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An Integrated Systems Approach to the Study of Pancreatic Cancer

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Systems Biology in Cancer Research and Drug Discovery

Abstract

This chapter provides an overview of the different molecular technologies being exploited to elucidate the mechanisms underlying pancreatic cancer, which is key to the development of novel diagnostic and prognostic biomarkers as well as the implementation of effective therapies. We also describe approaches developed for integrated profiling analysis, discussing studies implementing a robust comparative analysis method for the study of primary data and specific data integration systems, such as the Pancreatic Expression Database, which have been designed to mine, integrate and visualise genes and pathways reported as being associated with pancreatic cancer. We discuss the International Cancer Genome Consortium project on pancreatic cancer, its data portal and underlying data mining technology. We also highlight some of the major issues that are a barrier to research efforts, in particular the lack of good clinical reporting in studies, the need for detailed controlled vocabularies and the importance of interoperability between research resources to maximise data mining and data sharing.

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Abbreviations

PDAC:

Pancreatic ductal adenocarcinoma

PanINs:

Pancreatic intraepithelial neoplasia

MCN:

Mucinous cystic neoplasia

IPMN:

Intraductal pancreatic mucinous neoplasia

NGS:

Next generation sequencing

PED:

Pancreatic Expression Database

GTPase:

Small guanine triphosphatase

ICGC:

International Cancer Genome Consortium

DCC:

Data Coordinating Centre

NCBI:

National Center for Biotechnology Information

JNK:

c-Jun N-terminal kinase

EBI:

European Bioinformatics Institute

GEO:

Gene Expression Omnibus

OICR:

Ontario Institute for Cancer Research

COSMIC:

Catalogue of Somatic Mutations in Cancer

CGH:

Comparative genomic hybridisation

SNP:

Single nucleotide polymorphism

RefSeq:

NCBI Reference sequence

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Correspondence to Claude Chelala .

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Gadaleta, E., Cutts, R.J., Sangaralingam, A., Lemoine, N.R., Chelala, C. (2012). An Integrated Systems Approach to the Study of Pancreatic Cancer. In: Azmi, A.S. (eds) Systems Biology in Cancer Research and Drug Discovery. Springer, Dordrecht. https://doi.org/10.1007/978-94-007-4819-4_4

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