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| Status |
Public on Nov 19, 2021 |
| Title |
The regulatory role of lncRNA AC093797.1 in the Hepatocellular carcinoma cell line HCCLM3 in nude mice. |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: The clinical significance, biological function of AC093797.1 are still unexplored in HCC or any other malignant tumor. In this study, we aimed to investigate the biological function of AC093797.1 in HCC and screen the candidate hub genes and pathways related to hepatocarcinogenesis via RNA-sequencing.
Methods: The effects of AC093797.1 on tumor growth in vivo was clarified by nude mice tumor formation experiments. The 5-weeks old female BALB/c nude mice weighing 15-20g were maintained under specific-pathogen-free conditions and randomly divided into OE-AC093797 group and negative control (NC) group (n=5 per group). Then the HCCLM3 cells stably transfected with control vector pcDNA3.1 or the overexpression vector OE-AC093797.1 (5×10^7cells in 100μl) were subcutaneously injected into nude mice. Calculate the volume of the tumors by the following formula: Vtumor= length × width2×π/6. When the tumor grows to about 2000 mm3, the mice were sacrificed after anesthesia and their tumor tissues were isolate. Three mice of each group were used to RNA-sequencing and bioinformatics analysis based on subcutaneous tumor tissue.
Results: The “DESeq2” package of R software was used to filtered the differential expressed genes between the OE-AC093797 group and the NC group. The cut-off criteria of differential expressed genes was |log2FoldChange|>1.5 and adj. p value (FDR)<0.05. 710 differentially expressed genes (243 up-regulated genes and 467 down-regulated genes) were screened between groups, which mainly enriched in amino acid metabolism，extracellular matrix structure constituent, cell adhesion molecules cams，signaling to Ras, and signaling to ERKs, etc. via gene ontology, Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis and gene set enrichment analysis (GSEA).
Conclusion: AC093797.1 can inhibits tumor group might via reprogram cell metabolism or Extracellular matrix dynamics in HCC.
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| Overall design |
mRNA profiles of tumors in the OE-AC093797 and NC group
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| Contributor(s) |
Yang Q, Deng C |
| Citation(s) |
34925460 |
| |
| Submission date |
Nov 01, 2021 |
| Last update date |
Jan 07, 2022 |
| Contact name |
Cunliang Deng |
| E-mail(s) |
dengcunl@swmu.edu.cn
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| Organization name |
The affiliated hospital of southwest medical university
|
| Department |
Department of infectious diseases
|
| Street address |
Taiping street No.25
|
| City |
Luzhou |
| State/province |
Sichuan |
| ZIP/Postal code |
646000 |
| Country |
China |
| |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA776835 |
| SRA |
SRP344034 |
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