By Professor David Thomas

Conference Abstracts

Barahona P; Fletcher J; Fuentes-Bolanos N; Gauthier M-E; Haber M; Lock RB; Marshall GM; Mayoh C; Mould E; Nagabushan S; Norris M; O’Brien T; Sherstyuk A; Thomas D; Trahair T; Tucker K; Warby M; Wong M; Ziegler DS; Tyrrell VJ; Ekert P; Cowley MJ; Lau L; Quang D-AK, 2020, 'Abstract A52: Zero Childhood Cancer (ZERO): A comprehensive precision medicine platform for children with high-risk cancer', in Cancer Research, American Association for Cancer Research (AACR), Vol. 80, pp. A52 - A52, http://dx.doi.org/10.1158/1538-7445.pedca19-a52

Haber M; Cowley MJ; Ekert P; Lau L; Mould E; Gifford A; Lock RB; Marshall GM; Norris MD; O'Brien T; Dong AKQ; Thomas D; Trahair T; Tucker K; Ziegler DS; Tyrrell V, 2020, 'Zero Childhood Cancer: A comprehensive precision medicine platform for children with high-risk cancer in Australia', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, ELECTR NETWORK, Vol. 80, presented at AACR Annual Meeting, ELECTR NETWORK, 22 June 2020 - 24 June 2020, http://dx.doi.org/10.1158/1538-7445.AM2020-SY09-02

Joshua AM; Prawira A; Thavaneswaran S; Cosman R; Lee CK; Sjoquist KM; Simes J; Thomas DM; Espinoza D; Sebastian L; Ballinger ML; Hague W; Chinchen S; Collignon E; Kansara M; Palacios T; Grady J; Barker H; Thornton K, 2020, 'A signal-seeking trial of olaparib and durvalumab in homologous repair-deficient tumors: A sub-study of the cancer molecular screening and therapeutics (MoST) program.', in JOURNAL OF CLINICAL ONCOLOGY, LIPPINCOTT WILLIAMS & WILKINS, ELECTR NETWORK, Vol. 38, presented at Annual Meeting of the American-Society-of-Clinical-Oncology (ASCO), ELECTR NETWORK, 29 May 2020 - 31 May 2020, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000560368301329&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Zaheed M; Tucker K; Ballinger ML; Thomas DM, 2020, 'Genotype and phenotype correlation of common cancer predisposition syndromes in sarcoma cases.', in JOURNAL OF CLINICAL ONCOLOGY, LIPPINCOTT WILLIAMS & WILKINS, ELECTR NETWORK, Vol. 38, presented at Annual Meeting of the American-Society-of-Clinical-Oncology (ASCO), ELECTR NETWORK, 29 May 2020 - 31 May 2020, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000560368301047&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Butow P; Davies G; Napier C; Thomas DM; Bartley N; Goldstein D; Ballinger ML; Juraskova I; Schlub TE; Tucker K; Meiser B; Young M-A, 2020, 'Return of results after somatic tumor mutation profiling in advanced cancer: Psychological impacts.', in JOURNAL OF CLINICAL ONCOLOGY, LIPPINCOTT WILLIAMS & WILKINS, ELECTR NETWORK, Vol. 38, presented at Annual Meeting of the American-Society-of-Clinical-Oncology (ASCO), ELECTR NETWORK, 29 May 2020 - 31 May 2020, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000560368301063&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Fuentes-Bolanos N; Warby M; Barahona P; Sherstyuk A; Cowley M; Ekert P; Kirk J; Khuong-Quang DA; Amit K; Lau L; Mayoh C; Marshall G; Mould E; O'Brien TA; Pinese M; Thomas D; Tyrrell V; Ziegler D; Harber M; Tucker KM, 2019, 'Prevalence and Spectrum of Germline Mutations in Children with High-Risk Cancer', in PEDIATRIC BLOOD & CANCER, WILEY, Vol. 66, pp. S503 - S504, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000488458005160&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Best MC; Davies G; Napier CE; Bartley N; Juraskova I; Meiser B; Ballinger ML; Thomas DM; Schlub TE; Butow P, 2019, 'Exploring knowledge and attitudes in cancer tumour genomic profiling', in ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY, WILEY, Vol. 15, pp. 194 - 195, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000493438400321&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Haber M; Gamble L; Xiao L; Pandher R; Somers K; Murray J; Khan A; Yu D; Franshaw L; Burns MR; Tsoli M; Ehteda A; Cesare A; O'Connor A; Mussai F; de Santo C; Cheng P; Korotchkina L; Gurova K; Tyrrell V; Mould E; Lau L; Dong AKQ; Mayoh C; Arndt G; Barahona P; Failes T; Fletcher J; Fuentes-Bolanos N; Gauthier M-E; Gifford A; Grebert-Wade D; Kamili A; Kumar A; Nagabushan S; O'Brien T; Strong P; Sherstyuk A; Thomas D; Trahair T; Tucker K; Warby M; Wong M; Xie J; Evans K; Lock R; Chernova OB; Henderson M; Gudkov AV; Ekert P; Cowley MJ; Marshall GM; Ziegler DS; Norris MD, 2019, 'Molecular targeted therapies and precision medicine for children with neuroblastoma and other refractory malignancies', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, CANADA, Montreal, Vol. 80, pp. 23 - 24, presented at AACR Special Conference on the Advances in Pediatric Cancer Research, CANADA, Montreal, 17 September 2019 - 20 September 2019, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000551367400013&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Barahona P; Sherstyuk A; Cowley M; Ekert P; Kirk J; Dong-Anh K-Q; Kumar A; Lau L; Mayoh C; Marshall G; Moud E; O'Brien T; Pinese M; Thomas D; Tyrell V; Ziegler D; Haber M; Tucker K; Fuentes-Bolanos NA; Warby M, 2019, 'Prevalence and spectrum of germline mutations in children with high-risk cancer', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, CANADA, Montreal, Vol. 80, pp. 42 - 43, presented at AACR Special Conference on the Advances in Pediatric Cancer Research, CANADA, Montreal, 17 September 2019 - 20 September 2019, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000551367400048&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Barahona P; Fletcher J; Fuentes-Bolanos N; Gauthier M-E; Haber M; Lock RB; Marshall GM; Mayoh C; Mould E; Nagabushan S; Norris M; O'Brien T; Sherstyuk A; Thomas D; Trahair T; Tucker K; Warby M; Wong M; Ziegler DS; Tyrrell VJ; Ekert P; Cowley MJ; Lau L; Quang D-AK, 2019, 'Zero Childhood Cancer (ZERO): A comprehensive precision medicine platform for children with highrisk cancer', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, CANADA, Montreal, Vol. 80, pp. 70 - 71, presented at AACR Special Conference on the Advances in Pediatric Cancer Research, CANADA, Montreal, 17 September 2019 - 20 September 2019, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000551367400096&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Thavaneswaran S; Napier C; Goldstein D; Meiser B; Butow P; Thomas DM; Ballinger ML; Best M, 2019, 'Medical oncologists' experience with returning molecular tumor profiling to patients.', in JOURNAL OF CLINICAL ONCOLOGY, AMER SOC CLINICAL ONCOLOGY, IL, Chicago, Vol. 37, presented at Annual Meeting of the American-Society-of-Clinical-Oncology (ASCO), IL, Chicago, 31 May 2019 - 04 June 2019, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000487345804031&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Thavaneswaran S; Ballinger ML; Grady J; Cowley M; Joshua A; Sebastian L; Collignon E; Silvestri A; Kansara M; Pinese M; Sjoquist KM; Hague W; Lee CK; Simes J; Thomas DM, 2019, 'The Cancer Molecular Screening and Therapeutics Program (MoST): Actionable mutation frequencies in a population with rare and less common cancers.', in JOURNAL OF CLINICAL ONCOLOGY, AMER SOC CLINICAL ONCOLOGY, IL, Chicago, Vol. 37, presented at Annual Meeting of the American-Society-of-Clinical-Oncology (ASCO), IL, Chicago, 31 May 2019 - 04 June 2019, http://dx.doi.org/10.1200/JCO.2019.37.15_suppl.3136

Barnet M; Jackson K; Gao B; Nagrial A; Boyer M; Cooper W; Hui R; Linton A; Tattersall M; Russell A; Gibson G; Cebon J; Long G; Menzies A; Scolyer R; Lacaze P; Brink R; Peters T; Cowley M; Gayevskiy V; Thomas D; Pinese M; Blinman P; Kao S; Goodnow C, 2018, 'Exploring the Germ-Line Contribution to Exceptional Response to PD-1/PD-L1 Inhibition in Patients with NSCLC by Whole Genome Sequencing', in JOURNAL OF THORACIC ONCOLOGY, ELSEVIER SCIENCE INC, Vol. 13, pp. S529 - S529, http://dx.doi.org/10.1016/j.jtho.2018.08.726

Thavaneswaran S; Sebastian L; Ballinger M; Cowley M; Grady J; Joshua A; Lee C; Sjoquist K; Hague W; Simes J; Thomas D, 2018, 'The cancer molecular screening and therapeutics program (MoST): A molecular screening platform with multiple, parallel, signal-seeking therapeutic substudies', in Annals of oncology : official journal of the European Society for Medical Oncology, Vol. 29, pp. viii147, http://dx.doi.org/10.1093/annonc/mdy279.434

Jones RM; Melton PE; Rea A; Ingley E; Ballinger ML; Wood DJ; Thomas DM; Moses EK, 2016, 'Whole Exome Sequencing in Multigenerational Mixed Cancer Families Identifies a Putative Risk Variant in the PDIA2 Gene', in GENETIC EPIDEMIOLOGY, WILEY-BLACKWELL, CANADA, Toronto, Vol. 40, pp. 644 - 644, presented at Annual Meeting of the International-Genetic-Epidemiology-Society, CANADA, Toronto, 24 October 2016 - 26 October 2016, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000386034800102&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Thomas DM, 2015, 'MANAGING SARCOMA FROM A MEDICAL ONCOLOGIST PERSPECTIVE', in Asia-Pacific Journal of Clinical Oncology, WILEY-BLACKWELL, Vol. 11, pp. 75 - 75, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000364320800041&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Chantrill L; Nagrial A; Watson C; Johns A; Martyn-Smith M; Simpson S; Mead S; Jones M; Samra J; Gill A; Watson N; Chin V; Humphris J; Chou A; Brown B; Morey A; Thomas D; Sebastian L; Sjoquist K; Yip S; Pavlakis N; Asghari R; Harvey S; Grimison P; Simes J; Biankin A, 2015, 'Precision medicine for advanced pancreas cancer: the individualised molecular pancreatic cancer therapy (IMPACT) trial', in Asia-Pacific Journal of Clinical Oncology, WILEY-BLACKWELL, Vol. 11, pp. 147 - 148

McBride KA; Young M-A; Schlub TE; Kirk J; Tattersall MHN; Ballinger M; Thomas D; Mitchell G, 2015, 'THE PSYCHOSOCIAL EFFECTS OF A WHOLE BODY MRI SCREENING TRIAL IN SARCOMA PATIENTS WITH A GERMLINE TP53 MUTATION', in Asia-Pacific Journal of Clinical Oncology, WILEY-BLACKWELL, Vol. 11, pp. 178 - 178, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000364320800325&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Thomas D, 2015, 'RANKL and giant cell tumor of bone: the growing problem of benign tumours', in CLINICAL ENDOCRINOLOGY, WILEY, AUSTRALIA, Adelaide, Vol. 84, pp. 3 - 4, presented at Annual Scientific Meeting of the Endocrine-Society-of-Australia, AUSTRALIA, Adelaide, 23 August 2015 - 26 August 2015, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000372310400010&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Peng G; Bojadzieva J; Ballinger ML; Thomas DM; Strong L; Wang W, 2015, 'LFSpro: A risk assessment tool to estimate TP53 mutation status in families with Li-Fraumeni syndrome', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, PA, Philadelphia, Vol. 75, presented at 106th Annual Meeting of the American-Association-for-Cancer-Research (AACR), PA, Philadelphia, 18 April 2015 - 22 April 2015, http://dx.doi.org/10.1158/1538-7445.AM2015-2762

Preprints

Collet L; Telouk P; Albarede F; Girodet M; Maqua C; Rogasik M; Ducimetière F; Tabone-Eglinger S; Brahmi M; Dufresne A; Thomas DM; Ballinger ML; Blay J-Y; Ray-Coquard I, 2023, Connecting the changing metallomic spectrum and survival in sarcoma: a pilot study, http://dx.doi.org/10.21203/rs.3.rs-3291225/v1

Walpole I; Zaman FY; Zhao P; Marshall VM; Lin F; Thomas DM; Shackleton M; Antolin AA; Ameratunga M, 2023, Computational repurposing of oncology drugs through off-target drug binding interactions from pharmacological databases, http://dx.doi.org/10.1101/2023.07.01.547311

Best M; Bartley N; Napier C; Fisher A; Ballinger M; Thomas D; Goldstein D; Tucker K; Biesecker B; Butow P, 2022, Return of comprehensive tumour genomic profiling results to advanced cancer patients: a qualitative study, http://dx.doi.org/10.21203/rs.3.rs-1190781/v1

Thavaneswaran S; Lin F; Kansara M; Grady J; Espinoza D; Joshua A; Grimison P; Craft P; Cosman R; Lee C; Harwood K; Chinchen S; Corpuz T; Ballinger M; Sebastian L; Simes J; Thomas D, 2022, A signal-seeking Phase II trial of Durvalumab and Tremelimumab Focused on Advanced, Rare and Less Common Cancers, http://dx.doi.org/10.1101/2022.06.30.22277092

Jadhao S; Davison C; Roulis EV; Lee S; Lacaze P; Riaz M; McNeil JJ; Thomas DM; Pecheniuk NM; Hyland CA; Flower RL; Nagaraj SH, 2021, Using Whole Genome Sequencing to Characterize Clinically Significant Blood Groups Among Healthy Older Australians, http://dx.doi.org/10.1101/2021.04.18.21255241

Thavaneswaran S; Sebastian L; Kansara M; Ballinger M; Espinoza D; Lin F; Lee C; Sjoquist K; Grady J; Cowley M; Joshua A; Qiu M; Oakes S; Simes J; Thomas D, 2021, A Signal-seeking Phase Iia Trial of Palbociclib in Advanced Cancers With Cell Cycle Pathway Alterations – A Substudy of the Molecular Screening and Therapeutics (Most) Program, http://dx.doi.org/10.21203/rs.3.rs-254137/v1

Kaur S; Sikta N; Schafferhans A; Bordin N; Cowley M; Thomas D; Ballinger M; O’Donoghue S, 2021, Streamlined use of protein structures in variant analysis, http://dx.doi.org/10.1101/2021.09.10.459756

Minoche AE; Lundie B; Peters GB; Ohnesorg T; Pinese M; Thomas DM; Zankl A; Roscioli T; Schonrock N; Kummerfeld S; Burnett L; Dinger ME; Cowley MJ, 2020, ClinSV: Clinical grade structural and copy number variant detection from whole genome sequencing data, http://dx.doi.org/10.1101/2020.06.30.20143453

Lin F; Thavaneswaran S; Grady J; Ballinger M; Kansara M; Oakes S; Desai J; Lee CK; Simes J; Thomas D, 2020, Criteria-based curation of a therapy-focused compendium to support treatment recommendations in precision oncology, http://dx.doi.org/10.1101/2020.12.18.20248521

Shin SJ; Dodd E; Peng G; Bojadzieva J; Chen J; Amos C; Mai PL; Savage SA; Ballinger ML; Thomas DM; Yuan Y; Strong LC; Wang W, 2019, Risk of differential cancer types over age in families with Li-Fraumeni syndrome: a validation study using multi-center cohorts, http://dx.doi.org/10.1101/567727

Puttick C; Kumar K; Davis R; Pinese M; Thomas D; Dinger M; Sue C; Cowley M, 2019, mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data, http://dx.doi.org/10.1101/852210

Pinese M; Lacaze P; Rath E; Stone A; Brion M-J; Ameur A; Nagpal S; Puttick C; Husson S; Degrave D; Navin Cristina T; Silva Kahl V; Statham A; Woods R; McNeil J; Riaz M; Barr M; Nelson M; Reid C; Murray A; Shah R; Wolfe R; Atkins J; Fitzsimmons C; Cairns H; Green M; Carr V; Cowley M; Pickett H; James P; Powell J; Kaplan W; Gibson G; Gyllensten U; Cairns M; McNamara M; Dinger M; Thomas D, 2018, The Medical Genome Reference Bank: Whole genomes and phenotype of 2,570 healthy elderly, http://dx.doi.org/10.1101/473348

Pattnaik S; Vacher C; Lee HC; Kaplan W; Thomas D; Wu J; Pinese M, 2018, Network-aware mutation clustering of cancer, http://dx.doi.org/10.1101/432872

Lacaze P; Pinese M; Kaplan W; Stone A; Brion M-J; Woods RL; McNamara M; McNeil JJ; Dinger ME; Thomas DM, 2018, The Medical Genome Reference Bank: a whole-genome data resource of 4,000 healthy elderly individuals. Rationale and cohort design, http://dx.doi.org/10.1101/274019

Chan EKF; Petersen DC; Lyons RJ; Baldi BF; Papenfuss AT; Thomas DM; Hayes VM, 2017, Whole genome optical mapping reveals multiple fusion events chained by large novel sequences in cancer, http://dx.doi.org/10.1101/166173

Thomas DM; Wood MA, 2016, The Emergence of Negative Superhumps in Cataclysmic Variables: Smoothed Particle Hydrodynamics Simulations, http://dx.doi.org/10.48550/arxiv.1602.06314

Wood MA; Thomas DM; Simpson JC, 2009, SPH Simulations of Negative (Nodal) Superhumps: A Parametric Study, http://dx.doi.org/10.48550/arxiv.0906.2713

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