E-GEOD-43288 - Molecular analysis of precursor lesions in familial pancreatic cancer

Released on 27 March 2013, last updated on 19 August 2015
Homo sapiens
Samples (40)
Arrays (2)
Protocols (8)
Background: With less than a 5% survival rate pancreatic adenocarcinoma (PDAC) is almost uniformly lethal. In order to make a significant impact on survival of patients with this malignancy, it is necessary to diagnose the disease early, when curative surgery is still possible. Detailed knowledge of the natural history of the disease and molecular events leading to its progression is therefore critical. Methods and Findings: We have analysed the precursor lesions, PanINs, from prophylactic pancreatectomy specimens of patients from four different kindreds with high risk of familial pancreatic cancer who were treated for histologically proven PanIN-2/3. Thus, the material was procured before pancreatic cancer has developed, rather than from PanINs in a tissue field that already contains cancer. Genome-wide transcriptional profiling using such unique specimens was performed. Bulk frozen sections displaying the most extensive but not microdissected PanIN-2/3 lesions were used in order to obtain the holistic view of both the precursor lesions and their microenvironment. A panel of 76 commonly dysregulated genes that underlie neoplastic progression from normal pancreas to PanINs and PDAC were identified. In addition to shared genes some differences between the PanINs of individual families as well as between the PanINs and PDACs were also seen. This was particularly pronounced in the stromal and immune responses. Conclusions: Our comprehensive analysis of precursor lesions without the invasive component provides the definitive molecular proof that PanIN lesions beget cancer from a molecular standpoint. We demonstrate the need for accumulation of transcriptomic changes during the progression of PanIN to PDAC, both in the epithelium and in the surrounding stroma. An identified 76-gene signature of PDAC progression presents a rich candidate pool for the development of early diagnostic and/or surveillance markers as well as potential novel preventive/therapeutic targets for both familial and sporadic pancreatic adenocarcinoma. Gene expression of 13 PanIN samples was compared to profiling data of whole biopsies from normal donor pancreas (N1 to 4, two replicated samples) and sporadic PDAC (PDAC1 to 6).Ttwo PDAC samples (PDAC 3 and 4) and a replicate of one normal specimen (N4) were removed during the hybridisation quality assessment.
Experiment type
transcription profiling by array 
Claude Chelala <c.chelala@qmul.ac.uk>, Mary Bronner, Nicholas R Lemoine, Sam Lattimore, Sayka Barry, Stipo Jurcevic, Tatjana Crnogorac-Jurcevic, Teresa A Brentnall, Tomohiko Harada, Vipul Bhakta
Molecular analysis of precursor lesions in familial pancreatic cancer. Crnogorac-Jurcevic T, Chelala C, Barry S, Harada T, Bhakta V, Lattimore S, Jurcevic S, Bronner M, Lemoine NR, Brentnall TA.
Investigation descriptionE-GEOD-43288.idf.txt
Sample and data relationshipE-GEOD-43288.sdrf.txt
Raw data (1)E-GEOD-43288.raw.1.zip
Processed data (1)E-GEOD-43288.processed.1.zip
Array designsA-AFFY-33.adf.txt, A-AFFY-34.adf.txt