Our Publications

The APGI have published its work in numerous important journals over the years. These are the recent papers we have been involved in.

Pan-cancer analysis of whole genomes

ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium.
Nature. 2020 Feb;578(7793):82-93. doi: 10.1038/s41586-020-1969-6.
The APGI contributed 175 genomes to the Pan-Cancer Project, a global effort that has created a resource of over 2600 cancer genome of 38 different tumour types. Researchers across the globe will use the database to study pancreatic and other cancers, bringing better diagnosis and treatments within reach.
Garvan News: Garvan contributes to global cancer genome ‘map’

Targeting the undruggable in pancreatic cancer using nano-based gene silencing drugs

Kokkinos J, Ignacio RMC, Sharbeen G, Boyer C, et al.
Biomaterials. 2020 Jan 8;240:119742. doi: 10.1016/j.biomaterials.2019.119742.

MCL-1 antagonism enhances the anti-invasive effects of dasatinib in pancreatic adenocarcinoma

Castillo L, Young AIJ, Mawson A, Schafranek P, et al.
Oncogene. 2020 Feb;39(8):1821-1829. doi: 10.1038/s41388-019-1091-0.

Development and validation of a targeted gene sequencing panel for application to disparate cancers

McCabe MJ, Gauthier MA, Chan CL, Thompson TJ, et al.
Sci Rep. 2019 Nov 19;9(1):17052. doi: 10.1038/s41598-019-52000-3.

Genetic counselling and personalised risk assessment in the Australian pancreatic cancer screening program

Dwarte T, McKay S, Johns A, Tucker K, et al.
Hered Cancer Clin Pract. 2019 Oct 23;17:30. doi: 10.1186/s13053-019-0129-1.
Screening trial participants report their experience of genetic counselling (and testing where appropriate) for pancreas cancer (PC) susceptibility. They report multiple benefits, including improved understanding of genetic and environmental risks, reassurance and a motivation to help younger generations. Most are interested in genetic testing for PC susceptibility and want genetics review when further testing becomes available. We also assess the utility of PancPRO, a PC risk estimation model, to estimate a person’s individual risk based on their family history. Personalised risk assessments may improve risk communication and patient education during genetic counselling consultations.

CAF hierarchy driven by pancreatic cancer cell p53-status creates a pro-metastatic and chemoresistant environment via perlecan

Vennin C, Mélénec P, Rouet R, Nobis M, et al.
Nat Commun. 2019 Aug 12;10(1):3637. doi: 10.1038/s41467-019-10968-6.
Aggressive pancreatic cancer cells change their environment (matrix) to enable easier spreading of the cancer (metastasis). This is done by a production of a molecule called ‘perlecan’ to remodel the matrix, easily allowing metastasis and also protecting them against chemotherapy. Together with targeting the cancer cells themselves with chemotherapy, there are important benefits in targeting the cells that produce the matrix, namely fibroblasts.
Garvan News: Key to targeting the spread of pancreatic cancer

ROBO2 is a stroma suppressor gene in the pancreas and acts via TGF-β signalling

Pinho AV, Van Bulck M, Chantrill L, Arshi M, et al.
Nat Commun. 2018 Nov 30;9(1):5083. doi: 10.1038/s41467-018-07497-z.

Precision Oncology in Surgery: Patient Selection for operable Pancreatic Cancer

Dreyer SB, Pinese M, Jamieson NB, Scarlett CJ, et al.
Ann Surgery. 2018 Nov.doi:10.1097/SLA

Provenance and risk in transfer of biological materials

Nielsen J, Bubela T, Chalmers DRC, Johns A, et al.
PLoS Biol. 2018 Aug 13;16 (8):e2006031. doi: 10.1371/journal.pbio.2006031
The paperwork required for contemporary research has drastically increased. One example is a Material transfer agreement (MTA) which is a common vehicle for exchanging materials. This paper investigates ways to minimise delays in research that requires access to materials on reasonable terms.
APGI News: Cutting through the red tape in sharing material for research

The Path to reducing duplication of Human Research Ethics review in Australia

Johns AL, Nicol D, Zeps N, Chalmers D.
Medicine and LawNumber 1 March 2017 Vol 36.

Lost in translation: returning germline genetic results in genome-scale cancer research

Johns AL, McKay SH, Humphris JL, Pinese M, et al.
Genome Med. 2017 Apr 28; 8(41). doi: 1186/s13073-017-0430-4.
The complexities involved in returning genome-scale research results to study participants and the assessment of the impact on their clinical care and health outcomes have been analysed. The benefit of returning results can be substantial and valuable, even though it is labour-intensive and the rates of finding clinically applicable information are likely to be low in large-scale genomic studies.
Garvan News: The importance of returning research results to study participants

SerpinB2 regulates stromal remodelling and local invasion in pancreatic cancer

Harris NL, Vennin C, Conway JR, Vine KL, et al.
Oncogene. 2017 Mar 27. doi: 10.1038/onc.2017.63.

Transient tissue priming via ROCK inhibition uncouples pancreatic cancer progression, sensitivity to chemotherapy, and metastasis.

Vennin C, Chin VT, Warren SC, Lucas MC, et al.
Sci Transl Med. 2017 Apr 5;9(384). pii: eaai8504. doi: 10.1126/scitranslmed.aai8504.
This paper uncovers a promising new approach to treating pancreatic cancer by targeting the tissue around the tumour. This is done by a course of fasudil which is a drug that makes tumours softer and makes the blood vessels around tumours ‘leaky’. Subsequent treatment with standard-of-care chemotherapy for pancreatic cancer resulted in double the survival time and impaired metastasis.
Garvan News: A one-two punch for pancreatic cancer: ‘softening’ tumours before chemo markedly improves survival

Whole-genome landscape of pancreatic neuroendocrine tumours

Scarpa A, Chang DK, Nones K, Corbo V, et al.
2017 Mar 02; 543(7643):65–71. doi:10.1038/nature21063.

Hypermutation in Pancreatic Cancer

Humphris, JL, Patch A, Nones K, Bailey PJ, et al.
Gastroenterology. 15 Nov 2016. doi.org/10.1053/j.gastro.2016.09.060

Ampullary cancers harbor ELF3 tumor suppressor gene mutations and exhibit frequent WNT dysregulation

Gingras M, Covington KR, Chang DK, Donehower LA, et al.
Cell Rep Feb 2016;14(4):907-19 doi:10.1016/j.celrep.2015.12.005

Genomic analyses identify molecular subtypes of pancreatic cancer

Bailey P, Chang DK, Nones K, Johns A.L. et al
Nature Feb 2016 doi:10.1038/nature16965
This paper outlines the most in-depth analysis of pancreatic cancer, re-classifying this disease into four subtypes, each with its own genetic make-up and distinct behaviour. This gives us insight into why tumours seem to act differently in individual patients.
APGI News: Ground breaking research – but what does this mean for pancreatic cancer patients?

Whole genomes redefine the mutational landscape of pancreatic cancer

Waddell N, Pajic M, Patch A, Chang D, et al.
Nature doi:10.1038/nature14169 Vol. 518 No 7540; 26 Feb 2015
The most in-depth analysis yet of 100 pancreatic cancer genomes has been done and it highlights 4 subtypes that my help guide future patient treatment.
Garvan News: How the landscape of the pancreatic cancer genome is coming into view