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| Status |
Public on Jan 05, 2022 |
| Title |
Heterogeneous phenotypes of Pten-null hepatocellular carcinoma in hepatitis B virus transgenic mice parallels liver lobule zonal gene expression patterns |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
Chronic HBV infection is a major cause of hepatocellular carcinoma (HCC) worldwide. The phenotypes of HCC are diverse, in part, due to mutations in distinct oncogenes and/or tumor suppressor genes. These genetic drivers of HCC development have generally been considered as major mediators of tumor heterogeneity. Using the liver-specific Pten-null HBV transgenic mouse model of chronic viral infection, a critical role for liver lobule zone-specific gene expression patterns in determining HCC phenotype is demonstrated. These observations suggest that the position of the hepatocyte within the liver lobule, and hence its intrinsic gene expression pattern at the time of cellular transformation, make critical contributions to the properties of the resulting liver tumor. These results may explain why therapies targeting pathways modulated by specific identified tumor driver genes display variable treatment efficacy.
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| Overall design |
Amplicon bisulfite-sequencing data: 12 samples. RNA-seq: 8 samples. Samples are DNA (for methylation analysis) and RNA (for RNA-seq analysis) samples from control HBV(+/-)Pten(fl/fl)Cre(+/-) [normal liver] and HBV(+/-)Pten(fl/fl)Cre(+/-) [paired Pten-null non-tumor and tumor HCC samples] livers.
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| Contributor(s) |
Oropeza CE, Ondracek CR, Tarnow G, Maienschein-Cline M, Green SJ, McLachlan A |
| Citation(s) |
34844082 |
| |
| Submission date |
Apr 21, 2021 |
| Last update date |
Jan 05, 2022 |
| Contact name |
Mark Maienschein-Cline |
| E-mail(s) |
mmaiensc@uic.edu
|
| Organization name |
University of Illinois at Chicago
|
| Department |
Research Resources Center
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| Lab |
Center for Research Informatics
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| Street address |
1819 W Polk Ave, Rm 336 M/C 789
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| City |
Chicago |
| State/province |
IL |
| ZIP/Postal code |
60612 |
| Country |
USA |
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| Platforms (2) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL16417 |
Illumina MiSeq (Mus musculus) |
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| Samples (20)
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| Relations |
| BioProject |
PRJNA723613 |
| SRA |
SRP315780 |
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