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Transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass
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...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7648960/ https://www.ncbi.nlm.nih.gov/pubmed/33160365 http://dx.doi.org/10.1186/s12967-020-02597-1 |
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author | Chhatriya, Bishnupriya Mukherjee, Moumita Ray, Sukanta Saha, Barsha Lahiri, Somdatta Halder, Sandip Ghosh, Indranil Khamrui, Sujan Das, Kshaunish Bhattacharjee, Samsiddhi Mohapatra, Saroj Kant Goswami, Srikanta |
author_facet | Chhatriya, Bishnupriya Mukherjee, Moumita Ray, Sukanta Saha, Barsha Lahiri, Somdatta Halder, Sandip Ghosh, Indranil Khamrui, Sujan Das, Kshaunish Bhattacharjee, Samsiddhi Mohapatra, Saroj Kant Goswami, Srikanta |
author_sort | Chhatriya, Bishnupriya |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-7648960 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-76489602020-11-09 Transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass Chhatriya, Bishnupriya Mukherjee, Moumita Ray, Sukanta Saha, Barsha Lahiri, Somdatta Halder, Sandip Ghosh, Indranil Khamrui, Sujan Das, Kshaunish Bhattacharjee, Samsiddhi Mohapatra, Saroj Kant Goswami, Srikanta J Transl Med Research 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. BioMed Central 2020-11-07 /pmc/articles/PMC7648960/ /pubmed/33160365 http://dx.doi.org/10.1186/s12967-020-02597-1 Text en © The Author(s) 2020 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Chhatriya, Bishnupriya Mukherjee, Moumita Ray, Sukanta Saha, Barsha Lahiri, Somdatta Halder, Sandip Ghosh, Indranil Khamrui, Sujan Das, Kshaunish Bhattacharjee, Samsiddhi Mohapatra, Saroj Kant Goswami, Srikanta Transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass |
title | Transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass |
title_full | Transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass |
title_fullStr | Transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass |
title_full_unstemmed | Transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass |
title_short | Transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass |
title_sort | transcriptome analysis identifies putative multi-gene signature distinguishing benign and malignant pancreatic head mass |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7648960/ https://www.ncbi.nlm.nih.gov/pubmed/33160365 http://dx.doi.org/10.1186/s12967-020-02597-1 |
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