By Professor David Thomas

Journal articles

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.', Journal of Clinical Oncology, 38, pp. 1541 - 1541, http://dx.doi.org/10.1200/jco.2020.38.15_suppl.1541

Butow P; Butow P; Davies G; Napier CE; Schlub T; Best MC; Bartley N; Juraskova I; Meiser B; Ballinger ML; Biesecker B; Goldstein D; Thomas DM, 2020, 'Assessment of the Value of Tumor Variation Profiling Perceived by Patients with Cancer', JAMA Network Open, 3, pp. e204721, http://dx.doi.org/10.1001/jamanetworkopen.2020.4721

Mirabello L; Zhu B; Koster R; Karlins E; Dean M; Yeager M; Gianferante M; Spector LG; Morton LM; Karyadi D; Robison LL; Armstrong GT; Bhatia S; Song L; Pankratz N; Pinheiro M; Gastier-Foster JM; Gorlick R; De Toledo SRC; Petrilli AS; Patino-Garcia A; Lecanda F; Gutierrez-Jimeno M; Serra M; Hattinger C; Picci P; Scotlandi K; Flanagan AM; Tirabosco R; Amary MF; Kurucu N; Ilhan IE; Ballinger ML; Thomas DM; Barkauskas DA; Mejia-Baltodano G; Valverde P; Hicks BD; Wang M; Hutchinson AA; Tucker M; Sampson J; Landi MT; Freedman ND; Gapstur S; Carter B; Hoover RN; Chanock SJ; Savage SA, 2020, 'Frequency of Pathogenic Germline Variants in Cancer-Susceptibility Genes in Patients with Osteosarcoma', JAMA Oncology, 6, pp. 724 - 734, http://dx.doi.org/10.1001/jamaoncol.2020.0197

Cipponi A; Goode DL; Bedo J; McCabe MJ; Pajic M; Croucher DR; Rajal AG; Junankar SR; Saunders DN; Lobachevsky P; Papenfuss AT; Nessem D; Nobis M; Warren SC; Timpson P; Cowley M; Vargas AC; Qiu MR; Generali DG; Keerthikumar S; Nguyen U; Corcoran NM; Long GV; Blay J-Y; Thomas DM; McCabe M, 2020, 'MTOR signaling orchestrates stress-induced mutagenesis, facilitating adaptive evolution in cancer', Science

Best MC; Butow P; Jacobs C; Savard J; Biesecker B; Ballinger ML; Bartley N; Davies G; Napier CE; Smit AK; Thomas DM; Newson AJ, 2020, 'Who should access germline genome sequencing? A mixed methods study of patient views', Clinical Genetics, 97, pp. 329 - 337, http://dx.doi.org/10.1111/cge.13664

Shin SJ; Dodd-Eaton EB; Peng G; Bojadzieva J; Chen J; Amos CI; Frone MN; Khincha PP; Mai PL; Savage SA; Ballinger ML; Thomas DM; Yuan Y; Strong LC; Wang W, 2020, 'Penetrance of different cancer types in families with Li-Fraumeni syndrome: A validation study using multicenter cohorts', Cancer Research, 80, pp. 354 - 360, http://dx.doi.org/10.1158/0008-5472.CAN-19-0728

Dancsok AR; Gao D; Lee AF; Steigen SE; Blay JY; Thomas DM; Maki RG; Nielsen TO; Demicco EG, 2020, 'Tumor-associated macrophages and macrophage-related immune checkpoint expression in sarcomas', Oncoimmunology, 9, pp. 1747340, http://dx.doi.org/10.1080/2162402X.2020.1747340

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

Ballinger ML; Thomas D, 2020, 'Heritable cancer risk in the genomic era', Pathology, 52, pp. S28 - S29, http://dx.doi.org/10.1016/j.pathol.2020.01.118

Heyer EE; Deveson IW; Wooi D; Selinger CI; Lyons RJ; Hayes VM; O’Toole SA; Ballinger ML; Gill D; Thomas DM; Mercer TR; Blackburn J; O'Toole S, 2019, 'Diagnosis of fusion genes using targeted RNA sequencing', Nature Communications, 10, pp. 1388, http://dx.doi.org/10.1038/s41467-019-09374-9

Dancsok AR; Setsu N; Gao D; Blay JY; Thomas D; Maki RG; Nielsen TO; Demicco EG, 2019, 'Expression of lymphocyte immunoregulatory biomarkers in bone and soft-tissue sarcomas', Modern Pathology, 32, pp. 1772 - 1785, http://dx.doi.org/10.1038/s41379-019-0312-y

Kansara M; Thomson K; Pang P; Dutour A; Mirabello L; Acher F; Pin JP; Demicco EG; Yan J; Teng MWL; Smyth MJ; Thomas DM, 2019, 'Infiltrating myeloid cells drive osteosarcoma progression via GRM4 regulation of IL23', Cancer Discovery, 9, pp. 1511 - 1519, http://dx.doi.org/10.1158/2159-8290.CD-19-0154

Tap WD; Gelderblom H; Palmerini E; Desai J; Bauer S; Blay JY; Alcindor T; Ganjoo K; Martín-Broto J; Ryan CW; Thomas DM; Peterfy C; Healey JH; van de Sande M; Gelhorn HL; Shuster DE; Wang Q; Yver A; Hsu HH; Lin PS; Tong-Starksen S; Stacchiotti S; Wagner AJ, 2019, 'Pexidartinib versus placebo for advanced tenosynovial giant cell tumour (ENLIVEN): a randomised phase 3 trial', Lancet, 394, pp. 478 - 487, http://dx.doi.org/10.1016/S0140-6736(19)30764-0

Best MC; Bartley N; Jacobs C; Juraskova I; Goldstein D; Newson AJ; Savard J; Meiser B; Ballinger M; Napier C; Thomas D; Biesecker B; Butow P; Tucker K; Schlub T; Vines R; Vines K; Kirk J; Young MA, 2019, 'Patient perspectives on molecular tumor profiling: "why wouldn't you?"', BMC Cancer, 19, pp. 753, http://dx.doi.org/10.1186/s12885-019-5920-x

Fortuno C; Cipponi A; Ballinger ML; Tavtigian SV; Olivier M; Ruparel V; Haupt Y; Haupt S; Study ISK; Tucker K; Spurdle AB; Thomas DM; James PA, 2019, 'A quantitative model to predict pathogenicity of missense variants in the TP53 gene', Human Mutation, 40, pp. 788 - 800, http://dx.doi.org/10.1002/humu.23739

Thavaneswaran S; Rath E; Tucker K; Joshua AM; Hess D; Pinese M; Ballinger ML; Thomas DM, 2019, 'Author Correction: Therapeutic implications of germline genetic findings in cancer (Nature Reviews Clinical Oncology, (2019), 16, 6, (386-396), 10.1038/s41571-019-0179-3)', Nature Reviews Clinical Oncology, 16, pp. 397, http://dx.doi.org/10.1038/s41571-019-0212-6

Thavaneswaran S; Rath E; Tucker K; Joshua AM; Hess D; Pinese M; Ballinger ML; Thomas DM, 2019, 'Therapeutic implications of germline genetic findings in cancer', Nature Reviews Clinical Oncology, 16, pp. 386 - 396, http://dx.doi.org/10.1038/s41571-019-0179-3

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.', Journal of Clinical Oncology, 37, pp. 10521 - 10521, http://dx.doi.org/10.1200/jco.2019.37.15_suppl.10521

Jones RM; Melton PE; Pinese M; Rea AJ; Ingley E; Ballinger ML; Wood DJ; Thomas DM; Moses EK, 2019, 'Identification of novel sarcoma risk genes using a two-stage genome wide DNA sequencing strategy in cancer cluster families and population case and control cohorts', BMC Medical Genetics, 20, http://dx.doi.org/10.1186/s12881-019-0808-9

Vargas AC; Selinger C; Satgunaseelan L; Cooper WA; Gupta R; Stalley P; Brown W; Soper J; Schatz J; Boyle R; Thomas DM; Tattersall MHN; Bhadri V; Maclean F; Bonar SF; Scolyer RA; Karim RZ; McCarthy SW; Mahar A; O'Toole SA, 2019, 'FISH analysis of selected soft tissue tumors: Diagnostic experience in a tertiary center', Asia Pacific Journal of Clinical Oncology, 15, pp. 38 - 47, http://dx.doi.org/10.1111/ajco.12980

Lacaze P; Pinese M; Kaplan W; Stone A; Brion MJ; Woods RL; McNamara M; McNeil JJ; Dinger ME; Thomas DM, 2019, 'The Medical Genome Reference Bank: a whole-genome data resource of 4000 healthy elderly individuals. Rationale and cohort design', European Journal of Human Genetics, 27, pp. 308 - 316, http://dx.doi.org/10.1038/s41431-018-0279-z

McCabe MJ; Pinese M; Chan CL; Sheriff N; Thompson TJ; Grady J; Wong M; Gauthier MEA; Puttick C; Gayevskiy V; Hajdu E; Wong SQ; Barrett W; Earls P; Lukeis R; Cheng YY; Lin RCY; Thomas DM; Watkins DN; Dinger ME; McCormack AI; Cowley MJ; Wong-Erasmus M, 2019, 'Genomic stratification and liquid biopsy in a rare adrenocortical carcinoma (ACC) case, with dual lung metastases', Cold Spring Harbor Molecular Case Studies, 5, pp. a003764, http://dx.doi.org/10.1101/mcs.a003764

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

Lim LE; Chan DL; Thomas D; Wyld DK; Cehic G; Macdonald W; Du YT; Tincknell G; Kuchel A; Pavlakis N; Bailey D; Davis A; Segelov E, 2019, 'An Australian multi-centre experience of the use of peptide receptor radionuclide therapy for bronchial carcinoid tumours', Annals of Oncology, 30, pp. v572 - v572, http://dx.doi.org/10.1093/annonc/mdz256.021

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', bioRxiv, pp. 473348, http://dx.doi.org/10.1101/473348

Liu Z; Martin J; Orme L; Seddon B; Desai J; Nicholls W; Thomson D; Porter D; McCowage G; Underhill C; Cranswick N; Michael M; Zacharin M; Herschtal A; Sivasuthan J; Thomas DM, 2018, 'Gender differences in doxorubicin pharmacology for subjects with chemosensitive cancers of young adulthood', Cancer Chemotherapy and Pharmacology, 82, pp. 887 - 898, http://dx.doi.org/10.1007/s00280-018-3683-8

Woodcock F; Doble B; Fox SB; Collins I; Hayes T; Singh M; Richardson G; Lipton L; Moon SY; Lucas M; Fellowes A; Xu H; Thorne H; McNeil JJ; Lorgelly P; Thomas DM; James PA; John T; Risbridger G; Wright G; Snyder R, 2018, 'Mapping the EORTC-QLQ-C30 to the EQ-5D-3L: An Assessment of Existing and Newly Developed Algorithms', Medical Decision Making, 38, pp. 954 - 967, http://dx.doi.org/10.1177/0272989X18797588

Thavaneswaran S; Sebastian L; Ballinger M; Best M; Hess D; Lee CK; Sjoquist KM; Hague WE; Butow PN; Simes RJ; Thomas D, 2018, 'Cancer Molecular Screening and Therapeutics (MoST): A framework for multiple, parallel signal-seeking studies of targeted therapies for rare and neglected cancers', Medical Journal of Australia, 209, pp. 354 - 354.e6, http://dx.doi.org/10.5694/MJA18.00227

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

Walczak A; Patterson P; Thomas D, 2018, 'Trials and tribulations: improving outcomes for adolescents and young adults with rare and low survival cancers', Medical Journal of Australia, 209, pp. 330 - 332.e1, http://dx.doi.org/10.5694/MJA17.00976

Willis AM; Smith SK; Meiser B; Ballinger ML; Thomas DM; Tattersall M; Young MA, 2018, 'Development and Pilot Testing of a Decision Aid for Genomic Research Participants Notified of Clinically Actionable Research Findings for Cancer Risk', Journal of Genetic Counseling, 27, pp. 1055 - 1066, http://dx.doi.org/10.1007/s10897-018-0223-y

Chan EKF; Cameron DL; Petersen DC; Lyons RJ; Baldi BF; Papenfuss AT; Thomas DM; Hayes VM, 2018, 'Optical mapping reveals a higher level of genomic architecture of chained fusions in cancer', Genome Research, 28, pp. 726 - 738, http://dx.doi.org/10.1101/gr.227975.117

Best M; Newson AJ; Meiser B; Juraskova I; Goldstein D; Tucker K; Ballinger ML; Hess D; Schlub TE; Biesecker B; Vines R; Vines K; Thomas D; Young MA; Savard J; Jacobs C; Butow P, 2018, 'The PiGeOn project: Protocol of a longitudinal study examining psychosocial and ethical issues and outcomes in germline genomic sequencing for cancer', BMC Cancer, 18, pp. 389, http://dx.doi.org/10.1186/s12885-018-4366-x

Koster R; Panagiotou OA; Wheeler WA; Karlins E; Gastier-Foster JM; Caminada de Toledo SR; Petrilli AS; Flanagan AM; Tirabosco R; Andrulis IL; Wunder JS; Gokgoz N; Patiño-Garcia A; Lecanda F; Serra M; Hattinger C; Picci P; Scotlandi K; Thomas DM; Ballinger ML; Gorlick R; Barkauskas DA; Spector LG; Tucker M; Belynda DH; Yeager M; Hoover RN; Wacholder S; Chanock SJ; Savage SA; Mirabello L, 2018, 'Genome-wide association study identifies the GLDC/IL33 locus associated with survival of osteosarcoma patients', International Journal of Cancer, 142, pp. 1594 - 1601, http://dx.doi.org/10.1002/ijc.31195

Gounder MM; Thomas DM; Tap WD, 2018, 'Locally aggressive connective tissue tumors', Journal of Clinical Oncology, 36, pp. 202 - 209, http://dx.doi.org/10.1200/JCO.2017.75.8482

Rasmussen V; Forrest LE; Rogasik M; Girodet M; Meeus P; Sunyach MP; Blay JY; Bally O; Brahmi M; Ballinger ML; Niedermayr E; Thomas DM; Halliday J; James P; Ray-Coquard I; Young MA, 2018, 'A comparison of Australian and French families affected by sarcoma: Perceptions of genetics and incidental findings', Personalized Medicine, 15, pp. 13 - 24, http://dx.doi.org/10.2217/pme-2017-0035

Stacchiotti S; Blay J-Y; Jones RL; Demetri GDD; Mir O; Italiano A; Thomas D; Chen TW-W; Schöffski P; Gil T; Jahan T; Cote G; Ratan R; Attia S; Roche M; Daigle S; Sapir I; Clawson A; Gounder M, 2018, 'A phase II, multicenter study of the EZH2 inhibitor tazemetostat in adults (INI1-negative tumors cohort) (NCT02601950)', Annals of Oncology, 29, pp. viii580 - viii580, http://dx.doi.org/10.1093/annonc/mdy299.010

Jones RL; Blay J-Y; Agulnik M; Chugh R; Mir O; Italiano A; Thomas D; Gupta A; Jahan T; Cote G; Villalobos V; Demetri GDD; Roche M; Sapir I; Daigle S; Clawson A; Gounder M, 2018, 'A phase II, multicenter study of the EZH2 inhibitor tazemetostat in adults (rhabdoid tumor cohort) (NCT02601950)', Annals of Oncology, 29, pp. viii580 - viii581, http://dx.doi.org/10.1093/annonc/mdy299.011

Thomas D; Hare B; Cameron I, 2018, 'Using body mapping as part of the risk assessment process - a case study', POLICY AND PRACTICE IN HEALTH AND SAFETY, 16, pp. 224 - 240, http://dx.doi.org/10.1080/14773996.2018.1491146

Ballinger ML; Best A; Mai PL; Khincha PP; Loud JT; Peters JA; Achatz MI; Chojniak R; Balieiro Da Costa A; Santiago KM; Garber J; O'Neill AF; Eeles RA; Evans DG; Bleiker E; Sonke GS; Ruijs M; Loo C; Schiffman J; Naumer A; Kohlmann W; Strong LC; Bojadzieva J; Malkin D; Rednam SP; Stoffel EM; Koeppe E; Weitzel JN; Slavin TP; Nehoray B; Robson M; Walsh M; Manelli L; Villani A; Thomas DM; Savage SA, 2017, 'Baseline surveillance in li-fraumeni syndrome using whole-body magnetic resonance imaging ameta-analysis', JAMA Oncology, 3, pp. 1634 - 1639, http://dx.doi.org/10.1001/jamaoncol.2017.1968

Thomas DM, 2017, 'Is Li–Fraumeni syndrome really much more common?', Human Mutation, 38, pp. 1619, http://dx.doi.org/10.1002/humu.23342

Ballinger ML; Ferris NJ; Moodie K; Mitchell G; Shanley S; James PA; Thomas DM, 2017, 'Surveillance in Germline TP53 Mutation Carriers Utilizing Whole-Body Magnetic Resonance Imaging', JAMA Oncology, 3, pp. 1735 - 1736, http://dx.doi.org/10.1001/jamaoncol.2017.1355

Fleuren EDG; Vlenterie M; Van Der Graaf WTA; Hillebrandt-Roeffen MHS; Blackburn J; Ma X; Chan H; Magias MC; Van Erp A; Van Houdt L; Cebeci SAS; Van De Ven A; Flucke UE; Heyer EE; Thomas DM; Lord CJ; Marini KD; Vaghjiani V; Mercer TR; Cain JE; Wu J; Versleijen-Jonkers YMH; Daly RJ, 2017, 'Phosphoproteomic profiling reveals ALK and MET as novel actionable targets across synovial sarcoma subtypes', Cancer Research, 77, pp. 4279 - 4292, http://dx.doi.org/10.1158/0008-5472.CAN-16-2550

Willis AM; Smith SK; Meiser B; Ballinger ML; Thomas DM; Young MA, 2017, 'Sociodemographic, psychosocial and clinical factors associated with uptake of genetic counselling for hereditary cancer: a systematic review', Clinical Genetics, 92, pp. 121 - 133, http://dx.doi.org/10.1111/cge.12868

McBride KA; Ballinger ML; Schlub TE; Young MA; Tattersall MHN; Kirk J; Eeles R; Killick E; Walker LG; Shanley S; Thomas DM; Mitchell G, 2017, 'Psychosocial morbidity in TP53 mutation carriers: is whole-body cancer screening beneficial?', Familial Cancer, 16, pp. 423 - 432, http://dx.doi.org/10.1007/s10689-016-9964-7

Leung DH; Heltshe SL; Borowitz D; Gelfond D; Kloster M; Heubi JE; Stalvey M; Ramsey BW; Stecenko A; Schechter M; Hunter E; Hoover W; Hathorne H; Brand K; Filbrun A; Linn M; Borowitz D; Caci N; McWilliams B; Brazil I; Bushman M; McColley S; Bowen A; McCoy K; Sakellaris K; Sharma P; Cannon C; Hebert A; Sagel S; Anthony M; Dyson M; Urbanek H; Millard S; Gile C; Graff G; Allwein L; Hiatt P; Schaap N; Krupp N; Bendy L; Ahrens R; Teresi M; Berlinski A; Ramsey LL; McNamara J; Johnson M; Brown R; Berry P; Mehdi N; Royall J; Thomas D; Rubenstein R; Donnelly E; Weiner D; Hurban S; Hartigan E; Powers M; Simmons K; Chatfield B; Oldroyd H; Hoffman L; McNamara S; Wooldridge J; Cooper A; Faro A; Rodgers D; Fortner C; Suttmore V; Hocevar-Trnka J; Skalland M; Fowler A, 2017, 'Effects of diagnosis by newborn screening for cystic fibrosis on weight and length in the first year of life', JAMA Pediatrics, 171, pp. 546 - 554, http://dx.doi.org/10.1001/jamapediatrics.2017.0206

Peng G; Bojadzieva J; Ballinger ML; Li J; Blackford AL; Mai PL; Savage SA; Thomas DM; Strong LC; Wang W, 2017, 'Estimating TP53 mutation carrier probability in families with li-fraumeni syndrome using LFSPRO', Cancer Epidemiology Biomarkers and Prevention, 26, pp. 837 - 844, http://dx.doi.org/10.1158/1055-9965.EPI-16-0695

Lorgelly PK; Doble B; Rowen D; Brazier J; Thomas DM; Fox SB; Thorne H; Parisot JP; Doig K; Fellowes A; Dobrovic A; James PA; Lipton L; Ashley D; Hayes T; McMurrick P; Richardson G; Lucas M; McNeil JJ; John T, 2017, 'Condition-specific or generic preference-based measures in oncology? A comparison of the EORTC-8D and the EQ-5D-3L', Quality of Life Research, 26, pp. 1163 - 1176, http://dx.doi.org/10.1007/s11136-016-1443-y

Doble B; John T; Thomas D; Fellowes A; Fox S; Lorgelly P, 2017, 'Cost-effectiveness of precision medicine in the fourth-line treatment of metastatic lung adenocarcinoma: An early decision analytic model of multiplex targeted sequencing', Lung Cancer, 107, pp. 22 - 35, http://dx.doi.org/10.1016/j.lungcan.2016.05.024

Thway K; Noujaim J; Thomas DM; Fisher C; Jones RL, 2017, 'Myoepithelial Carcinoma of the Paracecal Mesentery: Aggressive Behavior of a Rare Neoplasm at an Unusual Anatomic Site.', Rare Tumors, 9, pp. 6504, http://dx.doi.org/10.4081/rt.2017.6504

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