By Dr Frank Po-Yen Lin

Book Chapters

Gallego B; Concha ÓP; Lin FPY; Coiera EW, 2012, 'Exploring the role of pathology test results in the prediction of remaining days of hospitalisation.', in , pp. 45 - 50

Journal articles

Deng F; Li Y; Yang B; Sang R; Deng W; Kansara M; Lin F; Thavaneswaran S; Thomas DM; Goldys EM, 2024, 'Topological barrier to Cas12a activation by circular DNA nanostructures facilitates autocatalysis and transforms DNA/RNA sensing', Nature Communications, 15, http://dx.doi.org/10.1038/s41467-024-46001-8

Tan E; Lim S; Lamont D; Epstein R; Lim D; Lin FPY, 2024, 'Development and validation of a deep learning model for improving detection of nonmelanoma skin cancers treated with Mohs micrographic surgery', JAAD International, 14, pp. 39 - 47, http://dx.doi.org/10.1016/j.jdin.2023.10.007

Siu DHW; Lin FPY; Cho D; Lord SJ; Heller GZ; Simes RJ; Lee CK, 2024, 'Framework for the Use of External Controls to Evaluate Treatment Outcomes in Precision Oncology Trials.', JCO Precis Oncol, 8, pp. e2300317, http://dx.doi.org/10.1200/PO.23.00317

McNamee N; Lin F; Sim H-W; Napier C; Thomas D; Simes J; Thavaneswaran S, 2023, 'PATH-25. EXPLORING THE PROGNOSTIC IMPLICATIONS OF MOLECULAR ALTERATIONS IN ASTROCYTOMAS USING COMPREHENSIVE GENOMIC PROFILING (CGP)', Neuro-Oncology, 25, pp. v173 - v173, http://dx.doi.org/10.1093/neuonc/noad179.0655

Zeverijn LJ; Looze EJ; Thavaneswaran S; van Berge Henegouwen JM; Simes RJ; Hoes LR; Sjoquist KM; van der Wijngaart H; Sebastian L; Geurts BS; Lee CK; de Wit GF; Espinoza D; Roepman P; Lin FP; Jansen AML; de Leng WWJ; van der Noort V; Leek LVM; de Vos FYFL; van Herpen CML; Gelderblom H; Verheul HMW; Thomas DM; Voest EE, 2023, 'Limited clinical activity of palbociclib and ribociclib monotherapy in advanced cancers with cyclin D-CDK4/6 pathway alterations in the Dutch DRUP and Australian MoST trials', International Journal of Cancer, 153, pp. 1413 - 1422, http://dx.doi.org/10.1002/ijc.34649

Lin FP, 2023, 'Delivering Data-Driven Precision and Equitable Artificial Intelligence Decision Tools in Oncology: Exploring the Informarker Concept', JCO clinical cancer informatics, 7, pp. e2300142, http://dx.doi.org/10.1200/CCI.23.00142

Thavaneswaran S; Kansara M; Lin F; Espinoza D; Grady JP; Lee CK; Ballinger ML; Sebastian L; Corpuz T; Qiu MR; Mundra P; Bailey CG; Schmitz U; Simes J; Joshua AM; Thomas DM, 2023, 'A signal-seeking Phase 2 study of olaparib and durvalumab in advanced solid cancers with homologous recombination repair gene alterations', British Journal of Cancer, 129, pp. 475 - 485, http://dx.doi.org/10.1038/s41416-023-02311-0

Tan E; Lim D; Lin F, 2023, 'Response to Felmingham C. et al's “Improving Skin cancer Management with ARTificial intelligence (SMARTI): A pre-post intervention trial of an artificial intelligence system used as a diagnostic aid for skin cancer management in a real-world specialist dermatology setting”', Journal of the American Academy of Dermatology, 89, pp. e107, http://dx.doi.org/10.1016/j.jaad.2023.03.062

Zeverijn LJ; Looze E; Thavaneswaran S; van Berge Henegouwen JM; Simes J; Hoes LR; Geurts B; Sebastian L; Roepman P; Lin FP-Y; Jansen AML; de Leng WWJ; van der Noort V; Leek LVM; De Vos FYFL; Verheul HMW; Gelderblom H; Thomas DM; Voest EE; Sjoquist KM, 2023, 'Clinical activity of palbociclib and ribociclib monotherapy in advanced cancers with cyclin D-CDK4/6 pathway alterations in the Dutch DRUP and Australian MoST trials.', Journal of Clinical Oncology, 41, pp. 3101 - 3101, http://dx.doi.org/10.1200/jco.2023.41.16_suppl.3101

Kansara M; Lin FP-Y; Thavaneswaran S; Napier CE; Grady JP; Ballinger ML; Simes J; Thomas DM, 2023, 'Genomic alterations associated with response to immune checkpoint inhibitors in rare cancers: A biomarker exploration study from the Australian Molecular Screening and Therapeutics (MoST) Program.', Journal of Clinical Oncology, 41, pp. 2594 - 2594, http://dx.doi.org/10.1200/jco.2023.41.16_suppl.2594

Thavaneswaran S; Lin FP-Y; Napier CE; Grady JP; Ballinger ML; Kansara M; Grimison PS; Pavlakis N; Wong MK; Sjoquist KM; Goldstein D; Chantrill LA; Simes J; Thomas DM, 2023, 'Genomic targetability and survival outcomes of biliary tract cancers (BTC): A retrospective cohort study of the Australian Molecular Screening and Therapeutics (MoST) program.', Journal of Clinical Oncology, 41, pp. 4093 - 4093, http://dx.doi.org/10.1200/jco.2023.41.16_suppl.4093

Lin FP-Y; Thavaneswaran S; Napier CE; Grady JP; Kansara M; Sebastian L; Kee D; Zaheed M; Millward M; Brown MP; Charakidis M; Craft PS; Grimison PS; Harrup RA; O'Byrne KJ; Desai J; Lee CK; Ballinger ML; Simes J; Thomas DM, 2023, 'Genomic therapy matching in rare and refractory cancers: Updated results from a retrospective cohort study in the Molecular Screening and Therapeutic (MoST) program.', Journal of Clinical Oncology, 41, pp. 1540 - 1540, http://dx.doi.org/10.1200/jco.2023.41.16_suppl.1540

Lin FP-Y; Joshua AM; Epstein RJ, 2023, 'Machine learning prediction of patient-reported outcomes associated with systemic therapy from medical records.', Journal of Clinical Oncology, 41, pp. e13564 - e13564, http://dx.doi.org/10.1200/jco.2023.41.16_suppl.e13564

Kee D; Lin FP-Y; Thavaneswaran S; Napier CE; Harrison ML; Beale PJ; Lynch J; Davis AJ; Ananda S; Lombard JM; Friedlander M; Kansara M; Sebastian L; Lee CK; Ballinger ML; Simes J; Thomas DM, 2023, 'Molecular tumor profiling and therapy selection in advanced gynecological cancers: A retrospective cohort analysis from the Australian Molecular Screening and Therapeutics (MoST) Program.', Journal of Clinical Oncology, 41, pp. 5526 - 5526, http://dx.doi.org/10.1200/jco.2023.41.16_suppl.5526

Thavaneswaran S; Mersiades A; Lin FP-Y; Espinoza D; Grady JP; Lee CK; Desai J; Brown MP; Grimison PS; O'Byrne KJ; Harrup RA; Nagrial A; Sebastian L; Chinchen S; Kansara M; Craft PS; Millward M; Simes J; Joshua AM; Thomas DM, 2023, 'Trastuzumab emtansine (T-DM1) in advanced cancers with HER2 mutations or amplification: Results from the Molecular Screening and Therapeutics (MoST) Program substudy.', Journal of Clinical Oncology, 41, pp. 3127 - 3127, http://dx.doi.org/10.1200/jco.2023.41.16_suppl.3127

Yam AO; Bailey J; Lin F; Jakovija A; Youlten SE; Counoupas C; Gunzer M; Bald T; Woodruff TM; Triccas JA; Goldstein LD; Gallego-Ortega D; Grey ST; Chtanova T, 2023, 'Neutrophil Conversion to a Tumor-Killing Phenotype Underpins Effective Microbial Therapy', Cancer Research, 83, pp. 1315 - 1328, http://dx.doi.org/10.1158/0008-5472.CAN-21-4025

Epstein RJ; Lin FPY; Brink RA; Blackburn J, 2023, 'Synonymous alterations of cancer-associated Trp53 CpG mutational hotspots cause fatal developmental jaw malocclusions but no tumors in knock-in mice', PLoS ONE, 18, http://dx.doi.org/10.1371/journal.pone.0284327

Kansara M; Bhardwaj N; Thavaneswaran S; Xu C; Lee JK; Chang LB; Madison RW; Lin F; Hsu E; Patel VK; Aleshin A; Oxnard GR; Simes J; Nimeiri H; Thomas DM, 2023, 'Early circulating tumor DNA dynamics as a pan-tumor biomarker for long-term clinical outcome in patients treated with durvalumab and tremelimumab', Molecular Oncology, 17, pp. 298 - 311, http://dx.doi.org/10.1002/1878-0261.13349

Tan E; Tran M; Rademaker M; Lin FPY, 2023, 'Bridging AI development with clinical relevance—A scoping review of skin cancer models since CLEAR Derm. Where to next?', Australasian Journal of Dermatology, http://dx.doi.org/10.1111/ajd.14207

Epstein RJ; Gu Y; Lin FPY, 2023, 'Can cancer go green? It’s up to us', Frontiers in Oncology, 13, http://dx.doi.org/10.3389/fonc.2023.1074091

Po-Yen Lin F; Salih OSM; Scott N; Jameson MB; Epstein RJ, 2022, 'Development and Validation of a Machine Learning Approach Leveraging Real-World Clinical Narratives as a Predictor of Survival in Advanced Cancer', JCO clinical cancer informatics, 6, pp. e2200064, http://dx.doi.org/10.1200/CCI.22.00064

Bartonicek N; Rouet R; Warren J; Loetsch C; Rodriguez GS; Walters S; Lin F; Zahra D; Blackburn J; Hammond JM; Reis ALM; Deveson IW; Zammit N; Zeraati M; Grey S; Christ D; Mattick JS; Chtanova T; Brink R; Dinger ME; Weatheritt RJ; Sprent J; King C, 2022, 'The retroelement Lx9 puts a brake on the immune response to virus infection', Nature, 608, pp. 757 - 765, http://dx.doi.org/10.1038/s41586-022-05054-9

Lin FP; Thavaneswaran S; Grady JP; Ballinger M; Kansara M; Oakes SR; Desai J; Lee CK; Simes J; Thomas DM, 2021, 'Criteria-based curation of a therapy-focused compendium to support treatment recommendations in precision oncology', npj Precision Oncology, 5, pp. 58, http://dx.doi.org/10.1038/s41698-021-00194-z

Thavaneswaran S; Ballinger M; Butow P; Meiser B; Goldstein D; Lin F; Napier C; Thomas D; Best M, 2021, 'The experiences and needs of australian medical oncologists in integrating comprehensive genomic profiling into clinical care: A nation-wide survey', Oncotarget, 12, pp. 2169 - 2176, http://dx.doi.org/10.18632/ONCOTARGET.28076

Gu YF; Lin FP; Epstein RJ, 2021, 'How aging of the global population is changing oncology', ecancermedicalscience, 15, http://dx.doi.org/10.3332/ecancer.2021.ed119

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

Lin FP-Y; Jameson MB; Epstein RJ, 2019, 'Predicting survival in advanced cancers by applying machine learning to clinical narratives.', Journal of Global Oncology, 5, pp. 32 - 32, http://dx.doi.org/10.1200/jgo.2019.5.suppl.32

Lin FP; Epstein RJ; Groza T; Kocbek S; Antezana E, 2018, 'Cancer care treatment outcome ontology: A novel computable ontology for profiling treatment outcomes in patients with solid tumors', JCO Clinical Cancer Informatics, 2018, pp. 1 - 14, http://dx.doi.org/10.1200/CCI.18.00026

Lin FPY; Pokorny A; Teng C; Epstein RJ, 2017, 'TEPAPA: A novel in silico feature learning pipeline for mining prognostic and associative factors from text-based electronic medical records', Scientific Reports, 7, pp. 6918, http://dx.doi.org/10.1038/s41598-017-07111-0

Epstein RJ; Lin FP, 2017, 'Cancer and the omics revolution', Australian Family Physician, 46, pp. 189 - 193

Lin FPY; Pokorny A; Teng C; Dear R; Epstein RJ, 2016, 'Computational prediction of multidisciplinary team decision-making for adjuvant breast cancer drug therapies: A machine learning approach', BMC Cancer, 16, pp. 929, http://dx.doi.org/10.1186/s12885-016-2972-z

Tan E; Lin F; Sheck L; Salmon P; Ng S, 2016, 'A practical decision-tree model to predict complexity of reconstructive surgery after periocular basal cell carcinoma excision', Journal of the European Academy of Dermatology and Venereology, http://dx.doi.org/10.1111/jdv.14012

Tan E; Lin FPY; Sheck LHN; Salmon PJ; Ng SGJ, 2015, 'Growth of periocular basal cell carcinomas', British Journal of Dermatology, 172, pp. 1002 - 1007, http://dx.doi.org/10.1111/bjd.13470

Tsafnat G; Jasch D; Misra A; Choong MK; Lin FY-P; Coiera E, 2014, 'Gene–disease association with literature based enrichment', Journal of Biomedical Informatics, 49, pp. 221 - 226, http://dx.doi.org/10.1016/j.jbi.2014.03.007

Sheck LHN; Tan E; Lin FPY; Mortimer NJ; Salmon PJ; Ng SGJ, 2013, 'THE IMPACT OF WAITING TIME FOR ELECTIVE SURGERY ON THE GROWTH OF PERIOCULAR BASAL CELL CARCINOMAS', CLINICAL AND EXPERIMENTAL OPHTHALMOLOGY, 41, pp. 22 - 22, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000329507100032&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Polasek TM; Lin FP; Doogue MP, 2011, 'Clinically relevant information on pharmacokinetic drug-drug interactions', Journal of Pharmacy Practice and Research, 41, pp. 77 - 78

Lin FP; Stephen A; Polasek TM; Tsafnat G; Doogue MP, 2011, 'BICEPP: an example-based statistical text mining method for predicting the binary characteristics of drugs', BMC bioinformatics, 12, pp. 112

Lin FP; Sintchenko V; Kong F; Gilbert GL; Coiera E, 2009, 'Commonly used molecular epidemiology markers of Streptococcus agalactiae do not appear to predict virulence', Pathology, 41, pp. 576 - 581

Lin FP; Coiera E; Lan R; Sintchenko V, 2009, 'In silico prioritisation of candidate genes for prokaryotic gene function discovery: an application of phylogenetic profiles.', BMC bioinformatics, 10, pp. 86 - 86, http://dx.doi.org/10.1186/1471-2105-10-86

Conference Papers

Lin FPY; Tan ABT, 2018, 'A Signal-Seeking Text Mining Analysis for Identifying Clinical Factors Associated with Treatment Benefit from Pazopanib or Sunitinib in Metastatic Clear Cell Renal Cell Carcinoma', in ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY, WILEY, pp. 38 - 38, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000437670700033&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Teng C; Shahid N; Lin FPY; Moylan E, 2016, 'FEASIBILITY OF A RESEARCH PROTOCOL FOR STUDYING PATTERNS OF INVESTIGATION AND TREATMENT FOR BONE COMPLICATIONS IN PATIENTS TREATED WITH AROMATASE INHIBITORS FOR EARLY BREAST CANCER', in ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY, WILEY-BLACKWELL, pp. 132 - 132, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000387769900207&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Lin FP; Polasek TM; Stephen A; Tsafnat G; Doogue MP; Anthony S, 2010, 'BICEPP: a computational text mining method for predicting binary characteristics of drugs', in BMC Bioinformatics, Springer Nature, Melbourne, Australia, pp. 40 - 40, presented at ASCEPT Annual Scientific meeting, Melbourne, Australia, 28 November 2010 - 01 December 2010, http://dx.doi.org/10.1186/1471-2105-12-112

Lin FP; Coiera E, 2010, 'A clinical workflow model for facilitating the design and evaluation of computerised clinical decision support systems', in 18th Annual Health Informatics Conference, Health Informatics Society of Australia, Mebourne, pp. 61 - 65, presented at HIC2010: Informing the business of healthcare, Melbourne, 24 August 2010 - 26 August 2010, http://search.informit.com.au/documentSummary;dn=429770463684403;res=IELHEA

Lin FP, 2009, 'Towards Personalised Pharmacotherapy: A Perspective from Biomedical Informatics', in HIC 2009: Proceedings; Frontiers of Health Informatics - Redefining Healthcare, National Convention Centre Canberra, 19-21 August 2009., Informit (RMIT Publishing), Melbourne, Australia, pp. 57 - 62, presented at HIC2009 Frontiers of Health Informatics - Redefining Healthcare, Canberra, 19 August 2009 - 21 August 2009, http://search.informit.com.au/documentSummary;dn=497482681236702;res=IELHSS

Lin FP, 2007, 'The role of data mining in clinical predictive medicine: a narrative review.', in HIC 2006 Bridging the Digital Divide: Clinician, consumer and computer, HIC 2006 Bridging the Digital Divide: Clinician, consumer and computer, Melbourne, pp. 169 - 174, presented at HIC 2006 Bridging the Digital Divide: Clinician, consumer and computer, Melbourne, 31 July 2007 - 02 August 2007, http://training.informit.com.au/documentSummary;dn=951771578616360;res=IELHSS

Conference Posters

Lin FP, 2011, 'Uncovering genes associated with human infections in pathogenic bacteria: a novel integrative analysis linking genome, bibliome, and diseasome', San Francisco, pp. 131, presented at AMIA Translational Bioinformatics Summit, San Francisco, 07 March 2011 - 09 March 2011

Conference Abstracts

Lin FP-Y; Thavaneswaran S; Grady JP; Napier CE; Kansara M; Sebastian L; Kee D; Oakes SR; Blackburn J; Scott HS; Glover A; Fox SB; Goldstein D; Leo P; Amanuel B; Desai J; Lee CK; Ballinger ML; Simes J; Thomas DM, 2022, 'Molecular therapy selection in treatment-refractory advanced cancers: A retrospective cohort study determining the utility of TOPOGRAPH knowledge base.', in Journal of Clinical Oncology, American Society of Clinical Oncology (ASCO), Vol. 40, pp. 3073 - 3073, http://dx.doi.org/10.1200/jco.2022.40.16_suppl.3073

Lin FP; Salih OSM; Epstein RJ, 2018, 'EXPLORATORY ANALYSIS OF CLINICAL PROGNOSTIC FACTORS IN PATIENTS WITH ADVANCED CANCER USING COMPUTATIONAL TEXT MINING OF ROUTINE DIGITISED ONCOLOGY CORRESPONDENCE', in INTERNAL MEDICINE JOURNAL, WILEY, Vol. 48, pp. 8 - 8, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000431995500009&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Lin FP-Y; Martin C; Kocbek S; Joshua AM; Dear RF-G; Lim E; Chantrill LA; Chin VT; Epstein RJ, 2017, 'Identifying determinants of quality of life in patients undergoing systemic therapy for solid tumors.', in JOURNAL OF CLINICAL ONCOLOGY, AMER SOC CLINICAL ONCOLOGY, IL, Chicago, Vol. 35, presented at 53rd Annual Clinical Science Meeting of the American-Society-of-Clinical-Oncology (ASCO) / Symposium on Old Targets, New Drugs - Her2 and MET, IL, Chicago, 02 June 2017 - 07 June 2017, http://dx.doi.org/10.1200/JCO.2017.35.15_suppl.6596

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