Dr Lachlan Coin
Honorary Associate Professor
Institute for Molecular Bioscience
+61 7 334 62649
Highlights
Professor Lachlan Coin is a mathematician with a research focus on developing genomics and bioinformatics tools in infectious disease and cancer. He was originally drawn by the rigour and intellectual challenge of pure mathematics but now uses his maths background as a toolkit for solving complex problems in analysing high throughput biological data.
Professor Coin is best known for using approaches borrowed from machine learning, statistics and probability theory to interrogate genomic data.
In particular, Professor Coin has focussed on using these approaches to uncover genomic deletions and amplifications and has identified changes that are associated with increased risk of obesity and diabetes.
He has also developed approaches for finding minimal biomarker signatures associated with disease, and has applied these approaches to find biomarkers that distinguish bacterial from viral infection, and for the presence of active tuberculosis infection. He is also applying his methodology to develop a diagnostic tool for cancer from cell free DNA
Ultimately, Professor Coin is motivated by making discoveries that are routinely used in clinical practice and to inform public policy to improve health outcomes.
Professor Coin holds an Honorary Professor appointment with UQ, and is a Professor at the Doherty Institute at the University of Melbourne.
Connect
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| Medical genomics and bioinformatics |
Journal Articles
De, Tisham, Coin, Lachlan, Herberg, Jethro, Johnson, Michael R and Järvelin, Marjo-Riitta (2025). Plasma metabolomic signatures for copy number variants and COVID-19 risk loci in Northern Finland populations. Scientific Reports, 15 (1) 13172, 1. doi: 10.1038/s41598-025-94839-9
Xie, Ouli, Chisholm, Rebecca H, Featherstone, Leo, Nguyen, An N T, Hayes, Andrew J, Jespersen, Magnus G, Zachreson, Cameron, Tellioglu, Nefel, Tonkin-Hill, Gerry, Dotel, Ravindra, Spring, Stephanie, Liu, Alice, Rofe, Alexander, Duchene, Sebastian, Sherry, Norelle L, Baird, Robert W, Krause, Vicki L, Holt, Deborah C, Coin, Lachlan J M, Rai, Neela Joshi, O’Sullivan, Matthew V N, Bond, Katherine, Corander, Jukka, Howden, Benjamin P, Korman, Tony M, Currie, Bart J, Tong, Steven Y C and Davies, Mark R (2025). Temporal and geographical lineage dynamics of invasive Streptococcus pyogenes in Australia from 2011 to 2023: a retrospective, multicentre, clinical and genomic epidemiology study. The Lancet Microbe 101053, 101053. doi: 10.1016/j.lanmic.2024.101053
Ahmadi-Abhari, Sara, Bandosz, Piotr, Shipley, Martin J., Lindbohm, Joni V., Dehghan, Abbas, Elliott, Paul and Kivimaki, Mika (2025). Direct and indirect impacts of the COVID-19 pandemic on life expectancy and person-years of life lost with and without disability: A systematic analysis for 18 European countries, 2020-2022. Plos Medicine, 22 (3) e1004541, e1004541. doi: 10.1371/journal.pmed.1004541
Lam, Chih Chiang Benjamin, Mina, Theresia, Xie, Wubin, Low, Yanwen Dorrain, Yew, Yik Weng, Wang, Xiaoyan, Riboli, Elio, Elliott, Paul, Lee, Jimmy, Ngeow, Joanne, Lee, Eng Sing, Loh, Marie and Chambers, John C. (2024). The relationships between sleep and adiposity amongst multi-ethnic Asian populations: a cross-sectional analysis of the Health for Life in Singapore (HELIOS) study. International Journal of Obesity, 49 (4), 596-604. doi: 10.1038/s41366-024-01666-5
Hall, Michael B, Wick, Ryan R, Judd, Louise M, Nguyen, An N, Steinig, Eike J, Xie, Ouli, Davies, Mark, Seemann, Torsten, Stinear, Timothy P and Coin, Lachlan (2024). Benchmarking reveals superiority of deep learning variant callers on bacterial nanopore sequence data. eLife, 13 RP98300. doi: 10.7554/elife.98300.3
Wu, Jiangping, Chen, Yan, Zhao, Jiawei, Prosun, Tanjila Alam, O’Brien, Jake William, Coin, Lachlan, Hai, Faisal I., Sanderson-Smith, Martina and Jiang, Guangming (2024). Wastewater microbiome analysis for population alcohol abuse. Water, 16 (15) 2149. doi: 10.3390/w16152149
Chang, Jessie J.-Y., Grimley, Samantha, Tran, Bang M., Deliyannis, Georgia, Tumpach, Carolin, Nguyen, An N.T., Steinig, Eike, Zhang, JianShu, Schröder, Jan, Caly, Leon, McAuley, Julie, Wong, Sharon L., Waters, Shafagh A., Stinear, Timothy P., Pitt, Miranda E., Purcell, Damian, Vincan, Elizabeth and Coin, Lachlan J.M. (2024). Uncovering strain- and age-dependent innate immune responses to SARS-CoV-2 infection in air-liquid-interface cultured nasal epithelia. iScience, 27 (6) 110009, 1-21. doi: 10.1016/j.isci.2024.110009
Elliott, Joshua, Bodinier, Barbara, Whitaker, Matthew, Wada, Rin, Cooke, Graham, Ward, Helen, Tzoulaki, Ioanna, Elliott, Paul and Chadeau-Hyam, Marc (2024). Sex inequalities in cardiovascular risk prediction. Cardiovascular Research, 120 (11), 1327-1335. doi: 10.1093/cvr/cvae123
Bainomugisa, Arnold, Pandey, Sushil, O'Connor, Bridget, Syrmis, Melanie, Whiley, David, Sintchenko, Vitali, Coin, Lachlan J.M., Marais, Ben J. and Coulter, Christopher (2024). Sustained transmission over two decades of a previously unrecognised MPT64 negative Mycobacterium tuberculosis strain in Queensland, Australia: a whole genome sequencing study. The Lancet Regional Health - Western Pacific, 47 101105, 1-12. doi: 10.1016/j.lanwpc.2024.101105
Rahman, Md Shafiqur, Harrison, Emma, Biggs, Heather, Seikus, Chloe, Elliott, Paul, Breen, Gerome, Kingston, Nathalie, Bradley, John R., Hill, Steven M., Tom, Brian D. M. and Chinnery, Patrick F. (2024). Dynamics of cognitive variability with age and its genetic underpinning in NIHR BioResource Genes and Cognition cohort participants. Nature Medicine, 30 (6), 1739-1748. doi: 10.1038/s41591-024-02960-5
Schlapbach, Luregn J., Ganesamoorthy, Devika, Wilson, Clare, Raman, Sainath, George, Shane, Snelling, Peter J., Phillips, Natalie, Irwin, Adam, Sharp, Natalie, Le Marsney, Renate, Chavan, Arjun, Hempenstall, Allison, Bialasiewicz, Seweryn, MacDonald, Anna D., Grimwood, Keith, Cling, Jessica C., McPherson, Stephen J., Blumenthal, Antje, Kaforou, Myrsini, Levin, Michael, Herberg, Jethro A., Gibbons, Kristen S., Coin, Lachlan J. M., EUCLIDS consortium and RAPIDS Study Group (2024). Host gene expression signatures to identify infection type and organ dysfunction in children evaluated for sepsis: a multicentre cohort study. The Lancet Child and Adolescent Health, 8 (5), 325-338. doi: 10.1016/S2352-4642(24)00017-8
Yeoh, Sophya, Estrada-Rivadeneyra, Diego, Jackson, Heather, Keren, Ilana, Galassini, Rachel, Cooray, Samantha, Shah, Priyen, Agyeman, Philipp, Basmaci, Romain, Carrol, Enitan, Emonts, Marieke, Fink, Colin, Kuijpers, Taco, Martinon-Torres, Federico, Mommert-Tripon, Marine, Paulus, Stephane, Pokorn, Marko, Rojo, Pablo, Romani, Lorenza, Schlapbach, Luregn, Schweintzger, Nina, Shen, Ching-Fen, Tsolia, Maria, Usuf, Effua, van der Flier, Michiel, Vermont, Clementien, von Both, Ulrich, Yeung, Shunmay, Zavadska, Dace ... DIAMONDS and UK KD Genetic Consortia (2024). Plasma protein biomarkers distinguish multisystem inflammatory syndrome in children from other pediatric infectious and inflammatory diseases. Pediatric Infectious Disease Journal, 43 (5), 444-53. doi: 10.1097/inf.0000000000004267
Wu, Jiangping, Chen, Yan, Zhao, Jiawei, Prosun, Tanjila, O'Brien, Jake William, Coin, Lachlan, Hai, Faisal I., Sanderson-Smith, Martina, Bi, Peng and Jiang, Guangming (2024). Associations between the wastewater microbiome and community obesity rates: A study in Australia. Soil and Environmental Health, 2 (2) 100081, 1-10. doi: 10.1016/j.seh.2024.100081
Khan, Nemat, Kumar, Vinod, Li, Pengcheng, RAPIDS Study Group, Raman, Sainath (RSG member), Sharp, Natalie (RSG member), Irwin, Adam (RSG member), Phillips, Natalie (RSG member), George, Shane (RSG member), Grimwood, Keith (RSG member), Snelling, Peter (RSG member), Chavan, Arjun (RSG member), Hempenstall, Allison (RSG member), Gibbons, Kristen (RSG member), Le Marsney, Renate (RSG member), Blumenthal, Antje (RSG member), Ganesamoorthy, Devika (RSG member), Coin, Lachlan (RSG member), Schlapbach, Luregn J., Boyd, Andrew W., Coulthard, Mark G. and Woodruff, Trent M. (2024). Inhibiting Eph/ephrin signaling reduces vascular leak and endothelial cell dysfunction in mice with sepsis. Science Translational Medicine, 16 (744) eadg5768, 1-15. doi: 10.1126/scitranslmed.adg5768
Hall, Michael B. and Coin, Lachlan J. M. (2024). Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data. GigaScience, 13 giae010, 1-10. doi: 10.1093/gigascience/giae010
Chai, Ming G., Tu, Quyen, Cotta, Menino O., Bauer, Michelle J., Balch, Ross, Okafor, Charles, Comans, Tracy, Kruger, Peter, Meyer, Jason, Shekar, Kiran, Brady, Kara, Fourie, Cheryl, Sharp, Natalie, Vlad, Luminita, Whiley, David, Ungerer, Jacobus P. J., Mcwhinney, Brett C., Farkas, Andras, Paterson, David L., Clark, Julia E., Hajkowicz, Krispin, Raman, Sainath, Bialasiewicz, Seweryn, Lipman, Jeffrey, Forde, Brian M., Harris, Patrick N. A., Schlapbach, Luregn J., Coin, Lachlan, Roberts, Jason A. and Irwin, Adam D. (2024). Correction: achievement of therapeutic antibiotic exposures using Bayesian dosing software in critically unwell children and adults with sepsis. Intensive Care Medicine, 50 (5), 810-810. doi: 10.1007/s00134-024-07393-9
Chai, Gene G., Tu, Quyen, Cotta, Menino O., Bauer, Michelle J., Balch, Ross, Okafor, Charles, Comans, Tracy, Kruger, Peter, Meyer, Jason, Shekar, Kiran, Brady, Kara, Fourie, Cheryl, Sharp, Natalie, Vlad, Luminita, Whiley, David, Ungerer, Jacobus P. J., McWhinney, Brett C., Farkas, Andras, Paterson, David L., Clark, Julia E., Hajkowicz, Krispin, Raman, Sainath, Bialasiewicz, Seweryn, Lipman, Jeffrey, Forde, Brian M., Harris, Patrick N. A., Schlapbach, Luregn J., Coin, Lachlan, Roberts, Jason A. and Irwin, Adam D. (2024). Achievement of therapeutic antibiotic exposures using Bayesian dosing software in critically unwell children and adults with sepsis. Intensive Care Medicine, 50 (4), 539-547. doi: 10.1007/s00134-024-07353-3
He, Zhijie, Wang, Cong, Guo, Xudong, Sun, Heyun, Bi, Yue, Pitt, Miranda E., Li, Chen, Song, Jiangning, Coin, Lachlan J. M. and Li, Fuyi (2024). MERITS: a web-based integrated mycobacterial PE/PPE protein database. Bioinformatics Advances, 4 (1) vbae035, vbae035. doi: 10.1093/bioadv/vbae035
Yew, Yik Weng, Chang, Bill Rong Qin, Mina, Theresia, Riboli, Elio, Lee, Eng Sing, Ngeow, Joanne, Elliott, Paul, Chambers, John C., Lee, Jimmy and Loh, Marie (2024). Association of atopic dermatitis with depression and sleep quality in an Asian general population cohort of 8887 participants. Journal of the European Academy of Dermatology and Venereology, 38 (7), E622-E624. doi: 10.1111/jdv.19836
Harris, Patrick N. A., Bauer, Michelle J., Lüftinger, Lukas, Beisken, Stephan, Forde, Brian M., Balch, Ross, Cotta, Menino, Schlapbach, Luregn, Raman, Sainath, Shekar, Kiran, Kruger, Peter, Lipman, Jeff, Bialasiewicz, Seweryn, Coin, Lachlan, Roberts, Jason A., Paterson, David L. and Irwin, Adam D. (2024). Rapid nanopore sequencing and predictive susceptibility testing of positive blood cultures from intensive care patients with sepsis. Microbiology Spectrum, 12 (2) e0306523, 1-16. doi: 10.1128/spectrum.03065-23
Wang, Cong, He, Zhijie, Jia, Runchang, Pan, Shirui, Coin, Lachlan J.M., Song, Jiangning and Li, Fuyi (2024). PLANNER: a multi-scale deep language model for the origins of replication site prediction. IEEE Journal of Biomedical and Health Informatics, 28 (4), 1-10. doi: 10.1109/JBHI.2024.3349584
Zhang, Shuxin, Shi, Jiahua, Li, Xuan, Tiwari, Ananda, Gao, Shuhong, Zhou, Xu, Sun, Xiaoyan, O'Brien, Jake W., Coin, Lachlan, Hai, Faisal and Jiang, Guangming (2023). Wastewater-based epidemiology of Campylobacter spp.: A systematic review and meta-analysis of influent, effluent, and removal of wastewater treatment plants. Science of The Total Environment, 903 166410, 1-13. doi: 10.1016/j.scitotenv.2023.166410
Jackson, Heather R., Zandstra, Judith, Menikou, Stephanie, Hamilton, Melissa Shea, McArdle, Andrew J., Fischer, Roman, Thorne, Adam M., Huang, Honglei, Tanck, Michael W., Jansen, Machiel H., De, Tisham, Agyeman, Philipp K A, Von Both, Ulrich, Carrol, Enitan D., Emonts, Marieke, Eleftheriou, Irini, Van der Flier, Michiel, Fink, Colin, Gloerich, Jolein, De Groot, Ronald, Moll, Henriette A., Pokorn, Marko, Pollard, Andrew J., Schlapbach, Luregn J. (PERFORM consortium), Tsolia, Maria N., Usuf, Effua, Wright, Victoria J., Yeung, Shunmay, Zavadska, Dace ... Kaforou, Myrsini (2023). A multi-platform approach to identify a blood-based host protein signature for distinguishing between bacterial and viral infections in febrile children (PERFORM): a multi-cohort machine learning study. The Lancet. Digital health, 5 (11), e774-e785. doi: 10.1016/S2589-7500(23)00149-8
Li, Fuyi, Wang, Cong, Guo, Xudong, Akutsu, Tatsuya, Webb, Geoffrey I., Coin, Lachlan J. M., Kurgan, Lukasz and Song, Jiangning (2023). ProsperousPlus: a one-stop and comprehensive platform for accurate protease-specific substrate cleavage prediction and machine-learning model construction. Briefings in Bioinformatics, 24 (6) bbad372, 1-14. doi: 10.1093/bib/bbad372
Wu, Jiangping, Zhang, Shuxin, Chen, Yan, Zhao, Jiawei, Prosun, Tanjila, O’Brien, Jake William, Mueller, Jochen F., Tscharke, Ben J., Coin, Lachlan J.M, Luby, Stephen P., Hai, Faisal I., Buchanan, Tanya and Jiang, Guangming (2023). Associations between wastewater microbiome and population smoking rate identified using wastewater-based epidemiology. Environment and Health, 1 (6), 394-404. doi: 10.1021/envhealth.3c00105
Zhang, Shuxin, Shi, Jiahua, Li, Xuan, Coin, Lachlan, O'Brien, Jake W., Sivakumar, Muttucumaru, Hai, Faisal and Jiang, Guangming (2023). Triplex qPCR assay for Campylobacter jejuni and Campylobacter coli monitoring in wastewater. Science of The Total Environment, 892 164574, 1-8. doi: 10.1016/j.scitotenv.2023.164574
Habgood-Coote, Dominic, Wilson, Clare, Shimizu, Chisato, Barendregt, Anouk M., Philipsen, Ria, Galassini, Rachel, Calle, Irene Rivero, Workman, Lesley, Agyeman, Philipp K.A., Ferwerda, Gerben, Anderson, Suzanne T., van den Berg, J. Merlijn, Emonts, Marieke, Carrol, Enitan D., Fink, Colin G., de Groot, Ronald, Hibberd, Martin L., Kanegaye, John, Nicol, Mark P., Paulus, Stéphane, Pollard, Andrew J., Salas, Antonio, Secka, Fatou, Schlapbach, Luregn J., Tremoulet, Adriana H., Walther, Michael, Zenz, Werner, Van der Flier, Michiel, Zar, Heather J. ... Kaforou, Myrsini (2023). Diagnosis of childhood febrile illness using a multi-class blood RNA molecular signature. Med, 4 (9), 635-654.e5. doi: 10.1016/j.medj.2023.06.007
Li, Fuyi, Guo, Xudong, Bi, Yue, Jia, Runchang, Pitt, Miranda E., Pan, Shirui, Li, Shuqin, Gasser, Robin B., Coin, Lachlan J. M. and Song, Jiangning (2023). Digerati – a multipath parallel hybrid deep learning framework for the identification of mycobacterial PE/PPE proteins. Computers in Biology and Medicine, 163 107155, 1-11. doi: 10.1016/j.compbiomed.2023.107155
Hall, Michael B., Lima, Leandro, Coin, Lachlan J. M. and Iqbal, Zamin (2023). Drug resistance prediction for Mycobacterium tuberculosis with reference graphs. Microbial Genomics, 9 (8) 001081, 1-14. doi: 10.1099/mgen.0.001081
Bader, Stefanie M., Cooney, James P., Sheerin, Dylan, Taiaroa, George, Harty, Leigh, Davidson, Kathryn C., Mackiewicz, Liana, Dayton, Merle, Wilcox, Stephen, Whitehead, Lachlan, Rogers, Kelly L., Georgy, Smitha Rose, Coussens, Anna K., Grimley, Samantha L., Corbin, Vincent, Pitt, Miranda, Coin, Lachlan, Pickering, Raelene, Thomas, Merlin, Allison, Cody C., McAuley, Julie, Purcell, Damian F. J., Doerflinger, Marcel and Pellegrini, Marc (2023). SARS-CoV-2 mouse adaptation selects virulence mutations that cause TNF-driven age-dependent severe disease with human correlates. Proceedings of the National Academy of Sciences, 120 (32) e2301689120, e2301689120-32. doi: 10.1073/pnas.2301689120
Zhu, Yan, Li, Fuyi, Guo, Xudong, Wang, Xiaoyu, Coin, Lachlan J. M., Webb, Geoffrey I., Song, Jiangning and Jia, Cangzhi (2023). TIMER is a Siamese neural network-based framework for identifying both general and species-specific bacterial promoters. Briefings in Bioinformatics, 24 (4) bbad209, 1-12. doi: 10.1093/bib/bbad209
Chen, Andrew, Sun, Jiaman, Viljoen, Altus, Mostert, Diane, Xie, Yucong, Mangila, Leroy, Bothma, Sheryl, Lyons, Rebecca, Hřibová, Eva, Christelová, Pavla, Uwimana, Brigitte, Amah, Delphine, Pearce, Stephen, Chen, Ning, Batley, Jacqueline, Edwards, David, Doležel, Jaroslav, Crisp, Peter, Brown, Allan F., Martin, Guillaume, Yahiaoui, Nabila, D’Hont, Angelique, Coin, Lachlan, Swennen, Rony and Aitken, Elizabeth A. B. (2023). Genetic mapping, candidate gene identification and marker validation for host plant resistance to the race 4 of Fusarium oxysporum f. sp. cubense using Musa acuminata ssp. malaccensis. Pathogens, 12 (6) 820, 820. doi: 10.3390/pathogens12060820
Quah, Pin Shie, Tran, Bang M., Corbin, Vincent D. A., Chang, Jessie J.-Y., Wong, Chinn Yi, Diaz-Méndez, Andrés, Hartley, Carol A., Zeng, Weiguang, Hanssen, Eric, Trifunovic, Zlatan, Reading, Patrick C., Jackson, David C., Vincan, Elizabeth, Coin, Lachlan J. M. and Deliyannis, Georgia (2023). Development of matrix-embedded bovine tracheal organoids to study the innate immune response against bovine respiratory disease. Organoids, 2 (2), 82-101. doi: 10.3390/organoids2020007
Chen, Ruyi, Li, Fuyi, Guo, Xudong, Bi, Yue, Li, Chen, Pan, Shirui, Coin, Lachlan J M and Song, Jiangning (2023). ATTIC is an integrated approach for predicting A-to-I RNA editing sites in three species. Briefings in Bioinformatics, 24 (3) bbad170. doi: 10.1093/bib/bbad170
Zhang, Shuxin, Shi, Jiahua, Sharma, Elipsha, Li, Xuan, Gao, Shuhong, Zhou, Xu, O'Brien, Jake, Coin, Lachlan, Liu, Yanchen, Sivakumar, Muttucumaru, Hai, Faisal and Jiang, Guangming (2023). In-sewer decay and partitioning of Campylobacter jejuni and Campylobacter coli and implications for their wastewater surveillance. Water Research, 233 119737, 1-9. doi: 10.1016/j.watres.2023.119737
Davies, Mark R., Keller, Nadia, Brouwer, Stephan, Jespersen, Magnus G., Cork, Amanda J., Hayes, Andrew J., Pitt, Miranda E., De Oliveira, David M. P., Harbison-Price, Nichaela, Bertolla, Olivia M., Mediati, Daniel G., Curren, Bodie F., Taiaroa, George, Lacey, Jake A., Smith, Helen V., Fang, Ning-Xia, Coin, Lachlan J. M., Stevens, Kerrie, Tong, Steven Y. C., Sanderson-Smith, Martina, Tree, Jai J., Irwin, Adam D., Grimwood, Keith, Howden, Benjamin P., Jennison, Amy V. and Walker, Mark J. (2023). Detection of Streptococcus pyogenes M1UK in Australia and characterization of the mutation driving enhanced expression of superantigen SpeA. Nature Communications, 14 (1) 1051, 1-12. doi: 10.1038/s41467-023-36717-4
Kanagasabai, Thirumagal, Carter, Ellison, Yan, Li, Chan, Queenie, Elliott, Paul, Ezzati, Majid, Kelly, Frank, Xie, Gaoqiang, Yang, Xudong, Zhao, Liancheng, Guo, Dongshuang, Daskalopoulou, Stella S., Wu, Yangfeng and Baumgartner, Jill (2023). Cross-sectional study of household solid fuel use and renal function in older adults in China. Environmental Research, 219 115117, 1-11. doi: 10.1016/j.envres.2022.115117
Chen, Andrew, Sun, Jiaman, Martin, Guillaume, Gray, Lesley-Ann, Hřibová, Eva, Christelová, Pavla, Yahiaoui, Nabila, Rounsley, Steve, Lyons, Rebecca, Batley, Jacqueline, Chen, Ning, Hamill, Sharon, Rai, Subash K., Coin, Lachlan, Uwimana, Brigitte, D’Hont, Angelique, Doležel, Jaroslav, Edwards, David, Swennen, Rony and Aitken, Elizabeth A. B. (2023). Identification of a major QTL-controlling resistance to the Subtropical Race 4 of Fusarium oxysporum f. sp. cubense in Musa acuminata ssp. malaccensis. Pathogens, 12 (2) 289, 1-13. doi: 10.3390/pathogens12020289
Yin, Xuejun, Paige, Ellie, Tian, Maoyi, Li, Qiang, Huang, Liping, Yu, Jie, Rodgers, Anthony, Elliott, Paul, Wu, Yangfeng and Neal, Bruce (2023). The proportion of dietary salt replaced with potassium-enriched salt in the SSaSS: implications for scale-up. Hypertension, 80 (5), 956-965. doi: 10.1161/HYPERTENSIONAHA.122.20115
Zagkos, Loukas, Dib, Marie-Joe, Pinto, Rui, Gill, Dipender, Koskeridis, Fotios, Drenos, Fotios, Markozannes, Georgios, Elliott, Paul, Zuber, Verena, Tsilidis, Kostas, Dehghan, Abbas and Tzoulaki, Ioanna (2022). Associations of genetically predicted fatty acid levels across the phenome: a mendelian randomisation study. PLoS Medicine, 19 (12) e1004141, 1-20. doi: 10.1371/journal.pmed.1004141
Whitaker, Matthew, Elliott, Joshua, Bodinier, Barbara, Barclay, Wendy, Ward, Helen, Cooke, Graham, Donnelly, Christl A., Chadeau-Hyam, Marc and Elliott, Paul (2022). Variant-specific symptoms of COVID-19 in a study of 1,542,510 adults in England. Nature Communications, 13 (1) 6856, 1-10. doi: 10.1038/s41467-022-34244-2
Blaskovich, Mark A.T., Hansford, Karl A., Butler, Mark S., Ramu, Soumya, Kavanagh, Angela M., Jarrad, Angie M., Prasetyoputri, Anggia, Pitt, Miranda E., Huang, Johnny X., Lindahl, Fredrik, Ziora, Zyta M., Bradford, Tanya, Muldoon, Craig, Rajaratnam, Premraj, Pelingon, Ruby, Edwards, David J., Zhang, Bing, Amado, Maite, Elliott, Alysha G., Zuegg, Johannes, Coin, Lachlan, Woischnig, Anne-Kathrin, Khanna, Nina, Breidenstein, Elena, Stincone, Anna, Mason, Clive, Khan, Nawaz, Cho, Hye-Kyung, Karau, Melissa J. ... Cooper, Matthew A. (2022). A lipoglycopeptide antibiotic for Gram-positive biofilm-related infections. Science Translational Medicine, 14 (662) abj2381, 1-16. doi: 10.1126/scitranslmed.abj2381
Blaskovich, Mark A.T., Hansford, Karl A., Butler, Mark S., Ramu, Soumya, Kavanagh, Angela M., Jarrad, Angie M., Prasetyoputri, Anggia, Pitt, Miranda E., Huang, Johnny X., Lindahl, Fredrik, Ziora, Zyta M., Bradford, Tanya, Muldoon, Craig, Rajaratnam, Premraj, Pelingon, Ruby, Edwards, David J., Zhang, Bing, Amado, Maite, Elliott, Alysha G., Zuegg, Johannes, Coin, Lachlan, Woischnig, Anne-Kathrin, Khanna, Nina, Breidenstein, Elena, Stincone, Anna, Mason, Clive, Khan, Nawaz, Cho, Hye-Kyung, Karau, Melissa J. ... Cooper, Matthew A. (2022). A lipoglycopeptide antibiotic for Gram-positive biofilm-related infections. Science Translational Medicine, 14 (662) abj2381. doi: 10.1126/scitranslmed.abj238
Liu, Quanzhong, Fang, Honglin, Wang, Xiao, Wang, Miao, Li, Shuqin, Coin, Lachlan J M, Li, Fuyi and Song, Jiangning (2022). DeepGenGrep: a general deep learning-based predictor for multiple genomic signals and regions. Bioinformatics (Oxford, England), 38 (17) btac454, 4053-4061. doi: 10.1093/bioinformatics/btac454
Kumar, Vikrant, Pouw, Richard B., Autio, Matias I., Sagmeister, Manfred G., Phua, Zai Yang, Borghini, Lisa, Wright, Victoria J., Hoggart, Clive, Pan, Bangfen, Tan, Antson Kiat Yee, Binder, Alexander, Brouwer, Mieke C., Pinnock, Ellie, De Groot, Ronald, Hazelzet, Jan, Emonts, Marieke, Van Der Flier, Michiel, Reiter, Karl, Nöthen, Markus M., Hoffmann, Per, Schlapbach, Luregn J., Bellos, Evangelos, Anderson, Suzanne, Secka, Fatou, Martinón-Torres, Federico, Salas, Antonio, Fink, Colin, Carrol, Enitan D., Pollard, Andrew J. ... Davila, Sonia (2022). Variation in CFHR3 determines susceptibility to meningococcal disease by controlling factor H concentrations. American Journal of Human Genetics, 109 (9), 1680-1691. doi: 10.1016/j.ajhg.2022.08.001
Hall, Michael B and Coin, Lachlan J M (2022). Assessment of the 2021 WHO Mycobacterium tuberculosis drug resistance mutation catalogue on an independent dataset. The Lancet Microbe, 3 (9), e645-E645. doi: 10.1016/S2666-5247(22)00151-3
Elliott, Paul, Eales, Oliver, Bodinier, Barbara, Tang, David, Wang, Haowei, Jonnerby, Jakob, Haw, David, Elliott, Joshua, Whitaker, Matthew, Walters, Caroline E., Atchison, Christina, Diggle, Peter J., Page, Andrew J., Trotter, Alexander J., Ashby, Deborah, Barclay, Wendy, Taylor, Graham, Ward, Helen, Darzi, Ara, Cooke, Graham S., Chadeau-Hyam, Marc and Donnelly, Christl A. (2022). Dynamics of a national Omicron SARS-CoV-2 epidemic during January 2022 in England. Nature Communications, 13 (1) 4500, 1-10. doi: 10.1038/s41467-022-32121-6
Elliott, Paul, Eales, Oliver, Steyn, Nicholas, Tang, David, Bodinier, Barbara, Wang, Haowei, Elliott, Joshua, Whitaker, Matthew, Atchison, Christina, Diggle, Peter J., Page, Andrew J., Trotter, Alexander J., Ashby, Deborah, Barclay, Wendy, Taylor, Graham, Ward, Helen, Darzi, Ara, Cooke, Graham S., Donnelly, Christl A. and Chadeau-Hyam, Marc (2022). Twin peaks: the Omicron SARS-CoV-2 BA.1 and BA.2 epidemics in England. Science, 376 (6600) eabq4411, 1-9. doi: 10.1126/science.abq4411
Bainomugisa, Arnold, Lavu, Evelyn, Pandey, Sushil, Majumdar, Suman, Banamu, Jennifer, Coulter, Chris, Marais, Ben, Coin, Lachlan, Graham, Stephen M. and du Cros, Philipp (2022). Evolution and spread of a highly drug resistant strain of Mycobacterium tuberculosis in Papua New Guinea. BMC Infectious Diseases, 22 (1) 437. doi: 10.1186/s12879-022-07414-2
Whitaker, Matthew, Elliott, Joshua, Chadeau-Hyam, Marc, Riley, Steven, Darzi, Ara, Cooke, Graham, Ward, Helen and Elliott, Paul (2022). Persistent COVID-19 symptoms in a community study of 606,434 people in England. Nature Communications, 13 (1) 1957, 1-10. doi: 10.1038/s41467-022-29521-z
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Meyre, David, Delplanque, Jerome, Chevre, Jean-Claude, Lecoeur, Cecile, Lobbens, Stephane, Gallina, Sophie, Durand, Emmanuelle, Vatin, Vincent, Degraeve, Franck, Proenca, Christine, Gaget, Stefan, Korner, Antje, Kovacs, Peter, Kiess, Wieland, Tichet, Jean, Marre, Michel, Hartikainen, Anna-Liisa, Horber, Fritz, Potoczna, Natascha, Hercberg, Serge, Levy-Marchal, Claire, Pattou, Francois, Heude, Barbara, Tauber, Maithe´, McCarthy, Mark I., Blakemore, Alexandra I. F., Montpetit, Alexandre, Polychronakos, Constantin, Weill, Jacques ... Froguel, Philippe (2009). Genome-wide association study for early-onset and morbid adult obesity identifies three new risk loci in European populations. Nature Genetics, 41 (2), 157-159. doi: 10.1038/ng.301
Sabatti, Chiara, Service, Susan K., Hartikainen, Anna-Liisa, Pouta, Anneli, Ripatti, Samuli, Brodsky, Jae, Jones, Chris G., Zaitlen, Noah A., Varilo, Teppo, Kaakinen, Marika, Sovio, Ulla, Ruokonen, Aimo, Laitinen, Jaana, Jakkula, Eveliina, Coin, Lachlan, Hoggart, Clive, Collins, Andrew, Turunen, Hannu, Gabriel, Stacey, Elliot, Paul, McCarthy, Mark I., Daly, Mark J., Jarvelin, Marjo-Riitta, Freimer, Nelson B. and Peltonen, Leena (2009). Genome-wide association analysis of metabolic traits in a birth cohort from a founder population. Nature Genetics, 41 (1), 35-46. doi: 10.1038/ng.271
Prokopenko, Inga, Langenberg, Claudia, Florez, Jose C., Saxena, Richa, Soranzo, Nicole, Thorleifsson, Gudmar, Loos, Ruth J. F., Manning, Alisa K., Jackson, Anne U., Aulchenko, Yurii, Potter, Simon C., Erdos, Michael R., Sanna, Serena, Hottenga, Jouke-Jan, Wheeler, Eleanor, Kaakinen, Marika, Lyssenko, Valeriya, Chen, Wei-Min, Ahmadi, Kourosh, Beckmann, Jacques S., Bergman, Richard N., Bochud, Murielle, Bonnycastle, Lori L., Buchanan, Thomas A., Cao, Antonio, Cervino, Alessandra, Coin, Lachlan, Collins, Francis S., Crisponi, Laura ... Abecasis, Goncalo R. (2009). Variants in MTNR1B influence fasting glucose levels. Nature Genetics, 41 (1), 77-81. doi: 10.1038/ng.290
Willer, Cristen J., Speliotes, Elizabeth K., Loos, Ruth J. F., Li, Shengxu, Lindgren, Cecilia M., Heid, Iris M., Berndt, Sonja I., Elliot, Amanda L., Jackson, Anne U., Lamina, Claudia, Lettre, Guillaume, Lim, Noha, Lyon, Helen N., McCarroll, Steven N., Papadakis, Konstantinos, Qi, Lu, Randall, Joshua C., Roccasecca, Rosa Maria, Sanna, Serena, Scheet, Paul, Weedon, Michael N., Wheeler, Eleanor, Zhao, Jing Hua, Jacobs, Leonie C., Prokopenko,, Soranzo, Nicole, Tanaka, Toshiko, Timpson, Nicholas J., Almgran, Peter ... GIANT consortium (2009). Six new loci associated with body mass index highlight a neuronal influence on body weight regulation. Nature Genetics, 41 (1), 25-34. doi: 10.1038/ng.287
Su, Shu-Yi, White, Jonathan, Balding, David J. and Coin, Lachlan J. M. (2008). Inference of haplotypic phase and missing genotypes in polyploid organisms and variable copy number genomic regions. BMC Bioinformatics, 9 (1) 513, 513.1-513.9. doi: 10.1186/1471-2105-9-513
Caulfield, Mark J., Munroe, Patricia B., O'Neill, Deb, Witkowska, Kate, Charchar, Fadi J., Doblado, Manuel, Evans, Sarah, Eyheramendy, Susana, Onipinla, Abiodun, Howard, Philip, Shaw-Hawkins, Sue, Dobson, Richard J., Wallace, Chris, Newhouse, Stephen J., Brown, Morris, Connell, John M., Dominiczak, Anna, Farrall, Martin, Lathrop, G. Mark, Samani, Nilesh J., Kumari, Meena, Marmot, Michael, Brunner, Eric, Chambers, John, Elliott, Paul, Kooner, Jaspal, Laan, Maris, Org, Elin, Veldre, Gudrun ... Cheeseman, Chris (2008). SLC2A9 Is a High-Capacity Urate Transporter in Humans. Plos Medicine, 5 (10) E197, 1509-1523. doi: 10.1371/journal.pmed.0050197
de Smith, Adam J., Walters, Robin G., Coin, Lachlan J. M., Steinfeld, Israel, Yakhini, Zohar, Sladek, Rob, Froguel, Philippe and Blakemore, Alexandra I. F. (2008). Small deletion variants have stable breakpoints commonly associated with Alu elements. PLoS ONE, 3 (8) e3104, e3104.1-e3104.11. doi: 10.1371/journal.pone.0003104
Su, Shu-Yi, Balding, David J. and Coin, Lachlan J. M. (2008). Disease association tests by inferring ancestral haplotypes using a hidden markov model. Bioinformatics, 24 (7), 972-978. doi: 10.1093/bioinformatics/btn071
Ruan, Jue, Li, Heng, Chen, Zhongzhong, Coghlan, Avril, Coin, Lachlan James M., Guo, Yiran, Heacute;riché, Jean-Karim, Hu, Yafeng, Kristiansen, Karsten, Li, Ruiqiang, Liu, Tao, Moses, Alan, Qin, Junjie, Vang, Søren, Vilella, Albert J., Ureta-Vidal, Abel, Bolund, Lars, Wang, Jun and Durbin, Richard (2008). TreeFam: 2008 Update. Nucleic Acids Research, 36 (SUPPL. 1), D735-D740. doi: 10.1093/nar/gkm1005
Li, Heng, Coghlan, Avril, Ruan, Jue, Coin, Lachlan James, Heriche, Jean-Karim, Osmotherly, Lara, Li, Ruiqiang, Liu, Tao, Zhang, Zhang, Bolund, Lars, Wong, Gane Ka-Shu, Zheng, Weimou, Dehal, Paramvir, Wang, Jun and Durbin, Richard (2006). TreeFam: a curated database of phylogenetic trees of animal gene families. Nucleic Acids Research, 34 (Database issue), D572-D580. doi: 10.1093/nar/gkj118
Goeb, J, Leblanc-Deshayes, M, Coin, L, Malka, J, Bouderlique, C and Duverger, R (2004). Neonatal death of a newborn twin. Archives De Pediatrie, 11 (9), 1135-1138. doi: 10.1016/S0929-693X(04)00061-2
Coin L., Bateman A. and Durbin R. (2004). Enhanced protein domain discovery using taxonomy. BMC Bioinformatics, 5 (1) 56. doi: 10.1186/1471-2105-5-56
Futreal, PA, Coin, L, Marshall, M, Down, T, Hubbard, T, Wooster, R, Rahman, N and Stratton, MR (2004). A census of human cancer genes. Nature Reviews Cancer, 4 (3), 177-183. doi: 10.1038/nrc1299
Bateman, A, Coin, L, Durbin, R, Finn, RD, Hollich, V, Griffiths-Jones, S, Khanna, A, Marshall, M, Moxon, S, Sonnhammer, ELL, Studholme, DJ, Yeats, C and Eddy, SR (2004). The Pfam protein families database. Nucleic Acids Research, 32 (DATABASE ISS.), D138-D141. doi: 10.1093/nar/gkh121
Coin, L. and Durbin, R. (2004). Improved techniques for the identification of pseudogenes. Bioinformatics, 20 (SUPPL. 1), 94-100. doi: 10.1093/bioinformatics/bth942
Coin, Lachlan, Bateman, Alex and Durbin, Richard (2003). Enhanced protein domain discovery by using language modeling techniques from speech recognition. Proceedings of the National Academy of Sciences of the United States of America, 100 (8), 4516-4520. doi: 10.1073/pnas.0737502100
Conference Papers
Kc, S., Venema, T., Parchen, R., Coin, L. and Blaskovich, M. (2022). Nanoparticle-enhanced digitof for detection of e. coli directly from urine. IFCC WorldLab Congress, Seoul, South Korea, 26-30 June 2022. Amsterdam, Netherlands: Elsevier. doi: 10.1016/j.cca.2022.04.818
Ngo, Ha, Crew, Kathy S., Vance, Megan, Thomas, John, Nguyen, Son, Duarte, Tania, Coin, Lachlan and Geering, Andrew (2019). New achievements for diagnostics of banana streak virus. Australasian Plant Pathology Society 22nd Biennial Conference, Melbourne, Australia, 26-28 November 2019. Melbourne, Australia:
Georgiadou, Athina, Bretscher, Michael, Lee, Hyun, Walther, Michael, van Beek, Anna, Fitriani, Fadlila, Wouters, Diana, Kuijpers, Taco, Nwakanma, Davis, Riley, Eleanor, Levin, Michael, Coin, Lachlan, Ghani, Azra, Conway, David and Cunnington, Aubrey (2018). COMBINING RNA-SEQUENCING AND MATHEMATICAL MODELLING TO IDENTIFY MECHANISTIC CORRELATES OF PROTECTION IN MALARIA. 67th Annual Meeting of the American-Society-of-Tropical-Medicine-and-Hygiene (ASTHM), New Orleans La, Oct 28-Nov 01, 2018. MCLEAN: AMER SOC TROP MED & HYGIENE.
Shimizu, Chisato, Kim, Jihoon, Eleftherohorinou, Hariklia, Wright, Victoria, Hoang, Long, Tremoulet, Adriana, Franco, Alessandra, Hibberd, Martin, Takahashi, Atsushi, Kubo, Michiaki, Ito, Kaoru, Tanaka, Toshihiro, Onouchi, Yoshihiro, Coin, Lachlan, Levin, Michael, Burns, Jane and Shike, Hiroko (2017). Genetic Variants in HLA-C and Class I Pathway Genes Influence Susceptibility to Kawasaki Disease. 81st Annual Meeting of the American-College-of-Rheumatology (ACR) / Association-of-Rheumatology-Health-Professionals (ARHP), San Diego Ca, Nov 03-08, 2017. HOBOKEN: WILEY.
De, T., Prokopenko, I., Jarvelin, M. -R. and Coin, L. (2015). Metabonomic Signatures of CNVs in TSPAN8 Exonic Regions Associated with Type 2 Diabetes. 43rd European Mathematical Genetics Meeting (EMGM), Brest, France, 16-17 April 2015. Basel, Switzerland: S. Karger AG. doi: 10.1159/000381109
Schumann, G., Coin, L., Lourdusamy, A., Charoen, P., Stacey, D., Desrivieres, S., Jarvelin, M. R. and Elliott, P. (2010). Identification of Genes Associated with Alcohol Consumption. World Congress on International-Society-for-Biomedical-Research-on-Alcoholism, Paris France, Sep 13-16, 2010.
Munhoz, Renato P., Teive, Helio A., Eleftherohorinou, Hariklia, Coin, Lachlan J., Lees, Andrew, Werneck, Lineu and Silveira-Moriyama, Laura (2010). Can Motor Features of Parkinson's Disease Be Used To Predict Occurrence of Non-Motor Symptoms of the Disease?. 62nd Annual Meeting of the American-Academy-of-Neurology, Toronto Canada, Apr 10-17, 2010. LIPPINCOTT WILLIAMS & WILKINS.
Trewick, Anne L., Froguel, P., Coin, L. J. M. and Blakemore, A. I. F. (2009). Assignment of trisomic genotypes using the Sequenom iPLEX MALDI TOF assay reveals transmission disequilibrium of two SNP loci in the Type VI Collagen gene cluster associated with CHD in Down's Syndrome.. British Human Genetics Conference, York England, Aug 31-Sep 02, 2009. LONDON: B M J PUBLISHING GROUP.
Buxton, Jessica, Coin, L. J. M., Walters, R. G., Andersson, J., de Smith, A. J., Moustafa, J. S. El-Sayed, Sladek, R., Froguel, P. and Blakemore, A. I. F. (2009). Identification and validation of novel genomic CNVs associated with Type 2 diabetes. British Human Genetics Conference, York England, Aug 31-Sep 02, 2009. LONDON: B M J PUBLISHING GROUP.
Moustafa, Julia Sarah El-Sayed, Coin, L. J. M., de Smith, A. J., Walters, R. G., Buxton, J. L., Asher, J. E., Meyre, D., Dina, C., Froguel, P. and Blakemore, A. I. F. (2009). CNVs in Obesity: Uncovering a New Level of Genomic Variation. British Human Genetics Conference, York England, Aug 31-Sep 02, 2009. B M J PUBLISHING GROUP.
Elliott, P., Chambers, J. C., Zhang, W., Clarke, R., Peden, J. F., Erdmann, J., Braund, P., Engert, J., Hopewell, J., Coin, Lachlan, Ashby, D., McCarthy, M. I., Farrall, M., Jarvelin, Marjo-Riitta, Scott, J., Hall, A. S., Schunkert, H., Anand, S. S., Collins, R., Samani, N., Watkins, H. and Kooner, J. S. (2009). Genetic Loci Influencing C-Reactive Protein Levels and Coronary Heart Disease Risk: Results of Genetic Association and Mendelian Randomisation Study with Meta-Analysis in 80 614 People. Annual Scientific Conference of the British-Cardiovascular-Society, London England, Jun 01-03, 2009. LONDON: B M J PUBLISHING GROUP.
Su, S.-Y., Balding, D. J. and Coin, L. (2007). Using haplotype clustering techniques to perform genome-wide disease association studies. 16th Annual Meeting of the International-Genetic-Epidemiology-Society, York England, Sep 07-10, 2007. HOBOKEN: WILEY-LISS.
Preprint
Data Collections
Coin, Lachlan, Zhang, Jianshu(Josh) and Ganesamoorthy, Devika (2025). Nanopore sepsis direct RNA. The University of Queensland. (Dataset) doi: 10.48610/ac61d77
Ganesamoorthy, Devika and Coin, Lachlan (2024). Paediatric sepsis whole blood transcriptomics. The University of Queensland. (Dataset) doi: 10.48610/7f1ad77
Coin, Lachlan (2019). Sputum Metagenomics. The University of Queensland. (Dataset) doi: 10.48610/1dd1c4b
Coin, Lachlan (2014). Genomics of development and disease. The University of Queensland. (Collection) doi: 10.14264/uql.2016.583