Identification of Novel Biomarkers for Pancreatic Cancer Using Integrated Transcriptomics With Functional Pathways Analysis

Xuan Zhang, Pan Tong, Jinyun Chen, Zenglin Pei, Xiaoyan Zhang, Weiping Chen, Jianqing Xu, Jin Wang

Research output: Contribution to journalArticle

Abstract

Pancreatic cancer is a leading cause of cancer death largely, but the genetic alterations associated with the initiation and progression of this disease are still not well understood. To comprehensively investigate potential utility of miRNAs and protein encoding transcripts (mRNAs) in pancreatic cancer as biomarkers of the disease, we exhaustively mined genomic data from two publically available datasets: the National Center for Biotechnology Information gene expression omnibus (GEO) and the Oncomine databases. We identified 26 miRNAs that were differentially expressed in pancreatic cancer tissue from five microarray datasets. Using data from five pancreatic cancer studies, we found 260 deregulated mRNAs associated with pancreatic cancer. Among these 260 deregulated transcripts, there were six transcripts encode proteins (COL1A2, CEACAM5, LAMA3, CP, ENO2, and FN1) secreted in blood, which may be developed as blood-based biomarkers of pancreatic cancer. Further, we found that 13 abnormally expressing transcripts targeted by deregulated miRNAs were involved in the epithelial adherens junction signaling, Wnt/β-catenin signaling, TR/RXR activation, hepatic fibrosis/hepatic stellate cell activation, and actin cytoskeleton canonical signaling pathways. Integrated bioinformatics analyses of multiple independent transcriptomic datasets revealed tumor associated deregulated miRNAs and protein encoding mRNAs involved in critical signaling pathways, which warrant further investigations to be validated as sensitive and specific biomarkers of pancreatic cancer detection and prognosis.

Original languageEnglish (US)
JournalJournal of Cellular Physiology
DOIs
StateAccepted/In press - 2016

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Biomarkers
MicroRNAs
Pancreatic Neoplasms
Messenger RNA
Blood
Chemical activation
Catenins
Proteins
Bioinformatics
Biotechnology
Microarrays
Gene expression
Actins
Tumors
Adherens Junctions
Information Centers
Hepatic Stellate Cells
Tissue
Critical Pathways
Tumor Biomarkers

ASJC Scopus subject areas

  • Medicine(all)
  • Physiology
  • Clinical Biochemistry
  • Cell Biology

Cite this

Identification of Novel Biomarkers for Pancreatic Cancer Using Integrated Transcriptomics With Functional Pathways Analysis. / Zhang, Xuan; Tong, Pan; Chen, Jinyun; Pei, Zenglin; Zhang, Xiaoyan; Chen, Weiping; Xu, Jianqing; Wang, Jin.

In: Journal of Cellular Physiology, 2016.

Research output: Contribution to journalArticle

Zhang, Xuan ; Tong, Pan ; Chen, Jinyun ; Pei, Zenglin ; Zhang, Xiaoyan ; Chen, Weiping ; Xu, Jianqing ; Wang, Jin. / Identification of Novel Biomarkers for Pancreatic Cancer Using Integrated Transcriptomics With Functional Pathways Analysis. In: Journal of Cellular Physiology. 2016.
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abstract = "Pancreatic cancer is a leading cause of cancer death largely, but the genetic alterations associated with the initiation and progression of this disease are still not well understood. To comprehensively investigate potential utility of miRNAs and protein encoding transcripts (mRNAs) in pancreatic cancer as biomarkers of the disease, we exhaustively mined genomic data from two publically available datasets: the National Center for Biotechnology Information gene expression omnibus (GEO) and the Oncomine databases. We identified 26 miRNAs that were differentially expressed in pancreatic cancer tissue from five microarray datasets. Using data from five pancreatic cancer studies, we found 260 deregulated mRNAs associated with pancreatic cancer. Among these 260 deregulated transcripts, there were six transcripts encode proteins (COL1A2, CEACAM5, LAMA3, CP, ENO2, and FN1) secreted in blood, which may be developed as blood-based biomarkers of pancreatic cancer. Further, we found that 13 abnormally expressing transcripts targeted by deregulated miRNAs were involved in the epithelial adherens junction signaling, Wnt/β-catenin signaling, TR/RXR activation, hepatic fibrosis/hepatic stellate cell activation, and actin cytoskeleton canonical signaling pathways. Integrated bioinformatics analyses of multiple independent transcriptomic datasets revealed tumor associated deregulated miRNAs and protein encoding mRNAs involved in critical signaling pathways, which warrant further investigations to be validated as sensitive and specific biomarkers of pancreatic cancer detection and prognosis.",
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