Stephen Wong

Custom workflows to improve joint variant calling from multiple related tumour samples: FreeBayesSomatic and Strelka2Pass.

S Hollizeck, SQ Wong, B Solomon, D Chandrananda, S-J Dawson

Journal article  |  2021  |  Bioinformatics

SUMMARY: This work describes two novel workflows for variant calling that extend the widely used algorithms of Strelka2 and FreeBa..

Potential Clinical Utility of a Targeted Circulating Tumor DNA Assay in Esophageal Adenocarcinoma

CS Cabalag, M Yates, Benitez M Corrales, P Yeh, SQ Wong, BZ Zhang, KM Fujihara, L Chong, MW Hii, SJ Dawson, WA Phillips, CP Duong, NJ Clemons

Journal article  |  2021  |  Annals of Surgery

Abstract 539: Utility of circulating tumor DNA in esophageal cancer: A potential prognostic biomarker in tumor staging, monitoring of treatment response and detection of recurrent disease

Carlos Suhady Cabalag, Michael Yates, Mariana B Corrales, Paul Yeh, Stephen Q Wong, Bonnie Zhang, Kenji M Fujihara, Lynn Chong, Michael Hii, Sarah-Jane Dawson, Wayne A Phillips, Cuong P Duong, Nicholas J Clemons

Conference Proceedings  |  2021  |  Clinical Research (Excluding Clinical Trials)

Utility of circulating tumor DNA in esophageal cancer: A potential prognostic biomarker in tumor staging, monitoring of treatment response and detection of recurrent disease.

Carlos Suhady Cabalag, Michael Yates, Mariana B Corrales, Paul Yeh, Stephen Q Wong, Bonnie Zhang, Kenji M Fujihara, Lynn Chong, Michael Hii, Sarah-Jane Dawson, Wayne A Phillips, Cuong P Duong, Nicholas J Clemons

Conference Proceedings  |  2021  |  CANCER RESEARCH

Detection of cell-free microbial DNA using a contaminant-controlled analysis framework

Enrique Zozaya-Valdes, Stephen Q Wong, Jeanette Raleigh, Athena Hatzimihalis, Sarah Ftouni, Anthony T Papenfuss, Shahneen Sandhu, Mark A Dawson, Sarah-Jane Dawson

Journal article  |  2021  |  GENOME BIOLOGY

BACKGROUND: The human microbiome plays an important role in cancer. Accumulating evidence indicates that commensal microbiome-deri..

Evolution of late-stage metastatic melanoma is dominated by aneuploidy and whole genome doubling

Ismael A Vergara, Christopher P Mintoff, Shahneen Sandhu, Lachlan McIntosh, Richard J Young, Stephen Q Wong, Andrew Colebatch, Daniel L Cameron, Julia Lai Kwon, Rory Wolfe, Angela Peng, Jason Ellul, Xuelin Dou, Clare Fedele, Samantha Boyle, Gisela Mir Arnau, Jeanette Raleigh, Athena Hatzimihalis, Pacman Szeto, Jennifer Mooi, et al.

Journal article  |  2021  |  NATURE COMMUNICATIONS

Although melanoma is initiated by acquisition of point mutations and limited focal copy number alterations in melanocytes-of-origi..

P76.64 Alternating Osimertinib and Gefitinib as Second-Line Treatment for EGFR-Mutated NSCLC Harbouring a T790M Resistance Mutation (OSCILLATE)

B Solomon, A Mersiades, C Brown, S Dawson, S Wong, L Tan, S Yip, Y Cheung, H Jurkovic, M Walker, S Kao, CK Lee, G Newnham, K O'Byrne, S Parakh, K Jasas, V Bray, M Stockler, T John, N Pavlakis

Conference Proceedings  |  2021  |  Journal of Thoracic Oncology

Alternating Osimertinib and Gefitinib as Second-Line Treatment for EGFR-Mutated NSCLC Harbouring a T790M Resistance Mutation (OSCILLATE)

B Solomon, A Mersiades, C Brown, S Dawson, S Wong, L Tan, S Yip, Y Cheung, H Jurkovic, M Walker, S Kao, CK Lee, G Newnham, K O'Byrne, S Parakh, K Jasas, V Bray, M Stockler, T John, N Pavlakis

Conference Proceedings  |  2021  |  JOURNAL OF THORACIC ONCOLOGY

Low-coverage whole-genome sequencing of extracellular vesicle-associated DNA in patients with metastatic cancer

Bella Nguyen, Nicholas C Wong, Tim Semple, Michael Clark, Stephen Q Wong, Connull Leslie, Bob Mirzai, Michael Millward, Katie Meehan, Annette M Lim

Journal article  |  2021  |  SCIENTIFIC REPORTS

Low-coverage whole-genome sequencing (LC-WGS) can provide insight into oncogenic molecular changes. Serum extracellular vesicles (..

Circulating Tumor DNA Predicts Outcome from First-, but not Second-line Treatment and Identifies Melanoma Patients Who May Benefit from Combination Immunotherapy

Gabriela Marsavela, Jenny Lee, Leslie Calapre, Stephen Q Wong, Michelle R Pereira, Ashleigh C McEvoy, Anna L Reid, Cleo Robinson, Lydia Warburton, Afaf Abed, Muhammad A Khattak, Tarek M Meniawy, Sarah-Jane Dawson, Shahneen Sandhu, Matteo S Carlino, Alexander M Menzies, Richard A Scolyer, Georgina Long, Benhur Amanuel, Michael Millward, et al.

Journal article  |  2020  |  CLINICAL CANCER RESEARCH

PURPOSE: We evaluated the predictive value of pretreatment ctDNA to inform therapeutic outcomes in patients with metastatic melano..