Transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass
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Journal of Translational Medicine Open Access
RESEARCH
Transcriptome analysis identifies putative multi‑gene signature distinguishing benign and malignant pancreatic head mass Bishnupriya Chhatriya1, Moumita Mukherjee1, Sukanta Ray2, Barsha Saha1, Somdatta Lahiri3, Sandip Halder3, Indranil Ghosh4, Sujan Khamrui2, Kshaunish Das2, Samsiddhi Bhattacharjee1, Saroj Kant Mohapatra1 and Srikanta Goswami1*
Abstract Background: Most often, the patients with pancreatic diseases are presented with a mass in pancreatic head region and existing methods of diagnosis fail to confirm whether the head mass is malignant or benign. As subsequent management of the disease hugely depends on the correct diagnosis, we wanted to explore possible biomarkers which could distinguish benign and malignant pancreatic head masses. Methods: In order to address that gap, we performed a case–control study to identify genome-wide differentially expressed coding and noncoding genes between pancreatic tissues collected from benign and malignant head masses. These genes were next shortlisted using stringent criteria followed by selection of top malignancy specific genes. They subsequently got validated by quantitative RT-PCR and also in other patient cohorts. Survival analysis and ROC analysis were also performed. Results: We identified 55 coding and 13 noncoding genes specific for malignant pancreatic head masses. Further shortlisting and validation, however, resulted in 5 coding genes as part of malignancy specific multi-gene signature, which was validated in three independent patient cohorts of 145 normal and 153 PDAC patients. We also found that overexpression of these genes resulted in survival disadvantage in the patients and ROC analysis identified that combination of 5 coding genes had the AUROC of 0.94, making them potential biomarker. Conclusions: Our study identified a multi-gene signature comprising of 5 coding genes (CDCA7, DLGAP5, FOXM1, TPX2 and OSBPL3) to distinguish malignant head masses from benign ones. Keywords: Pancreatic head mass, Transcriptome, Signature, Biomarker potential Background Pancreatic cancer is one of the most aggressive forms of cancers, with 5-year survival as low as 7 per cent. Chronic pancreatitis (CP) is considered as a major risk factor for pancreatic cancer. In about 30–75% of CP cases, a benign
*Correspondence: [email protected] 1 National Institute of Biomedical Genomics, P.O.: N.S.S., Kalyani 741251, West Bengal, India Full list of author information is available at the end of the article
inflammatory mass is formed in pancreatic head region which is very much similar to malignant pancreatic head mass which occurs in about 65–70% of PC [1]. Jaundice, gastric outlet obstruction, weight loss, back-ache are symptoms common to both. Diagnosis is difficult even during the surgery as features like hard mass, vascular invasion are present in both the cases. Distinguishing benign and malignant head mass based on their clinical and imaging features is very challenging but necessary as they have very differen
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