Publication: Data Integration and Identification of Differentially Expressed Genes in Primary Pancreatic Ductal Adenocarcinoma (PDAC), Metastatic PDAC and Stromal Cells
Date
2022
Authors
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Publisher
International Medical University
Abstract
Pancreatic ductal adenocarcinoma (PDAC) is a carcinoma with high malignancy and fatality.
It is characterized by its surrounding stroma which occupy about 70% of the total tumour
volume. The tumour microenvironment is made up of several tissue component, for example,
fibroblasts, pancreatic stellate cells (PSC), immune cells and extracellular matrix (ECM)
proteins. The crosstalk between PDAC and stroma promotes the desmoplastic reaction around
the tumour while enhancing the proliferation of PDAC. Treatment targeting the PDAC stroma
tissues have yielded heterogenous result. The increase of use of omics technology in studying
diseases have led to the comparison of proteomic and transcriptomic profiles of PDAC and
stroma cells in this study. We have collected and applied data integration steps on a number of
transcriptomic and proteomic studies which contain human PDAC and stroma samples.
RStudio and DEBrowser analysis tool are utilized to explore the expression profile of the
samples, as well as GO term and KEGG pathway analysis for the enriched genes. These steps
were also applied to study the gene expression profile of PDAC and its metastases to identify
the differentially expressed genes responsible for the proliferation of the carcinoma. Six
differentially expressed genes between PDAC and stroma have been found to be commonly
existing in both Transcriptomic datasets and Proteomic datasets; which are FLNB, CTSB, C1S,
EFEMP2, ABI3BP, and FSTL1 genes. FGA and FGB are the two genes found to upregulated
in the liver metastases of PDAC. The functional enrichment and KEGG pathway analysis of
these genes were also discussed in this study.
Description
Keywords
Pancreatic Stellate Cells, Pancreatic Ducts, Pancreatic Neoplasms, Carcinoma