A meta analysis of pancreatic microarray datasets yields new targets as cancer genes and biomarkers

Nalin C W Goonesekere, Xiaosheng Wang, Lindsey Ludwig, Chittibabu Guda

Research output: Contribution to journalArticle

Abstract

The lack of specific symptoms at early tumor stages, together with a high biological aggressiveness of the tumor contribute to the high mortality rate for pancreatic cancer (PC), which has a five year survival rate of less than 5%. Improved screening for earlier diagnosis, through the detection of diagnostic and prognostic biomarkers provides the best hope of increasing the rate of curatively resectable carcinomas. Though many serum markers have been reported to be elevated in patients with PC, so far, most of these markers have not been implemented into clinical routine due to low sensitivity or specificity. In this study, we have identified genes that are significantly upregulated in PC, through a meta-analysis of large number of microarray datasets. We demonstrate that the biological functions ascribed to these genes are clearly associated with PC and metastasis, and that that these genes exhibit a strong link to pathways involved with inflammation and the immune response. This investigation has yielded new targets for cancer genes, and potential biomarkers for pancreatic cancer. The candidate list of cancer genes includes protein kinase genes, new members of gene families currently associated with PC, as well as genes not previously linked to PC. In this study, we are also able to move towards developing a signature for hypomethylated genes, which could be useful for early detection of PC. We also show that the significantly upregulated 800+ genes in our analysis can serve as an enriched pool for tissue and serum protein biomarkers in pancreatic cancer.

Original languageEnglish (US)
Article numbere93046
JournalPLoS One
Volume9
Issue number4
DOIs
StatePublished - Apr 1 2014

Fingerprint

pancreatic neoplasms
Neoplasm Genes
Biomarkers
Microarrays
Tumor Biomarkers
Pancreatic Neoplasms
meta-analysis
Meta-Analysis
biomarkers
Genes
neoplasms
genes
Hope
Tumors
Datasets
early diagnosis
Early Detection of Cancer
Protein Kinases
Blood Proteins
metastasis

ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Medicine(all)

Cite this

A meta analysis of pancreatic microarray datasets yields new targets as cancer genes and biomarkers. / Goonesekere, Nalin C W; Wang, Xiaosheng; Ludwig, Lindsey; Guda, Chittibabu.

In: PLoS One, Vol. 9, No. 4, e93046, 01.04.2014.

Research output: Contribution to journalArticle

Goonesekere, Nalin C W ; Wang, Xiaosheng ; Ludwig, Lindsey ; Guda, Chittibabu. / A meta analysis of pancreatic microarray datasets yields new targets as cancer genes and biomarkers. In: PLoS One. 2014 ; Vol. 9, No. 4.
@article{8fa3a7f9baf64e4bb0ee4a1f6feadce8,
title = "A meta analysis of pancreatic microarray datasets yields new targets as cancer genes and biomarkers",
abstract = "The lack of specific symptoms at early tumor stages, together with a high biological aggressiveness of the tumor contribute to the high mortality rate for pancreatic cancer (PC), which has a five year survival rate of less than 5{\%}. Improved screening for earlier diagnosis, through the detection of diagnostic and prognostic biomarkers provides the best hope of increasing the rate of curatively resectable carcinomas. Though many serum markers have been reported to be elevated in patients with PC, so far, most of these markers have not been implemented into clinical routine due to low sensitivity or specificity. In this study, we have identified genes that are significantly upregulated in PC, through a meta-analysis of large number of microarray datasets. We demonstrate that the biological functions ascribed to these genes are clearly associated with PC and metastasis, and that that these genes exhibit a strong link to pathways involved with inflammation and the immune response. This investigation has yielded new targets for cancer genes, and potential biomarkers for pancreatic cancer. The candidate list of cancer genes includes protein kinase genes, new members of gene families currently associated with PC, as well as genes not previously linked to PC. In this study, we are also able to move towards developing a signature for hypomethylated genes, which could be useful for early detection of PC. We also show that the significantly upregulated 800+ genes in our analysis can serve as an enriched pool for tissue and serum protein biomarkers in pancreatic cancer.",
author = "Goonesekere, {Nalin C W} and Xiaosheng Wang and Lindsey Ludwig and Chittibabu Guda",
year = "2014",
month = "4",
day = "1",
doi = "10.1371/journal.pone.0093046",
language = "English (US)",
volume = "9",
journal = "PLoS One",
issn = "1932-6203",
publisher = "Public Library of Science",
number = "4",

}

TY - JOUR

T1 - A meta analysis of pancreatic microarray datasets yields new targets as cancer genes and biomarkers

AU - Goonesekere, Nalin C W

AU - Wang, Xiaosheng

AU - Ludwig, Lindsey

AU - Guda, Chittibabu

PY - 2014/4/1

Y1 - 2014/4/1

N2 - The lack of specific symptoms at early tumor stages, together with a high biological aggressiveness of the tumor contribute to the high mortality rate for pancreatic cancer (PC), which has a five year survival rate of less than 5%. Improved screening for earlier diagnosis, through the detection of diagnostic and prognostic biomarkers provides the best hope of increasing the rate of curatively resectable carcinomas. Though many serum markers have been reported to be elevated in patients with PC, so far, most of these markers have not been implemented into clinical routine due to low sensitivity or specificity. In this study, we have identified genes that are significantly upregulated in PC, through a meta-analysis of large number of microarray datasets. We demonstrate that the biological functions ascribed to these genes are clearly associated with PC and metastasis, and that that these genes exhibit a strong link to pathways involved with inflammation and the immune response. This investigation has yielded new targets for cancer genes, and potential biomarkers for pancreatic cancer. The candidate list of cancer genes includes protein kinase genes, new members of gene families currently associated with PC, as well as genes not previously linked to PC. In this study, we are also able to move towards developing a signature for hypomethylated genes, which could be useful for early detection of PC. We also show that the significantly upregulated 800+ genes in our analysis can serve as an enriched pool for tissue and serum protein biomarkers in pancreatic cancer.

AB - The lack of specific symptoms at early tumor stages, together with a high biological aggressiveness of the tumor contribute to the high mortality rate for pancreatic cancer (PC), which has a five year survival rate of less than 5%. Improved screening for earlier diagnosis, through the detection of diagnostic and prognostic biomarkers provides the best hope of increasing the rate of curatively resectable carcinomas. Though many serum markers have been reported to be elevated in patients with PC, so far, most of these markers have not been implemented into clinical routine due to low sensitivity or specificity. In this study, we have identified genes that are significantly upregulated in PC, through a meta-analysis of large number of microarray datasets. We demonstrate that the biological functions ascribed to these genes are clearly associated with PC and metastasis, and that that these genes exhibit a strong link to pathways involved with inflammation and the immune response. This investigation has yielded new targets for cancer genes, and potential biomarkers for pancreatic cancer. The candidate list of cancer genes includes protein kinase genes, new members of gene families currently associated with PC, as well as genes not previously linked to PC. In this study, we are also able to move towards developing a signature for hypomethylated genes, which could be useful for early detection of PC. We also show that the significantly upregulated 800+ genes in our analysis can serve as an enriched pool for tissue and serum protein biomarkers in pancreatic cancer.

UR - http://www.scopus.com/inward/record.url?scp=84922394695&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84922394695&partnerID=8YFLogxK

U2 - 10.1371/journal.pone.0093046

DO - 10.1371/journal.pone.0093046

M3 - Article

C2 - 24740004

VL - 9

JO - PLoS One

JF - PLoS One

SN - 1932-6203

IS - 4

M1 - e93046

ER -