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Dr James Blackburn

Dr James Blackburn

Conjoint Senior Lecturer

2004 – PhD Human Molecular Genetics, University of London (Imperial College) - UK 
2000 – BSc (Hons) Genetics, University of Manchester - UK

Medicine & Health
School of Clinical Medicine

Dr Blackburn is Head of the Garvan Genomics Platform, overseeing key responsibilities related to the advancement and delivery of genomic sequencing, single cell and spatial technologies, and flow cytometry services. He has 23 years of extensive first-hand scientific experience and expertise across a broad range of research disciplines – from genomics and transcriptomics to molecular and developmental genetics (including “EvoDevo”). Dr Blackburn has a passion for leading the creation, adaptation and implementation of techniques and tools for both basic (fundamental) and translational research, which have so far resulted in the creation of two research-validated diagnostics for cancer-associated fusion genes, and a novel protocol for improving the precision with which protein-DNA regulatory interactions are identified (ChIP-CapSeq).
Phone
+61 2 9359 8003
E-mail
j.blackburn@garvan.org.au
Location
The Kinghorn Cancer Centre 370 Victoria Street Darlinghurst NSW 2010
  • Book Chapters | 2017
    Kawasaki M; Kawasaki K; Blackburn J; Ohazama A, 2017, 'Molecular Mechanisms Regulating Tooth Number', in Interface Oral Health Science 2016, Springer Singapore, pp. 147 - 162, http://dx.doi.org/10.1007/978-981-10-1560-1_13
  • Journal articles | 2023
    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
    Journal articles | 2023
    Vargas AC; Heyer EE; Cheah AL; Bonar F; Jones M; Maclean FM; Gill AJ; Blackburn J, 2023, 'Improving sarcoma classification by using RNA hybridisation capture sequencing in sarcomas of uncertain histogenesis of young individuals', Pathology, 55, pp. 478 - 485, http://dx.doi.org/10.1016/j.pathol.2022.11.012
    Journal articles | 2023
    Wagner S; Whiteley SL; Castelli M; Patel HR; Deveson IW; Blackburn J; Holleley CE; Marshall Graves JA; Georges A, 2023, 'Gene expression of male pathway genes sox9 and amh during early sex differentiation in a reptile departs from the classical amniote model', BMC Genomics, 24, http://dx.doi.org/10.1186/s12864-023-09334-0
    Journal articles | 2022
    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
    Journal articles | 2022
    Bournazos AM; Riley LG; Bommireddipalli S; Ades L; Akesson LS; Al-Shinnag M; Alexander SI; Archibald AD; Balasubramaniam S; Berman Y; Beshay V; Boggs K; Bojadzieva J; Brown NJ; Bryen SJ; Buckley MF; Chong B; Davis MR; Dawes R; Delatycki M; Donaldson L; Downie L; Edwards C; Edwards M; Engel A; Ewans LJ; Faiz F; Fennell A; Field M; Freckmann ML; Gallacher L; Gear R; Goel H; Goh S; Goodwin L; Hanna B; Harraway J; Higgins M; Ho G; Hopper BK; Horton AE; Hunter MF; Huq AJ; Josephi-Taylor S; Joshi H; Kirk E; Krzesinski E; Kumar KR; Lemckert F; Leventer RJ; Lindsey-Temple SE; Lunke S; Ma A; Macaskill S; Mallawaarachchi A; Marty M; Marum JE; McCarthy HJ; Menezes MP; McLean A; Milnes D; Mohammad S; Mowat D; Niaz A; Palmer EE; Patel C; Patel SG; Phelan D; Pinner JR; Rajagopalan S; Regan M; Rodgers J; Rodrigues M; Roxburgh RH; Sachdev R; Roscioli T; Samarasekera R; Sandaradura SA; Savva E; Schindler T; Shah M; Sinnerbrink IB; Smith JM; Smith RJ; Springer A; Stark Z; Strom SP; Sue CM; Tan K; Tan TY; Tantsis E; Tchan MC; Thompson BA; Trainer AH; van Spaendonck-Zwarts K; Walsh R; Warwick L; White S; White SM; Williams MG, 2022, 'Standardized practices for RNA diagnostics using clinically accessible specimens reclassifies 75% of putative splicing variants', Genetics in Medicine, 24, pp. 130 - 145, http://dx.doi.org/10.1016/j.gim.2021.09.001
    Journal articles | 2021
    Deveson IW; Gong B; Lai K; LoCoco JS; Richmond TA; Schageman J; Zhang Z; Novoradovskaya N; Willey JC; Jones W; Kusko R; Chen G; Madala BS; Blackburn J; Stevanovski I; Bhandari A; Close D; Conroy J; Hubank M; Marella N; Mieczkowski PA; Qiu F; Sebra R; Stetson D; Sun L; Szankasi P; Tan H; Tang LY; Arib H; Best H; Burgher B; Bushel PR; Casey F; Cawley S; Chang CJ; Choi J; Dinis J; Duncan D; Eterovic AK; Feng L; Ghosal A; Giorda K; Glenn S; Happe S; Haseley N; Horvath K; Hung LY; Jarosz M; Kushwaha G; Li D; Li QZ; Li Z; Liu LC; Liu Z; Ma C; Mason CE; Megherbi DB; Morrison T; Pabón-Peña C; Pirooznia M; Proszek PZ; Raymond A; Rindler P; Ringler R; Scherer A; Shaknovich R; Shi T; Smith M; Song P; Strahl M; Thodima VJ; Tom N; Verma S; Wang J; Wu L; Xiao W; Xu C; Yang M; Zhang G; Zhang S; Zhang Y; Shi L; Tong W; Johann DJ; Mercer TR; Xu J, 2021, 'Evaluating the analytical validity of circulating tumor DNA sequencing assays for precision oncology', Nature Biotechnology, 39, pp. 1115 - 1128, http://dx.doi.org/10.1038/s41587-021-00857-z
    Journal articles | 2021
    Gong B; Li D; Kusko R; Novoradovskaya N; Zhang Y; Wang S; Pabón-Peña C; Zhang Z; Lai K; Cai W; LoCoco JS; Lader E; Richmond TA; Mittal VK; Liu LC; Johann DJ; Willey JC; Bushel PR; Yu Y; Xu C; Chen G; Burgess D; Cawley S; Giorda K; Haseley N; Qiu F; Wilkins K; Arib H; Attwooll C; Babson K; Bao L; Bao W; Lucas AB; Best H; Bhandari A; Bisgin H; Blackburn J; Blomquist TM; Boardman L; Burgher B; Butler DJ; Chang CJ; Chaubey A; Chen T; Chierici M; Chin CR; Close D; Conroy J; Coleman JC; Craig DJ; Crawford E; del Pozo A; Deveson IW; Duncan D; Eterovic AK; Fan X; Foox J; Furlanello C; Ghosal A; Glenn S; Guan M; Haag C; Hang X; Happe S; Hennigan B; Hipp J; Hong H; Horvath K; Hu J; Hung LY; Jarosz M; Kerkhof J; Kipp B; Kreil DP; Łabaj P; Lapunzina P; Li P; Li QZ; Li W; Li Z; Liang Y; Liu S; Liu Z; Ma C; Marella N; Martín-Arenas R; Megherbi DB; Meng Q; Mieczkowski PA; Morrison T; Muzny D; Ning B; Parsons BL; Paweletz CP; Pirooznia M; Qu W; Raymond A; Rindler P; Ringler R; Sadikovic B; Mercer T; Thomas D, 2021, 'Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions', Genome Biology, 22, pp. 109, http://dx.doi.org/10.1186/s13059-021-02315-0
    Journal articles | 2021
    Whiteley S; Holleley C; Wagner S; Blackburn J; Deveson I; Graves JM; Georges A, 2021, 'Two transcriptionally distinct pathways drive female development in a reptile with both genetic and temperature dependent sex determination', , http://dx.doi.org/10.1101/2021.02.03.429474
    Journal articles | 2021
    Whiteley SL; Holleley CE; Wagner S; Blackburn J; Deveson IW; Marshall Graves JA; Georges A, 2021, 'Two transcriptionally distinct pathways drive female development in a reptile with both genetic and temperature dependent sex determination', Plos Genetics, 17, http://dx.doi.org/10.1371/journal.pgen.1009465
    Journal articles | 2020
    Heyer EE; Blackburn J, 2020, 'Sequencing Strategies for Fusion Gene Detection', Bioessays, 42, http://dx.doi.org/10.1002/bies.202000016
    Journal articles | 2020
    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, 2020, 'Author Correction: Diagnosis of fusion genes using targeted RNA sequencing (Nature Communications, (2019), 10, 1, (1388), 10.1038/s41467-019-09374-9)', Nature Communications, 11, pp. 1810, http://dx.doi.org/10.1038/s41467-020-15697-9
    Journal articles | 2020
    Mueller SA; Gauthier MEA; Blackburn J; Grady JP; Kraitsek S; Hajdu E; Dettmer MS; Dahlstrom JE; Lee CS; Luk PP; Yu B; Giger R; Kummerfeld S; Clark JR; Gupta R; Cowley MJ, 2020, 'Molecular patterns in salivary duct carcinoma identify prognostic subgroups', Modern Pathology, 33, pp. 1896 - 1909, http://dx.doi.org/10.1038/s41379-020-0576-2
    Journal articles | 2020
    Reis ALM; Deveson IW; Wong T; Madala BS; Barker C; Blackburn J; Marcellin E; Mercer TR, 2020, 'A universal and independent synthetic DNA ladder for the quantitative measurement of genomic features', Nature Communications, 11, http://dx.doi.org/10.1038/s41467-020-17445-5
    Journal articles | 2020
    Singh M; Jackson KJL; Wang JJ; Schofield P; Field MA; Koppstein D; Peters TJ; Burnett DL; Rizzetto S; Nevoltris D; Masle-Farquhar E; Faulks ML; Russell A; Gokal D; Hanioka A; Horikawa K; Colella AD; Chataway TK; Blackburn J; Mercer TR; Langley DB; Goodall DM; Jefferis R; Gangadharan Komala M; Kelleher AD; Suan D; Rischmueller M; Christ D; Brink R; Luciani F; Gordon TP; Goodnow CC; Reed JH, 2020, 'Lymphoma Driver Mutations in the Pathogenic Evolution of an Iconic Human Autoantibody', Cell, 180, pp. 878 - 894.e19, http://dx.doi.org/10.1016/j.cell.2020.01.029
    Journal articles | 2020
    Yamada A; Kawasaki M; Miake Y; Yamada Y; Blackburn J; Kawasaki K; Trakanant S; Nagai T; Nihara J; Kudo T; Meguro F; Schmidt-Ullrich R; Liu B; Hu Y; Page A; Ramírez Á; Sharpe PT; Maeda T; Takagi R; Ohazama A, 2020, 'Overactivation of the NF-κB pathway impairs molar enamel formation', Oral Diseases, 26, pp. 1513 - 1522, http://dx.doi.org/10.1111/odi.13384
    Journal articles | 2019
    Blackburn J; Vecchiarelli S; Heyer EE; Patrick SM; Lyons RJ; Jaratlerdsiri W; van Zyl S; Bornman MSR; Mercer TR; Hayes VM, 2019, 'TMPRSS2-ERG fusions linked to prostate cancer racial health disparities: A focus on Africa', Prostate, 79, pp. 1191 - 1196, http://dx.doi.org/10.1002/pros.23823
    Journal articles | 2019
    Blackburn J; Wong T; Madala BS; Barker C; Hardwick SA; Reis ALM; Deveson IW; Mercer TR, 2019, 'Use of synthetic DNA spike-in controls (sequins) for human genome sequencing', Nature Protocols, 14, pp. 2119 - 2151, http://dx.doi.org/10.1038/s41596-019-0175-1
    Journal articles | 2019
    Deveson IW; Madala BS; Blackburn J; Barker C; Wong T; Barton KM; Smith MA; Watkins DN; Mercer TR, 2019, 'Chiral DNA sequences as commutable controls for clinical genomics', Nature Communications, 10, http://dx.doi.org/10.1038/s41467-019-09272-0
    Journal articles | 2019
    Hardwick SA; Bassett SD; Kaczorowski D; Blackburn J; Barton K; Bartonicek N; Carswell SL; Tilgner HU; Loy C; Halliday G; Mercer TR; Smith MA; Mattick JS, 2019, 'Targeted, high-resolution RNA sequencing of non-coding genomic regions associated with neuropsychiatric functions', Frontiers in Genetics, 10, pp. 309, http://dx.doi.org/10.3389/fgene.2019.00309
    Journal articles | 2019
    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
    Journal articles | 2019
    Joffrin E; Abduallev S; Abhangi M; Abreu P; Afanasev V; Afzal M; Aggarwal KM; Ahlgren T; Aho-Mantila L; Aiba N; Airila M; Alarcon T; Albanese R; Alegre D; Aleiferis S; Alessi E; Aleynikov P; Alkseev A; Allinson M; Alper B; Alves E; Ambrosino G; Ambrosino R; Amosov V; Andersson Sundén E; Andrews R; Angelone M; Anghel M; Angioni C; Appel L; Appelbee C; Arena P; Ariola M; Arshad S; Artaud J; Arter W; Ash A; Ashikawa N; Aslanyan V; Asunta O; Asztalos O; Auriemma F; Austin Y; Avotina L; Axton M; Ayres C; Baciero A; Baiao D; Balboa I; Balden M; Balshaw N; Bandaru VK; Banks J; Baranov YF; Barcellona C; Barnard T; Barnes M; Barnsley R; Baron Wiechec A; Barrera Orte L; Baruzzo M; Basiuk V; Bassan M; Bastow R; Batista A; Batistoni P; Baumane L; Bauvir B; Baylor L; Beaumont PS; Beckers M; Beckett B; Bekris N; Beldishevski M; Bell K; Belli F; Belonohy E; Benayas J; Bergsaker H; Bernardo J; Bernert M; Berry M; Bertalot L; Besiliu C; Betar H; Beurskens M; Bielecki J; Biewer T; Bilato R; Biletskyi O; Bilková P; Binda F; Birkenmeier G; Bizarro JPS; Björkas C; Blackburn J; Blackman TR; Blanchard P; Blatchford P; Bobkov V, 2019, 'Overview of the JET preparation for deuterium-tritium operation with the ITER like-wall', Nuclear Fusion, 59, http://dx.doi.org/10.1088/1741-4326/ab2276
    Journal articles | 2019
    Mueller SA; Grady J; Dettmer M; Gauthier M-EA; Hajdu E; Blackburn J; Giger R; Dahlstrom JE; Luk P; Lee S; Kratisek S; Yu B; Clark JR; Cowley MJ; Gupta R, 2019, 'The targetable genomic landscape of salivary duct carcinoma', Pathology, 51, pp. S83 - S83, http://dx.doi.org/10.1016/j.pathol.2018.12.210
    Journal articles | 2019
    Nagai T; Trakanant S; Kawasaki M; Kawasaki K; Yamada Y; Watanabe M; Blackburn J; Otsuka-Tanaka Y; Hishinuma M; Kitatmura A; Meguro F; Yamada A; Kodama Y; Maeda T; Zhou Q; Saijo Y; Yasue A; Sharpe PT; Hindges R; Takagi R; Ohazama A, 2019, 'MicroRNAs control eyelid development through regulating Wnt signaling', Developmental Dynamics, 248, pp. 201 - 210, http://dx.doi.org/10.1002/dvdy.10
    Journal articles | 2019
    Singh M; Al-Eryani G; Carswell S; Ferguson JM; Blackburn J; Barton K; Roden D; Luciani F; Giang Phan T; Junankar S; Jackson K; Goodnow CC; Smith MA; Swarbrick A, 2019, 'High-throughput targeted long-read single cell sequencing reveals the clonal and transcriptional landscape of lymphocytes', Nature Communications, 10, http://dx.doi.org/10.1038/s41467-019-11049-4
    Journal articles | 2019
    Trahair T; Gifford AJ; Fordham A; Mayoh C; Fadia M; Lukeis R; Wood AC; Valvi S; Walker RD; Blackburn J; Heyer EE; Mercer TR; Barbaric D; Marshall GM; MacKenzie KL, 2019, 'Crizotinib and surgery for long-term disease control in children and adolescents with ALK-positive inflammatory myofibroblastic tumors', JCO Precision Oncology, 3, pp. 1 - 11, http://dx.doi.org/10.1200/PO.18.00297
    Journal articles | 2018
    Deveson I; Madala BS; Blackburn J; Barker C; Wong T; Barton K; Smith M; Watkins N; Mercer T, 2018, 'Chiral DNA sequences as commutable reference standards for clinical genomics', BIORXIV, http://dx.doi.org/10.1101/404285
    Journal articles | 2018
    Deveson IW; Brunck ME; Blackburn J; Tseng E; Hon T; Clark TA; Clark MB; Crawford J; Dinger ME; Nielsen LK; Mattick JS; Mercer TR, 2018, 'Universal Alternative Splicing of Noncoding Exons', Cell Systems, 6, pp. 245 - 255.e5, http://dx.doi.org/10.1016/j.cels.2017.12.005
    Journal articles | 2018
    Kawasaki M; Kawasaki K; Meguro F; Yamada A; Ishikawa R; Porntaveetus T; Blackburn J; Otsuka-Tanaka Y; Saito N; Ota MS; Sharpe PT; Kessler JA; Herz J; Cobourne MT; Maeda T; Ohazama A, 2018, 'Lrp4/Wise regulates palatal rugae development through turing-type reaction-diffusion mechanisms', Plos One, 13, http://dx.doi.org/10.1371/journal.pone.0204126
    Journal articles | 2018
    Singh M; Al-Eryani G; Carswell S; Ferguson J; Blackburn J; Barton K; Roden D; Luciani F; Phan T; Junankar S; Jackson K; Goodnow C; Smith M; Swarbrick A, 2018, 'High-throughput targeted long-read single cell sequencing reveals the clonal and transcriptional landscape of lymphocytes', , http://dx.doi.org/10.1101/424945
    Journal articles | 2017
    Deveson IW; Holleley CE; Blackburn J; Marshall Graves JA; Mattick JS; Waters PD; Georges A, 2017, 'Differential intron retention in Jumonji chromatin modifier genes is implicated in reptile temperature-dependent sex determination', Science Advances, 3, pp. e1700731, http://dx.doi.org/10.1126/sciadv.1700731
    Journal articles | 2017
    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
    Journal articles | 2016
    Blackburn J; Roden DL; Ng R; Wu J; Bosman A; Epstein RJ, 2016, 'Damage-inducible intragenic demethylation of the human TP53 tumor suppressor gene is associated with transcription from an alternative intronic promoter', Molecular Carcinogenesis, 55, pp. 1940 - 1951, http://dx.doi.org/10.1002/mc.22441
    Journal articles | 2016
    Hardwick SA; Chen WY; Wong T; Deveson IW; Blackburn J; Andersen SB; Nielsen LK; Mattick JS; Mercer TR, 2016, 'Spliced synthetic genes as internal controls in RNA sequencing experiments', Nature Methods, 13, pp. 792 - 798, http://dx.doi.org/10.1038/nmeth.3958
    Journal articles | 2016
    Kawasaki M; Kawasaki K; Oommen S; Blackburn J; Watanabe M; Nagai T; Kitamura A; Maeda T; Liu B; Schmidt-Ullrich R; Akiyama T; Inoue JI; Hammond NL; Sharpe PT; Ohazama A, 2016, 'Regional regulation of Filiform tongue papillae development by Ikkα/Irf6', Developmental Dynamics, 245, pp. 937 - 946, http://dx.doi.org/10.1002/dvdy.24427
    Journal articles | 2016
    Watanabe M; Kawasaki K; Kawasaki M; Portaveetus T; Oommen S; Blackburn J; Nagai T; Kitamura A; Nishikawa A; Kodama Y; Takagi R; Maeda T; Sharpe PT; Ohazama A, 2016, 'Spatio-temporal expression of Sox genes in murine palatogenesis', Gene Expression Patterns, 21, pp. 111 - 118, http://dx.doi.org/10.1016/j.gep.2016.05.002
    Journal articles | 2015
    Blackburn J; Kawasaki K; Porntaveetus T; Kawasaki M; Otsuka-Tanaka Y; Miake Y; Ota MS; Watanabe M; Hishinuma M; Nomoto T; Oommen S; Ghafoor S; Harada F; Nozawa-Inoue K; Maeda T; Peterková R; Lesot H; Inoue J; Akiyama T; Schmidt-Ullrich R; Liu B; Hu Y; Page A; Ramírez ; Sharpe PT; Ohazama A, 2015, 'Excess NF-κB induces ectopic odontogenesis in embryonic incisor epithelium', Journal of Dental Research, 94, pp. 121 - 128, http://dx.doi.org/10.1177/0022034514556707
    Journal articles | 2012
    Blackburn J; Ohazama A; Kawasaki K; Otsuka-Tanaka Y; Liu B; Honda K; Rountree RB; Hu Y; Kawasaki M; Birchmeier W; Schmidt-Ullrich R; Kinoshita A; Schutte BC; Hammond NL; Dixon MJ; Sharpe PT, 2012, 'The role of Irf6 in tooth epithelial invagination', Developmental Biology, 365, pp. 61 - 70, http://dx.doi.org/10.1016/j.ydbio.2012.02.009
    Journal articles | 2012
    Kawasaki K; Porntaveetus T; Oommen S; Ghafoor S; Kawasaki M; Otsuka-Tanaka Y; Blackburn J; Kessler JA; Sharpe PT; Ohazama A, 2012, 'Bmp signalling in filiform tongue papillae development', Archives of Oral Biology, 57, pp. 805 - 813, http://dx.doi.org/10.1016/j.archoralbio.2011.11.014
    Journal articles | 2010
    Ohazama A; Blackburn J; Porntaveetus T; Ota MS; Choi HY; Johnson EB; Myers P; Oommen S; Eto K; Kessler JA; Kondo T; Fraser GJ; Streelman JT; Pardiñas UFJ; Tucker AS; Ortiz PE; Charles C; Viriot L; Herz J; Sharpe PT, 2010, 'A role for suppressed incisor cuspal morphogenesis in the evolution of mammalian heterodont dentition', Proceedings of the National Academy of Sciences of the United States of America, 107, pp. 92 - 97, http://dx.doi.org/10.1073/pnas.0907236107
    Journal articles | 2009
    Ohazama A; Haycraft CJ; Seppala M; Blackburn J; Ghafoor S; Cobourne M; Martinelli DC; Fan CM; Peterkova R; Lesot H; Yoder BK; Sharpe PT, 2009, 'Primary cilia regulate Shh activity in the control of molar tooth number', Development, 136, pp. 897 - 903, http://dx.doi.org/10.1242/dev.027979
    Journal articles | 2006
    Matalová E; š etková J; Míšek I; Blackburn J; Sharpe PT, 2006, 'CD 95 mediated apoptosis in embryogenesis: Implication in tooth development', Orthodontics and Craniofacial Research, 9, pp. 123 - 128, http://dx.doi.org/10.1111/j.1601-6343.2006.00365.x
    Journal articles | 2005
    Courtney JM; Blackburn J; Sharpe PT, 2005, 'The Ectodysplasin and NFκB signalling pathways in odontogenesis', Archives of Oral Biology, 50, pp. 159 - 163, http://dx.doi.org/10.1016/j.archoralbio.2004.11.019
    Journal articles | 2003
    Blackburn J; Tarttelin EE; Gregory-Evans CY; Moosajee M; Gregory-Evans K, 2003, 'Transcriptional Regulation and Expression of the Dominant Drusen Gene FBLN3 (EFEMP1) in Mammalian Retina', Investigative Ophthalmology and Visual Science, 44, pp. 4613 - 4621, http://dx.doi.org/10.1167/iovs.03-0112
    Journal articles | 2001
    Tarttelin EE; Gregory-Evans CY; Bird AC; Weleber RG; Klein ML; Blackburn J; Gregory-Evans K, 2001, 'Molecular genetic heterogeneity in autosomal dominant drusen', Journal of Medical Genetics, 38, pp. 381 - 384, http://dx.doi.org/10.1136/jmg.38.6.381
  • Preprints | 2024
    Santos-Rodriguez G; Srivastava A; Ravindran A; Oyelami F; Ip KH; Gupta P; Villanueva J; King HE; Grootveld A; Blackburn J; Gupta I; Vieira HGS; Shirokikh NE; Eyras E; Weatheritt RJ, 2024, The conserved landscape of RNA modifications and transcript diversity across mammalian evolution, http://dx.doi.org/10.1101/2024.11.24.624934
    Conference Abstracts | 2022
    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, LIPPINCOTT WILLIAMS & WILKINS, ELECTR NETWORK, Vol. 40, presented at Annual Meeting of the American-Society-of-Clinical-Oncology (ASCO), ELECTR NETWORK, 03 June 2022 - 07 June 2022
    Conference Abstracts | 2022
    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
    Conference Abstracts | 2021
    Mueller SA; Gauthier M-EA; Blackburn J; Grady JP; Kratisek S; Dettmer MS; Dahlstrom JE; Lee CS; Luk P; Yu B; Giger R; Kummerfeld S; Clark J; Gupta R; Cowley MJ, 2021, 'Molecular patterns in salivary duct carcinoma identify prognostic subgroups', in ORAL ONCOLOGY, ELSEVIER, Vol. 118, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000669389300007&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1
    Conference Abstracts | 2019
    Fordham AM; Blackburn J; Heyer EE; Xie J; Mould EV; Gifford AJ; Morgan LT; Wadham C; Fadia M; Fletcher JI; MacKenzie KL; Trahair TN, 2019, 'Abstract 4824: Targeting CD30 as a novel treatment strategy inRANBP2-ALK-rearranged inflammatory myofibroblastic tumor', in Experimental and Molecular Therapeutics, American Association for Cancer Research, pp. 4824 - 4824, presented at Proceedings: AACR Annual Meeting 2019; March 29-April 3, 2019; Atlanta, GA, http://dx.doi.org/10.1158/1538-7445.sabcs18-4824
    Conference Abstracts | 2019
    Fordham AM; Blackburn J; Heyer EE; Xie J; Mould EV; Gifford AJ; Morgan LT; Wadham C; Fadia M; Fletcher JI; MacKenzie KL; Trahair TN, 2019, 'Targeting CD30 as a novel treatment strategy in RANBP2-ALK-rearranged inflammatory myofibroblastic tumor', in CANCER RESEARCH, AMER ASSOC CANCER RESEARCH, GA, Atlanta, Vol. 79, presented at Annual Meeting of the American-Association-for-Cancer-Research (AACR), GA, Atlanta, 29 March 2019 - 03 April 2019, http://dx.doi.org/10.1158/1538-7445.AM2019-4824
    Preprints | 2019
    Hardwick SA; Bassett SD; Kaczorowski D; Blackburn J; Barton K; Bartonicek N; Carswell SL; Tilgner HU; Loy C; Halliday G; Mercer TR; Smith MA; Mattick JS, 2019, TARGETED, HIGH-RESOLUTION RNA SEQUENCING OF NON-CODING GENOMIC REGIONS ASSOCIATED WITH NEUROPSYCHIATRIC FUNCTIONS, http://dx.doi.org/10.1101/539882
    Preprints | 2017
    Deveson I; Brunck M; Blackburn J; Tseng E; Hon T; Clark T; Clark M; Crawford J; Dinger M; Nielsen L; Mattick J; Mercer T, 2017, Universal alternative splicing of noncoding exons, http://dx.doi.org/10.1101/136275
    Conference Presentations | 2014
    Blackburn J; Ng R; Roden D; Wu J; Epstein RJ, 2014, 'Damage-inducible intragenic demethylation activates transcription of an alternative intronic promoter in TP53-wildtype but not mutant human cells and tumors', presented at 105th Annual Meeting of the American-Association-for-Cancer-Research (AACR), CA, San Diego, 05 April 2014 - 09 April 2014, http://dx.doi.org/10.1158/1538-7445.AM2014-LB-85

James, P.A., ... Blackburn, J., et al. Trial Integration of Polygenic Scores for Common Cancers into Standard Clinical Care. 2022 MRFF Genomics Health Futures Mission Grant, 2024-2027.

Blackburn, J. Improving Fusion Gene Detection and Immune Response Assessment in Sarcoma Patients. ANZSA Research Grant 2020.

Blackburn, J. Improving Sarcoma Cancer Diagnostics Through Implementation of a Novel Fusion Gene Test. NFMRI Research Grant, 2020-2021.

Blackburn, J., Heyer, E.E., Trahair, T.N. Accurately Diagnosing Fusion Genes in Paediatric and Adolescent and Young Adult (AYA) Sarcomas. St. Vincent’s Clinic Foundation Research Grant, 2019.

Mercer, T.R., Dinger, M.E., Burnett, L., Blackburn, J. Diagnosis of Inherited Genetic Disorders Using DNA Reference Standards. NHMRC Project Grant, 2018-2020.

Mercer, T.R., Gill, D., Blackburn, J. A Universal Clinical Test for Gene Fusions in Blood Cancer. NHMRC Project Grant, 2016-2018.

Cancer Genetics, Cancer Diagnostics

My Research Supervision

I supervise PhD, MSc and Honours students enrolled within UNSW.

My Teaching

I provide course lectures and exam questions for undergraduate students from the School of Biotechnology & Biomolecular Sciences.