Works by Wong, Stephen Q.

Results: 33

Circulating tumour DNA in metastatic breast cancer to guide clinical trial enrolment and precision oncology: A cohort study.

Published in:

2020

By:

Zivanovic Bujak, Andjelija;
Weng, Chen-Fang;
Silva, Maria João;
Yeung, Miriam;
Lo, Louisa;
Ftouni, Sarah;
Litchfield, Cassandra;
Ko, Yi-An;
Kuykhoven, Keilly;
Van Geelen, Courtney;
Chandrashekar, Sushma;
Dawson, Mark A.;
Loi, Sherene;
Wong, Stephen Q.;
Dawson, Sarah-Jane

Publication type:

journal article

Targeted-capture massively-parallel sequencing enables robust detection of clinically informative mutations from formalin-fixed tumours.

Published in:

Scientific Reports, 2013, p. 1, doi. 10.1038/srep03494

By:

Wong, Stephen Q.;
Li, Jason;
Salemi, Renato;
Sheppard, Karen E.;
Hongdo Do;
Tothill, Richard W.;
McArthur, Grant A.;
Dobrovic, Alexander

Publication type:

Article

Exemplary multiplex bisulfite amplicon data used to demonstrate the utility of Methpat.

Published in:

GigaScience, 2015, v. 4, p. 1, doi. 10.1186/s13742-015-0098-x

By:

Wong, Nicholas C.;
Pope, Bernard J.;
Candiloro, Ida;
Korbie, Darren;
Trau, Matt;
Wong, Stephen Q.;
Mikeska, Thomas;
van Denderen, Bryce J. W.;
Thompson, Erik W.;
Eggers, Stefanie;
Doyle, Stephen R.;
Dobrovic, Alexander

Publication type:

Article

Unravelling mutational signatures with plasma circulating tumour DNA.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-54193-2

By:

Hollizeck, Sebastian;
Wang, Ning;
Wong, Stephen Q.;
Litchfield, Cassandra;
Guinto, Jerick;
Ftouni, Sarah;
Rebello, Richard;
Kanwal, Sehrish;
Dong, Ruining;
Grimmond, Sean;
Sandhu, Shahneen;
Mileshkin, Linda;
Tothill, Richard W.;
Chandrananda, Dineika;
Dawson, Sarah-Jane

Publication type:

Article

Clinical and pathological associations of the activating RAC1 P29S mutation in primary cutaneous melanoma.

Published in:

Pigment Cell & Melanoma Research, 2014, v. 27, n. 6, p. 1117, doi. 10.1111/pcmr.12295

By:

Mar, Victoria J.;
Wong, Stephen Q.;
Logan, Aleksandra;
Nguyen, Trung;
Cebon, Jonathan;
Kelly, John W.;
Wolfe, Rory;
Dobrovic, Alexander;
McLean, Catriona;
McArthur, Grant A.

Publication type:

Article

Wet or Dry? Do Liquid Biopsy Techniques Compete with or Complement PET for Disease Monitoring in Oncology?

Published in:

Journal of Nuclear Medicine, 2017, v. 58, n. 6, p. 869, doi. 10.2967/jnumed.117.190116

By:

Wong, Stephen Q.;
Tothill, Richard W.;
Dawson, Sarah-Jane;
Hicks, Rodney J.

Publication type:

Article

Rapid detection of FLT3 exon 20 tyrosine kinase domain mutations in patients with acute myeloid leukemia by high-resolution melting analysis.

Published in:

Leukemia & Lymphoma, 2012, v. 53, n. 6, p. 1225, doi. 10.3109/10428194.2011.645817

By:

Tan, Angela Y.-C.;
Wong, Stephen Q.;
Nyvold, Charlotte Guldborg;
Carney, Dennis A.;
Wei, Andrew;
Seymour, John F.;
Hokland, Peter;
Westerman;
Dobrovic, Alexander

Publication type:

Article

Identification of single nucleotide variants using position-specific error estimation in deep sequencing data.

Published in:

BMC Medical Genomics, 2019, v. 12, n. 1, p. N.PAG, doi. 10.1186/s12920-019-0557-9

By:

Kleftogiannis, Dimitrios;
Punta, Marco;
Jayaram, Anuradha;
Sandhu, Shahneen;
Wong, Stephen Q.;
Gasi Tandefelt, Delila;
Conteduca, Vincenza;
Wetterskog, Daniel;
Attard, Gerhardt;
Lise, Stefano

Publication type:

Article

Genome-wide plasma DNA methylation features of metastatic prostate cancer.

Published in:

2020

By:

Anjui Wu;
Cremaschi, Paolo;
Wetterskog, Daniel;
Conteduca, Vincenza;
Franceschini, Gian Marco;
Kleftogiannis, Dimitrios;
Jayaram, Anuradha;
Sandhu, Shahneen;
Wong, Stephen Q.;
Benelli, Matteo;
Salvi, Samanta;
Gurioli, Giorgia;
Feber, Andrew;
Buongermino Pereira, Mariana;
Wingate, Anna Maria;
Gonzalez-Billalebeitia, Enrique;
De Giorgi, Ugo;
Demichelis, Francesca;
Lise, Stefano;
Attard, Gerhardt

Publication type:

journal article

A Phase II trial of alternating osimertinib and gefitinib therapy in advanced EGFR-T790M positive non-small cell lung cancer: OSCILLATE.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-46008-1

By:

Tan, Lavinia;
Brown, Chris;
Mersiades, Antony;
Lee, Chee Khoon;
John, Thomas;
Kao, Steven;
Newnham, Genni;
O’Byrne, Kenneth;
Parakh, Sagun;
Bray, Victoria;
Jasas, Kevin;
Yip, Sonia;
Wong, Stephen Q.;
Ftouni, Sarah;
Guinto, Jerick;
Chandrashekar, Sushma;
Clarke, Stephen;
Pavlakis, Nick;
Stockler, Martin R.;
Dawson, Sarah-Jane

Publication type:

Article

Copy number architectures define treatment-mediated selection of lethal prostate cancer clones.

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-40315-9

By:

Hasan, A. M. Mahedi;
Cremaschi, Paolo;
Wetterskog, Daniel;
Jayaram, Anuradha;
Wong, Stephen Q.;
Williams, Scott;
Pasam, Anupama;
Trigos, Anna;
Trujillo, Blanca;
Grist, Emily;
Friedrich, Stefanie;
Vainauskas, Osvaldas;
Parry, Marina;
Ismail, Mazlina;
Devlies, Wout;
Wingate, Anna;
Linch, Mark;
Naceur-Lombardelli, Cristina;
PEACE consortium;
Zaccaria, Simone

Publication type:

Article

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

Published in:

Genome Biology, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s13059-021-02401-3

By:

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

Publication type:

Article

Multi-omics evaluation of peritoneal fluid in gastroesophageal cancer (OMEGCA): protocol for a prospective multicentre cohort study to detect occult peritoneal metastases in patients undergoing curative-intent treatment.

Published in:

PLoS ONE, 2025, v. 20, n. 4, p. 1, doi. 10.1371/journal.pone.0318615

By:

Liu, David S.;
Allan, Zexi;
Tie, Jeanne;
Hall, Katheryn;
Lee, Margaret M.;
Wong, Darren J.;
Wong, Stephen Q.;
Tebbutt, Niall C.;
Watson, David I.;
Trochsler, Markus;
Mori, Krinal;
Winter, Nicole;
Martin, Sarah;
Ooi, Geraldine;
Al-Habbal, Yahya;
Ma, Ronald;
Clemons, Nicholas J.

Publication type:

Article

MethPat: a tool for the analysis and visualisation of complex methylation patterns obtained by massively parallel sequencing.

Published in:

BMC Bioinformatics, 2016, v. 17, p. 1, doi. 10.1186/s12859-016-0950-8

By:

Wong, Nicholas C.;
Pope, Bernard J.;
Candiloro, Ida L.;
Korbie, Darren;
Trau, Matt;
Wong, Stephen Q.;
Mikeska, Thomas;
Xinmin Zhang;
Pitman, Mark;
Eggers, Stefanie;
Doyle, Stephen R.;
Dobrovic, Alexander

Publication type:

Article

Differential mechanisms of CDKN2A (p16) alteration in oral tongue squamous cell carcinomas and correlation with patient outcome.

Published in:

International Journal of Cancer, 2014, v. 135, n. 4, p. 887, doi. 10.1002/ijc.28727

By:

Lim, Annette M.;
Do, Hongdo;
Young, Richard J.;
Wong, Stephen Q.;
Angel, Christopher;
Collins, Marnie;
Takano, Elena A.;
Corry, June;
Wiesenfeld, David;
Kleid, Stephen;
Sigston, Elizabeth;
Lyons, Bernard;
Fox, Stephen B.;
Rischin, Danny;
Dobrovic, Alexander;
Solomon, Benjamin

Publication type:

Article

Circulating tumour DNA reflects treatment response and clonal evolution in chronic lymphocytic leukaemia.

Published in:

Nature Communications, 2017, v. 8, n. 3, p. 14756, doi. 10.1038/ncomms14756

By:

Yeh, Paul;
Hunter, Tane;
Sinha, Devbarna;
Ftouni, Sarah;
Wallach, Elise;
Jiang, Damian;
Chan, Yih-Chih;
Wong, Stephen Q.;
Silva, Maria Joao;
Vedururu, Ravikiran;
Doig, Kenneth;
Lam, Enid;
Arnau, Gisela Mir;
Semple, Timothy;
Wall, Meaghan;
Zivanovic, Andjelija;
Agarwal, Rishu;
Petrone, Pasquale;
Jones, Kate;
Westerman, David

Publication type:

Article

Optimizing Amplification of the GC-Rich TERT Promoter Region Using 7-Deaza-dGTP for Droplet Digital PCR Quantification of TERT Promoter Mutations.

Published in:

Clinical Chemistry, 2018, v. 64, n. 4, p. 745, doi. 10.1373/clinchem.2017.284257

By:

Colebatch, Andrew J.;
Witkowski, Tom;
Waring, Paul M.;
McArthur, Grant A.;
Wong, Stephen Q.;
Dobrovic, Alexander

Publication type:

Article

Reducing Sequence Artifacts in Amplicon-Based Massively Parallel Sequencing of Formalin-Fixed Paraffin-Embedded DNA by Enzymatic Depletion of Uracil-Containing Templates.

Published in:

Clinical Chemistry, 2013, v. 59, n. 9, p. 1376, doi. 10.1373/clinchem.2012.202390

By:

Hongdo Do;
Wong, Stephen Q.;
Jason Li;
Dobrovic, Alexander

Publication type:

Article

Copy number analysis by low coverage whole genome sequencing using ultra low-input DNA from formalin-fixed paraffin embedded tumor tissue.

Published in:

Genome Medicine, 2016, v. 8, p. 1, doi. 10.1186/s13073-016-0375-z

By:

Kader, Tanjina;
Goode, David L.;
Wong, Stephen Q.;
Connaughton, Jacquie;
Rowley, Simone M.;
Devereux, Lisa;
Byrne, David;
Fox, Stephen B.;
Arnau, Gisela Mir;
Tothill, Richard W.;
Campbell, Ian G.;
Gorringe, Kylie L.

Publication type:

Article

Appraisal of the technologies and review of the genomic landscape of ductal carcinoma in situ of the breast.

Published in:

Breast Cancer Research, 2015, v. 17, n. 1, p. 1, doi. 10.1186/s13058-015-0586-z

By:

Pang, Jia-Min B.;
Gorringe, Kylie L.;
Wong, Stephen Q.;
Dobrovic, Alexander;
Campbell, Ian G.;
Fox, Stephen B.

Publication type:

Article

Appraisal of the technologies and review of the genomic landscape of ductal carcinoma in situ of the breast.

Published in:

2015

By:

Pang, Jia-Min B;
Gorringe, Kylie L;
Wong, Stephen Q;
Dobrovic, Alexander;
Campbell, Ian G;
Fox, Stephen B

Publication type:

journal article

A high-throughput protocol for mutation scanning of the BRCA1 and BRCA2 genes.

Published in:

BMC Cancer, 2011, v. 11, n. 1, p. 265, doi. 10.1186/1471-2407-11-265

By:

Hondow, Heather L.;
Fox, Stephen B.;
Mitchell, Gillian;
Scott, Rodney J.;
Beshay, Victoria;
Wong, Stephen Q.;
Investigators, kConFab;
Dobrovic, Alexander

Publication type:

Article

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

Published in:

Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-83436-1

By:

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

Publication type:

Article

Health Economic Evidence and Modeling Challenges for Liquid Biopsy Assays in Cancer Management: A Systematic Literature Review.

Published in:

PharmacoEconomics, 2023, v. 41, n. 10, p. 1229, doi. 10.1007/s40273-023-01292-5

By:

Fagery, Mussab;
Khorshidi, Hadi A.;
Wong, Stephen Q.;
Vu, Martin;
IJzerman, Maarten

Publication type:

Article

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

Published in:

Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-21576-8

By:

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

Publication type:

Article

Bioinformatics Pipelines for Targeted Resequencing and Whole-Exome Sequencing of Human and Mouse Genomes: A Virtual Appliance Approach for Instant Deployment.

Published in:

PLoS ONE, 2014, v. 9, n. 4, p. 1, doi. 10.1371/journal.pone.0095217

By:

Li, Jason;
Doyle, Maria A.;
Saeed, Isaam;
Wong, Stephen Q.;
Mar, Victoria;
Goode, David L.;
Caramia, Franco;
Doig, Ken;
Ryland, Georgina L.;
Thompson, Ella R.;
Hunter, Sally M.;
Halgamuge, Saman K.;
Ellul, Jason;
Dobrovic, Alexander;
Campbell, Ian G.;
Papenfuss, Anthony T.;
McArthur, Grant A.;
Tothill, Richard W.

Publication type:

Article

Integrating Multi-Cancer Early Detection (MCED) Tests with Standard Cancer Screening: System Dynamics Model Development and Feasibility Testing: System Dynamics Modelling for Integrating MCED Tests with Standard Screening: M. Fagery et al.

Published in:

PharmacoEconomics - Open, 2025, v. 9, n. 1, p. 147, doi. 10.1007/s41669-024-00533-3

By:

Fagery, Mussab;
Khorshidi, Hadi A.;
Wong, Stephen Q.;
Karanfil, Özge;
Emery, Jon;
IJzerman, Maarten J.

Publication type:

Article

Plasma ctDNA enables early detection of temozolomide resistance mutations in glioma.

Published in:

Neuro-Oncology Advances, 2024, v. 6, n. 1, p. 1, doi. 10.1093/noajnl/vdae041

By:

Jones, Jordan J;
Jones, Kate L;
Wong, Stephen Q;
Whittle, James;
Goode, David;
Nguyen, Hong;
Iaria, Josie;
Stylli, Stan;
Towner, James;
Pieters, Thomas;
Gaillard, Frank;
Kaye, Andrew H;
Drummond, Kate J;
Morokoff, Andrew P

Publication type:

Article

Plasma ctDNA liquid biopsy of IDH1, TERTp, and EGFRvIII mutations in glioma.

Published in:

Neuro-Oncology Advances, 2024, v. 6, n. 1, p. 1, doi. 10.1093/noajnl/vdae027

By:

Jones, Jordan J;
Nguyen, Hong;
Wong, Stephen Q;
Whittle, James;
Iaria, Josie;
Stylli, Stanley;
Towner, James;
Pieters, Thomas;
Gaillard, Frank;
Kaye, Andrew H;
Drummond, Katharine J;
Morokoff, Andrew P

Publication type:

Article

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

Published in:

2021

By:

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

Publication type:

Correction Notice

Multiplexed transcriptome analysis to detect ALK, ROS1 and RET rearrangements in lung cancer.

Published in:

Scientific Reports, 2017, p. 42259, doi. 10.1038/srep42259

By:

Rogers, Toni-Maree;
Arnau, Gisela Mir;
Ryland, Georgina L.;
Huang, Stephen;
Lira, Maruja E.;
Emmanuel, Yvette;
Perez, Omar D.;
Irwin, Darryl;
Fellowes, Andrew P.;
Wong, Stephen Q.;
Fox, Stephen B.

Publication type:

Article

The landscape of cell-free mitochondrial DNA in liquid biopsy for cancer detection.

Published in:

Genome Biology, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s13059-023-03074-w

By:

van der Pol, Ymke;
Moldovan, Norbert;
Ramaker, Jip;
Bootsma, Sanne;
Lenos, Kristiaan J.;
Vermeulen, Louis;
Sandhu, Shahneen;
Bahce, Idris;
Pegtel, D. Michiel;
Wong, Stephen Q.;
Dawson, Sarah-Jane;
Chandrananda, Dineika;
Mouliere, Florent

Publication type:

Article

Sequence artefacts in a prospective series of formalin-fixed tumours tested for mutations in hotspot regions by massively parallel sequencing.

Published in:

BMC Medical Genomics, 2014, v. 7, n. 1, p. 1, doi. 10.1186/1755-8794-7-23

By:

Wong, Stephen Q.;
Li, Jason;
Tan, Angela Y-C.;
Vedururu, Ravikiran;
Pang, Jia-Min B.;
Hongdo Do;
Ellul, Jason;
Doig, Ken;
Bell, Anthony;
MacArthur, Grant A.;
Fox, Stephen B.;
Thomas, David M.;
Fellowes, Andrew;
Parisot, John P.;
Dobrovic, Alexander

Publication type:

Article