 Query DataSets for GSE189398
Status Public on May 16, 2022
Title mRNA-seq analysis of mouse hepatocellular carcinoma cell lines
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary There are few well-characterized syngeneic murine models for hepatocellular carcinoma (HCC), which limits immunological studies and the development of immunotherapies for HCC. We previously established an oncogene-induced spontaneous HCC mouse model based on transposon-mediated oncogene (AKT and NRASG12V) insertion into the genome of hepatocytes to induce tumorigenesis. Here is the result of transcriptomic analysis of two pool cell clones (pool #1 and pool #8) and three single cell clones (NHRI-1-F1, NHRI-8-A4 and NHRI-8-C4) from Akt/N-Ras-induced HCC mouse model, also including a commercial murine hepatocellular carcinoma cell line (Hepa 1-6) as control.
 
Overall design Before cells reaching confluence, total RNA was extracted from each cell clone by using RNeasy mini kit (QIAGEN, Hilden, Germany). The quality of RNA was validated by a Bioanalyzer (Agilent, Santa Clara, CA, USA) and subjected to Welgene Biotech Co., Ltd. for RNA-sequencing. Clean reads of each sample provided by the sequencing Labs were used for downstream bioinformatic analysis.
 
Contributor(s) Ko Y, Cheng Y, Huang L
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Nov 23, 2021
Last update date May 16, 2022
Contact name Li-Rung Huang
E-mail(s) lrhuang@nhri.edu.tw
Organization name National Health Research Institutes
Street address No.35, Keyan rd. Zhunan town
City Miaoli County
ZIP/Postal code 35053
Country Taiwan
 
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (24)
GSM5700652 C1_1: NHRI-1-E4_1
GSM5700653 C1_2: NHRI-1-E4_2
GSM5700654 C1_3: NHRI-1-E4_3
Relations
BioProject PRJNA782911

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE189398_Gene_TPM.xlsx 7.7 Mb (ftp)(http) XLSX
GSE189398_Treatment_vs_Control_FC2.0X.xlsx 11.6 Mb (ftp)(http) XLSX
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