Emily Wong

Research Fellow

Emily received her Masters and PhD from the University of Sydney in Bioinformatics and Computational Genomics. She was an EMBO postdoctoral fellow at the European Molecular Biology Laboratory–European Bioinformatics Institute (EMBL-EBI) at the Wellcome Trust Genome Campus, Cambridge, UK. There, she studied the regulatory evolution of mammalian tissues. In 2016, She returned to Australia as an Australian Research Council Discovery Early Career Fellow to the University of Queensland where she worked on genomic control during development.

Emily is part of UNSW and the Victor Chang Cardiac Research Institute. Her research seeks to tie together genetic and molecular understanding to decipher the rules controlling cell and trait diversity. She uses new cross-disciplinary approaches integrating big data with in vivo experiments. Her work leverages the power of comparative genomics to understand how traits are encoded in our genomes and how regulatory systems are disrupted in disease.

publications

Journal articles
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Wong ES; Zheng D; Tan SZ; Bower NI; Garside V; Vanwalleghem G; Gaiti F; Scott E; Hogan BM; Kikuchi K; McGlinn E; Francois M; Degnan BM, 2020, 'Deep conservation of the enhancer regulatory code in animals', Science, vol. 370, http://dx.doi.org/10.1126/science.aax8137
2020
Floc’hlay S; Wong E; Zhao B; Viales R; Thomas-Chollier M; Thieffry D; Garfield D; Furlong EEM, 2020, 'Cis acting variation is common, can propagates across multiple regulatory layers, but is often buffered in developmental programs', , http://dx.doi.org/10.1101/2020.05.21.107961
2020
Floc'hlay S; Wong E; Zhao B; Viales RR; Thomas-Chollier M; Thieffry D; Garfield DA; Furlong EEM, 2020, 'Cis-acting variation is common across regulatory layers but is often buffered during embryonic development.', Genome Res, http://dx.doi.org/10.1101/gr.266338.120
2020
Wong E; Tan SZ; Garside V; Vanwalleghem G; Gaiti F; Scott E; McGlinn E; Francois M; Degnan B, 2019, 'Early origin and deep conservation of enhancers in animals', , http://dx.doi.org/10.1101/633651
2019
Friedman CE; Nguyen Q; Lukowski SW; Helfer A; Chiu HS; Miklas J; Levy S; Suo S; Han JDJ; Osteil P; Peng G; Jing N; Baillie GJ; Senabouth A; Christ AN; Bruxner TJ; Murry CE; Wong ES; Ding J; Wang Y; Hudson J; Ruohola-Baker H; Bar-Joseph Z; Tam PPL; Powell JE; Palpant NJ, 2018, 'Single-Cell Transcriptomic Analysis of Cardiac Differentiation from Human PSCs Reveals HOPX-Dependent Cardiomyocyte Maturation', Cell Stem Cell, vol. 23, pp. 586 - 598.e8, http://dx.doi.org/10.1016/j.stem.2018.09.009
2018
Jasinska AJ; Zelaya I; Service SK; Peterson CB; Cantor RM; Choi OW; DeYoung J; Eskin E; Fairbanks LA; Fears S; Furterer AE; Huang YS; Ramensky V; Schmitt CA; Svardal H; Jorgensen MJ; Kaplan JR; Villar D; Aken BL; Flicek P; Nag R; Wong ES; Blangero J; Dyer TD; Bogomolov M; Benjamini Y; Weinstock GM; Dewar K; Sabatti C; Wilson RK; Jentsch DJ; Warren W; Coppola G; Woods RP; Freimer NB, 2017, 'Genetic variation and gene expression across multiple tissues and developmental stages in a nonhuman primate', Nature Genetics, vol. 49, pp. 1714 - 1721, http://dx.doi.org/10.1038/ng.3959
2017
Wong ES; Schmitt BM; Kazachenka A; Thybert D; Redmond A; Connor F; Rayner TF; Feig C; Ferguson-Smith AC; Marioni JC; Odom DT; Flicek P, 2017, 'Interplay of cis and trans mechanisms driving transcription factor binding and gene expression evolution', Nature Communications, vol. 8, pp. 1092, http://dx.doi.org/10.1038/s41467-017-01037-x
2017
Zepeda-Mendoza CJ; Mukhopadhyay S; Wong ES; Harder N; Splinter E; de Wit E; Eckersley-Maslin MA; Ried T; Eils R; Rohr K; Mills A; de Laat W; Flicek P; Sengupta AM; Spector DL, 2015, 'Quantitative analysis of chromatin interaction changes upon a 4.3 Mb deletion at mouse 4E2', BMC Genomics, vol. 16, pp. 982, http://dx.doi.org/10.1186/s12864-015-2137-5
2015
Wong ES; Thybert D; Schmitt BM; Stefflova K; Odom DT; Flicek P, 2015, 'Decoupling of evolutionary changes in transcription factor binding and gene expression in mammals', Genome Research, vol. 25, pp. 167 - 178, http://dx.doi.org/10.1101/gr.177840.114
2015
Van Der Kraan LE; Wong ESW; Lo N; Ujvari B; Belov K, 2013, 'Identification of natural killer cell receptor genes in the genome of the marsupial Tasmanian devil (Sarcophilus harrisii)', Immunogenetics, vol. 65, pp. 25 - 35, http://dx.doi.org/10.1007/s00251-012-0643-z
2013
Wong ESW; Hardy MC; Wood D; Bailey T; King GF, 2013, 'SVM-Based Prediction of Propeptide Cleavage Sites in Spider Toxins Identifies Toxin Innovation in an Australian Tarantula', PLoS ONE, vol. 8, http://dx.doi.org/10.1371/journal.pone.0066279
2013
Wong ESW; Nicol S; Warren WC; Belov K, 2013, 'Echidna venom gland transcriptome provides insights into the evolution of monotreme venom', PLoS ONE, vol. 8, pp. e79092, http://dx.doi.org/10.1371/journal.pone.0079092
2013
Wong ESW; Morgenstern D; Mofiz E; Gombert S; Morris KM; Temple-Smith P; Renfree MB; Whittington CM; King GF; Warren WC; Papenfuss AT; Belov K, 2012, 'Proteomics and deep sequencing comparison of seasonally active venom glands in the platypus reveals novel venom peptides and distinct expression profiles', Molecular and Cellular Proteomics, vol. 11, pp. 1354 - 1364, http://dx.doi.org/10.1074/mcp.M112.017491
2012
Wong ESW; Belov K, 2012, 'Venom evolution through gene duplications', Gene, vol. 496, pp. 1 - 7, http://dx.doi.org/10.1016/j.gene.2012.01.009
2012
Wong ESW; Papenfuss AT; Whittington CM; Warren WC; Belov K, 2012, 'A limited role for gene duplications in the evolution of platypus venom', Molecular Biology and Evolution, vol. 29, pp. 167 - 177, http://dx.doi.org/10.1093/molbev/msr180
2012
Wong ESW; Papenfuss AT; Belov K, 2011, 'Genomic identification of chemokines and cytokines in opossum', Journal of Interferon and Cytokine Research, vol. 31, pp. 317 - 330, http://dx.doi.org/10.1089/jir.2010.0045
2011
Wong ESW; Papenfuss AT; Belov K, 2011, 'Immunome database for marsupials and monotremes', BMC Immunology, vol. 12, http://dx.doi.org/10.1186/1471-2172-12-48
2011
Wong ESW; Papenfuss AT; Heger A; Hsu AL; Ponting CP; Miller RD; Fenelon JC; Renfree MB; Gibbs RA; Belov K, 2011, 'Transcriptomic analysis supports similar functional roles for the two thymuses of the tammar wallaby', BMC Genomics, vol. 12, http://dx.doi.org/10.1186/1471-2164-12-420
2011
Wang J; Wong ESW; Whitley JC; Li J; Stringer JM; Short KR; Renfree MB; Belov K; Cocks BG, 2011, 'Ancient antimicrobial peptides kill Antibiotic-Resistant pathogens: Australian mammals provide new options', PLoS ONE, vol. 6, http://dx.doi.org/10.1371/journal.pone.0024030
2011
Renfree MB; Papenfuss AT; Deakin JE; Lindsay J; Heider T; Belov K; Rens W; Waters PD; Pharo EA; Shaw G; Wong ESW; Lefèvre CM; Nicholas KR; Kuroki Y; Wakefield MJ; Zenger KR; Wang C; Ferguson-Smith M; Nicholas FW; Hickford D; Yu H; Short KR; Siddle HV; Frankenberg SR; Chew KY; Menzies BR; Stringer JM; Suzuki S; Hore TA; Delbridge ML; Mohammadi A; Schneider NY; Hu Y; O'Hara W; Al Nadaf S; Wu C; Feng ZP; Cocks BG; Wang J; Flicek P; Searle SMJ; Fairley S; Beal K; Herrero J; Carone DM; Suzuki Y; Sugano S; Toyoda A; Sakaki Y; Kondo S; Nishida Y; Tatsumoto S; Mandiou I; Hsu A; McColl KA; Lansdell B; Weinstock G; Kuczek E; McGrath A; Wilson P; Men A; Hazar-Rethinam M; Hall A; Davis J; Wood D; Williams S; Sundaravadanam Y; Muzny DM; Jhangiani SN; Lewis LR; Morgan MB; Okwuonu GO; Ruiz SJ; Santibanez J; Nazareth L; Cree A; Fowler G; Kovar CL; Dinh HH; Joshi V; Jing C; Lara F; Thornton R; Chen L; Deng J; Liu Y; Shen JY; Song XZ; Edson J; Troon C; Thomas D; Stephens A; Yapa L; Levchenko T; Gibbs RA; Cooper DW; Speed TP; Fujiyama A; M Graves JA; O'Neill RJ, 2011, 'Genome sequence of an Australian kangaroo, Macropus eugenii, provides insight into the evolution of mammalian reproduction and development', Genome Biology, vol. 12, http://dx.doi.org/10.1186/gb-2011-12-8-r81
2011
Whittington CM; Papenfuss AT; Locke DP; Mardis ER; Wilson RK; Abubucker S; Mitreva M; Wong ESW; Hsu AL; Kuchel PW; Belov K; Warren WC, 2010, 'Novel venom gene discovery in the platypus', Genome Biology, vol. 11, http://dx.doi.org/10.1186/gb-2010-11-9-r95
2010
Siddle HV; Deakin JE; Coggill P; Hart E; Cheng Y; Wong ESW; Harrow J; Beck S; Belov K, 2009, 'MHC-linked and un-linked class I genes in the wallaby', BMC Genomics, vol. 10, http://dx.doi.org/10.1186/1471-2164-10-310
2009
Wong ESW; Sanderson CE; Deakin JE; Whittington CM; Papenfuss AT; Belov K, 2009, 'Identification of natural killer cell receptor clusters in the platypus genome reveals an expansion of C-type lectin genes', Immunogenetics, vol. 61, pp. 565 - 579, http://dx.doi.org/10.1007/s00251-009-0386-7
2009
Cao H; De Bono B; Belov K; Wong ES; Trowsdale J; Barrow AD, 2009, 'Comparative genomics indicates the mammalian CD33rSiglec locus evolved by an ancient large-scale inverse duplication and suggests all Siglecs share a common ancestral region', Immunogenetics, vol. 61, pp. 401 - 417, http://dx.doi.org/10.1007/s00251-009-0372-0
2009
Wong ESW; Papenfuss AT; Miller RD; Belov K, 2009, 'Hatching time for monotreme immunology', Australian Journal of Zoology, vol. 57, pp. 185 - 198, http://dx.doi.org/10.1071/ZO09042
2009
Whittington CM; Papenfuss AT; Bansal P; Torres AM; Wong ESW; Deakin JE; Graves T; Alsop A; Schatzkamer K; Kremitzki C; Ponting CP; Temple-Smith P; Warren WC; Kuchel PW; Belov K, 2008, 'Defensins and the convergent evolution of platypus and reptile venom genes', Genome Research, vol. 18, pp. 986 - 994, http://dx.doi.org/10.1101/gr.7149808
2008
Warren WC; Hillier LW; Graves JAM; Birney E; Ponting CP; Grutzner F; Belov K; Miller W; Clarke L; Chinwalla AT; Yang SP; Heger A; Locke D; Miethke P; Waters PD; Veyrunes F; Fulton L; Fulton B; Graves T; Wallis J; Puente XS; Lopez-Otin C; Ordonez C; Eichler EE; Chen L; Cheng Z; Deakin J; Alsop A; Thompson K; Kirby P; Papenfuss AT; Wakefield MJ; Olender T; Lancet D; Huttley GA; Smit AFA; Pask A; Temple-Smith P; Batzer MA; Walker JA; Konkel MK; Harris RS; Whittington CM; Wong ESW; Gemmell NJ; Buschiazzo E; Vargas Jentzsch IM; Merkel A; Schmitz J; Zemann A; Churakov G; Kriegs JO; Brosius J; Murchison EP; Sachidanandam R; Smith C; Hannon GJ; Tsend-Ayush E; McMillan D; Attenborough R; Rens W; Ferguson-Smith M; Lefevre CM; Sharp JA; Nicholas KR; Ray DA; Kube M; Reinhardt R; Pringle TH; Taylor J; Jones RC; Nixon B; Dacheux JL; Niwa H; Sekita Y; Huang X; Stark A; Kheradpour P; Kellis M; Flicek P; Chen Y; Webber C; Hardison R; Nelson J; Hallsworth-Pepin K; Delehaunty K; Markovic C; Minx P; Feng Y; Kremitzki C; Mitreva M; Glasscock J; Wylie T; Wohldmann P; Thiru P; Nhan MN; Pohl CS; Smith SM; Hou S; Renfree M; Mardis ER; Wilson RK, 2008, 'Genome analysis of the platypus reveals unique signatures of evolution', Nature, vol. 453, pp. 175 - 184, http://dx.doi.org/10.1038/nature06936
2008
Robinson MW; Tort JF; Lowther J; Donnelly SM; Wong E; Xu W; Stack CM; Padula M; Herbert B; Dalton JP, 2008, 'Proteomics and phylogenetic analysis of the cathepsin L protease family of the helminth pathogen Fasciola hepatica: Expansion of a repertoire of virulence-associated factors', Molecular and Cellular Proteomics, vol. 7, pp. 1111 - 1123, http://dx.doi.org/10.1074/mcp.M700560-MCP200
2008
Warren WC; Hillier LDW; Marshall Graves JA; Birney E; Ponting CP; Grützner F; Belov K; Miller W; Clarke L; Chinwalla AT; Yang SP; Heger A; Locke DP; Miethke P; Waters PD; Veyrunes F; Fulton L; Fulton B; Graves T; Wallis J; Puente XS; López-Otín C; Ordó̃ez GR; Eichler EE; Chen L; Cheng Z; Deakin JE; Alsop A; Thompson K; Kirby P; Papenfuss AT; Wakefield MJ; Olender T; Lancet D; Huttley GA; Smit AFA; Pask A; Temple-Smith P; Batzer MA; Walker JA; Konkel MK; Harris RS; Whittington CM; Wong ESW; Gemmell NJ; Buschiazzo E; Vargas Jentzsch IM; Merkel A; Schmitz J; Zemann A; Churakov G; Kriegs JO; Brosius J; Murchison EP; Sachidanandam R; Smith C; Hannon GJ; Tsend-Ayush E; McMillan D; Attenborough R; Rens W; Ferguson-Smith M; Lefèvre CM; Sharp JA; Nicholas KR; Ray DA; Kube M; Reinhardt R; Pringle TH; Taylor J; Jones RC; Nixon B; Dacheux JL; Niwa H; Sekita Y; Huang X; Stark A; Kheradpour P; Kellis M; Flicek P; Chen Y; Webber C; Hardison R; Nelson J; Hallsworth-Pepin K; Delehaunty K; Markovic C; Minx P; Feng Y; Kremitzki C; Mitreva M; Glasscock J; Wylie T; Wohldmann P; Thiru P; Nhan MN; Pohl CS; Smith SM; Hou S; Nefedov M, 2008, 'Genome analysis of the platypus reveals unique signatures of evolution (Nature (2008) 453, (175-183))', Nature, vol. 455, pp. 256, http://dx.doi.org/10.1038/nature07253
2008
Belov K; Sanderson CE; Deakin JE; Wong ESW; Assange D; McColl KA; Gout A; De Bono B; Barrow AD; Speed TP; Trowsdale J; Papenfuss AT, 2007, 'Characterization of the opossum immune genome provides insights into the evolution of the mammalian immune system', Genome Research, vol. 17, pp. 982 - 991, http://dx.doi.org/10.1101/gr.6121807
2007
Book Chapters
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Morris K; Wong ESW; Belov K, 2010, 'Use of genomic information to gain insights into immune function in marsupials: A review of divergent immune genes', in Marsupial Genetics and Genomics, pp. 381 - 400, http://dx.doi.org/10.1007/978-90-481-9023-2_18
2010