Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

DNA-Seq of human hepatocellular carcinoma and adjacent tissues to determine differetiatial expression of microRNA

ABSTRACT: Determine differetiatial expression of micro RNA in paired human hepatocellular tumor tissues and their adjacent cirrosis tissues by SOLiD sequencing. http://www.appliedbiosystems.com/absite/us/en/home/applications-technologies/solid-next-generation-sequencing/small-rna-analysis.html Matrix with results is available in thearchive: E-MTAB-511.additional.zip

ORGANISM(S): Homo sapiens

DISEASE(S): cirrhosis

SUBMITTER: Sun Beicheng

PROVIDER: E-MTAB-511 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

miR-22 promotes HBV-related hepatocellular carcinoma development in males.

Jiang Runqiu R Deng Lei L Zhao Liang L Li Xiangcheng X Zhang Feng F Xia Yongxiang Y Gao Yun Y Wang Xuehao X Sun Beicheng B

Clinical cancer research : an official journal of the American Association for Cancer Research 20110712 17

<h4>Purpose</h4>Previous reports have shown that IL-1α-MyD88-IL-6 signaling is essential in promoting hepatocellular carcinoma (HCC) development in a diethylnitrosamine (DEN)-induced mouse model. We aimed to determine whether interleukin (IL)-1α regulates HCC development in humans.<h4>Methods</h4>HBV-associated HCC tissue, corresponding adjacent tissue, and normal tissue samples were obtained from 80 male and 36 female patients. IL-1α, ERα, IL-6, and MyD88 were quantified by using real-time PCR ...[more]

PMID: 21750200

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Project description:Twenty-four triple-negative breast cancer and 14 adjacent normal tissues were collected from breast cancer patients during surgeries at National Taiwan University Hospital (NTUH, Taipei, Taiwan). All triple-negative breast cancer samples were invasive ductal carcinomas (IDC) and were negative in immunohistochemical statuses of ER, PR, and HER2 receptors, as confirmed by professional pathologists. Treatment procedure of all patients followed the National Comprehensive Cancer Network (NCCN) guideline. All samples were neoadjuvant-free and were collected before systemic chemotherapy treatments. Written informed consent was obtained from all patients who participated in this study. Using human tissues for research in this study was approved by the institutional review board at NTUH. A novel set of 25-miRNA signature identified in this study was able to effectively distinguish between triple-negative breast cancer and adjacent normal tissues. Moreover, we documented the first evidence of seven polycistronic miRNA clusters preferentially harboring deregulated miRNA genes in triple-negative breast cancer. In the present study, a panel of 24 triple-negative breast cancer and 14 adjacent normal tissue samples were examined for the presence of deregulated miRNA genes using the high-throughput sequencing technology. Total RNA was extracted from the triple-negative breast cancer and adjacent normal samples for preparation of small RNA libraries. Each small RNA library was constructed from total RNA of each sample using the SOLiD Total RNA-Seq Kit (Applied Biosystems, Foster City, CA, USA). Upon completion of polymerase chain reaction (PCR) amplification, small RNA libraries were purified using the SOLiD Library Micro Column Purification Kit (Applied Biosystems) and hybridized to the template beads using the SOLiD EZ bead system (Applied Biosystems). The template beads were amplified and deposited onto subtract for ligation sequencing by SOLiD 4 System (Applied Biosystems).

Dataset Information

DNA-Seq of human hepatocellular carcinoma and adjacent tissues to determine differetiatial expression of microRNA

Publications

miR-22 promotes HBV-related hepatocellular carcinoma development in males.

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