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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Feb 25, 2019 |
| Title |
Characterization of murine hepatoma cells with regard to their dependence on cyclin E1 |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
In C57BL/6 mice with a floxed cyclin E1 (CcnE1) gene (CcnE1f/f), hepatocellular carcinomas were induced using diethylnitrosamine (DEN). Hepatocyte-derived cells from pre-cancerous but tumor-free liver tissue (referred to as CcnE1f/fpreCL) and from large, solid HCC nodules (referred to as CcnE1f/fHCC) were isolated and immortalized in vitro. Deletion of CcnE1 in CcnE1f/fpreCL cells resulted in cell cycle arrest and death while CcnE1f/fHCC cells grew almost normal after loss of CcnE1. The underlying differences of both cell types regarding the transcriptome were analyzed in the present experiment.
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| Overall design |
Four independent CcnE1f/fpreCL cell lines (R1-R4) and 3 independent HCC-derived cell lines (CcnE1f/fHCC, NR1-3) were infected with an adenovirus encoding cre-recombinase (adv-cre) in order to delete CcnE1. For the control experiment the same cell lines were infected with adenovirus expressing GFP (adv-GFP). Please note that 2 out of 4 preCL cell lines (CcnE1f/fpreCL clone 3 and clone 4) also contained a floxed Cdk2 allele. All preCL cell lines underwent cell cycle arrest after CcnE1 deletion, and all HCC cells grew normal in absence of CcnE1. Cells were harvested 3 days after infection and analyzed. Cells were compared to primary hepatocytes from CcnE1f/f mice (Ref-Hep1-3).
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| Contributor(s) |
Sonntag R, Giebeler N, Nevzorova YA, Bangen J, Fahrenkamp D, Lambertz D, Haas U, Hu W, Gassler N, Cubero FJ, Müller-Newen G, Abdallah AT, Weiskirchen R, Ticconi F, Costa IG, Barbacid M, Trautwein C, Liedtke C |
| Citation(s) |
30150405, 34830835 |
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| Submission date |
Feb 25, 2018 |
| Last update date |
Dec 03, 2021 |
| Contact name |
Ali T Abdallah |
| E-mail(s) |
bioinformatics.ali.abdallah@gmail.com
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| Organization name |
University of Cologne
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| Department |
Medical Faculty
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| Lab |
CECAD
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| Street address |
Joseph Stelzmann Str. 26
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| City |
Cologne |
| ZIP/Postal code |
50931 |
| Country |
Germany |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (17)
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| Relations |
| BioProject |
PRJNA435868 |
| SRA |
SRP133434 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE111079_DIFFEXPR_EXPORT310_DATASET390.xlsx |
16.9 Mb |
(ftp)(http) |
XLSX |
| GSE111079_DIFFEXPR_EXPORT313_DATASET392.xlsx |
15.8 Mb |
(ftp)(http) |
XLSX |
| GSE111079_DIFFEXPR_EXPORT316_DATASET394.xlsx |
17.0 Mb |
(ftp)(http) |
XLSX |
| GSE111079_DIFFEXPR_EXPORT319_DATASET396.xlsx |
15.9 Mb |
(ftp)(http) |
XLSX |
| GSE111079_DIFFEXPR_EXPORT328_DATASET402.xlsx |
7.3 Mb |
(ftp)(http) |
XLSX |
| GSE111079_EXPORT_FPKM_RUN101.xlsx |
9.0 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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