Medhavy, Arti, Athanasopoulos, Vicki, Bassett, Katharine, He, Yuke, Stanley, Maurice, Enosi Tuipulotu, Daniel, Cappello, Jean, Brown, Grant J., Gonzalez-Figueroa, Paula, Turnbull, Cynthia, Shanmuganandam, Somasundhari, Tummala, Padmaja, Hart, Gemma, Lea-Henry, Tom, Wang, Hao, Nambadan, Sonia, Shen, Qian, Roco, Jonathan A., Burgio, Gaetan, Wu, Phil, Cho, Eun, Andrews, T. Daniel, Field, Matt A., Wu, Xiaoqian, Ding, Huihua, Guo, Qiang, Shen, Nan, Man, Si Ming, Jiang, Simon H., Cook, Matthew C., and Vinuesa, Carola G. (2024) A TNIP1-driven systemic autoimmune disorder with elevated IgG4. Nature Immunology. (In Press)

Zhang, Jia, Schneller, Nadja M., Field, Matt A., Chan, Cheong Xin, Miller, David J., Strugnell, Jan M., Riginos, Cynthia, Bay, Line, and Cooke, Ira (2024) Chromosomal inversions harbour excess mutational load in the coral, Acropora kenti, on the Great Barrier Reef. Molecular Ecology, 33 (16). e17468.

Ballard, J. William O., Field, Matt A., Edwards, Richard J., Wilson, Laura A.B., Koungoulos, Loukas G., Rosen, Benjamin D., Chernoff, Barry, Dudchenko, Olga, Omer, Arina, Keilwagen, Jens, Skvortsova, Ksenia, Bogdanovic, Ozren, Chan, Eva, Zammit, Robert, Hayes, Vanessa, and Aiden, Erez Lieberman (2023) The Australasian dingo archetype: de novo chromosome-length genome assembly, DNA methylome, and cranial morphology. GigaScience, 12. giad018.

Pierce, Doris R., Mcdonald, Malcolm, Merone, Leanne, Becker, Luke, Thompson, Fintan, Lewis, Chris, Ryan, Rachael Y.M., Hii, Sze Fui, Zendejas-Heredia, Patsy, Traub, Rebecca J., Field, Matthew A., Rahman, Tony, Croese, John, Loukas, Alex, McDermott, Robyn, and Giacomin, Paul R. (2023) Effect of experimental hookworm infection on insulin resistance in people at risk of type 2 diabetes. Nature Communications, 14. 4503.

Gillman, Rhys, Field, Matt A., Schmitz, Ulf, Karamatic, Rozemary, and Hebbard, Lionel (2023) Identifying cancer driver genes in individual tumours. Computational and Structural Biotechnology Journal, 21. pp. 5028-5038.

Wong, Yide, Pearson, Mark S., Fedorova, Olga, Ivanov, Vladimir, Khmelevskaya, Ekaterina, Tedla, Bemnet, Arachchige, Buddhika Jayakody, Reed, Sarah, Field, Matt, Laha, Thewarach, Loukas, Alex, and Sotillo-Gallego, Javier (2023) Secreted and surface proteome and transcriptome of Opisthorchis felineus. Frontiers in Parasitology, 2. 1195457.

Moxon, Joseph V., Calcino, Andrew, Kraeuter, Ann-Katrin, Phie, James, Anderson, Georgina, Standley, Glenys, Sealey, Cindy, Jones, Rhondda E., Field, Matt A., and Golledge, Jonathan (2023) A case-control comparison of acute-phase peripheral blood gene expression in participants diagnosed with minor ischaemic stroke or stroke mimics. Human Genomics, 17. 106.

Moxon, Joseph V., Calcino, Andrew, Kraeuter, Ann-Katrin, Phie, James, Anderson, Georgina, Standley, Glenys, Sealey, Cindy, Jones, Rhondda E., Field, Matt A., and Golledge, Jonathan (2023) A case–control comparison of acute-phase peripheral blood gene expression in participants diagnosed with minor ischaemic stroke or stroke mimics. Human Genomics, 17. 106.

Khudhair, Zainab, Alhallaf, Rafid, Eichenberger, Ramon M., Field, Matt, Krause, Lutz, Sotíllo, Javier, and Loukas, Alex (2022) Administration of Hookworm Excretory/Secretory Proteins Improves Glucose Tolerance in a Mouse Model of Type 2 Diabetes. Biomolecules, 12 (5). 637.

Field, Matt A., Yadav, Sonu, Dudchenko, Olga, Esvaran, Meera, Rosen, Benjamin D., Skvortsova, Ksenia, Edwards, Richard J., Keilwagen, Jens, Cochran, Blake J., Manandhar, Bikash, Bustamante, Sonia, Rasmussen, Jacob Agerbo, Melvin, Richard G., Chernoff, Barry, Omer, Arina, Colaric, Zane, Chan, Eva K.F., Minoche, Andre E., Smith, Timothy P.L., Gilbert, M.Thomas P., Bogdanovic, Ozren, Zammit, Robert A., Thomas, Torsten, Aiden, Erez L., and Ballard, J. William O. (2022) The Australian dingo is an early offshoot of modern breed dogs. Science Advances, 8 (16). eabm5944.

Field, Matt A. (2022) Bioinformatic Challenges Detecting Genetic Variation in Precision Medicine Programs. Frontiers in Medicine, 9. 806696.

Mekonnen, Gebeyaw G., Tedla, Bemnet A., Pearson, Mark S., Becker, Luke, Field, Matt, Amoah, Abena S., van Dam, Govert, Corstjens, Paul L.A.M., Mduluza, Takafira, Mutapi, Francisca, Loukas, Alex, and Sotillo, Javier (2022) Characterisation of tetraspanins from Schistosoma haematobium and evaluation of their potential as novel diagnostic markers. PLoS Neglected Tropical Diseases, 16 (1). e0010151.

Ratnatunga, Champa N., Tungatt, Katie, Proietti, Carla, Halstrom, Sam, Holt, Michael R., Lutzky, Viviana P., Price, Patricia, Doolan, Denise L., Bell, Scott C., Field, Matt A., Kupz, Andreas, Thomson, Rachel M., and Miles, John J. (2022) Characterizing and correcting immune dysfunction in non-tuberculous mycobacterial disease. Frontiers in Immunology, 13. 1047781.

Phie, James, Thanigaimani, Shivshankar, Huynh, Pacific, Anbalagan, Raghuveeran, Moran, Corey S., Kinobe, Robert, Moxon, Joseph, Field, Matt A., Krishna, Smriti M., and Golledge, Jonathan (2022) Colchicine Does Not Reduce Abdominal Aortic Aneurysm Growth in a Mouse Model. Cardiovascular Therapeutics, 2022. 5299370.

Schmidt, Casey A., Cooke, Ira, Wilson, David T., Miller, David J., Peigneur, Steve, Tytgat, Jan, Field, Matthew, Takjoo, Rozita, Smout, Michael J., Loukas, Alex, and Daly, Norelle L. (2022) Newly Discovered Peptides from the Coral Heliofungia actiniformis Show Structural and Functional Diversity. Journal of Natural Products, 85 (7). pp. 1789-1798.

Ryan, Stephanie M., Ruscher, Roland, Johnston, Wayne A., Pickering, Darren A., Kennedy, Malcolm W., Smith, Brian O., Jones, Linda, Buitrago, Geraldine, Field, Matt A., Esterman, Adrian J., McHugh, Connor P., Browne, Daniel J., Cooper, Martha M., Ryan, Rachael Y.M., Doolan, Denise L., Engwerda, Christian R., Miles, Kim, Mitreva, Makedonka, Croese, John, Rahman, Tony, Alexandrov, Kirill, Giacomin, Paul R., and Loukas, Alex (2022) Novel antiinflammatory biologics shaped by parasite–host coevolution. Proceedings of the National Academy of Sciences of the United States of America, 119 (36). e2202795119.

Cobos, Claudia, Bansal, Paramjit S., Wilson, David T., Jones, Linda, Zhao, Guangzu, Field, Matthew A., Eichenberger, Ramon M., Pickering, Darren A., Ryan, Rachael Y.M., Ratnatunga, Champa N., Miles, John J., Ruscher, Roland, Giacomin, Paul R., Navarro, Severine, Loukas, Alex, and Daly, Norelle L. (2022) Peptides derived from hookworm anti-inflammatory proteins suppress inducible colitis in mice and inflammatory cytokine production by human cells. Frontiers in Medicine, 9. 934852.

Chuah, Aaron, Li, Sean, Do, Andrea, Field, Matt, and Andrews, Daniel (2022) StabilitySort: assessment of protein stability changes on a genome-wide scale to prioritize potentially pathogenic genetic variation. Bioinformatics, 38 (17). pp. 4220-4222.

Miles, John, Watkins, Thomas, Darko, Sam, Wijaya, Kuatrinnus, Cooper, Martha, Ransier, Amy, Waardenberg, Ashley, Amante, Fiona, Mccarthy, James, Price, David, Burrows, Scott, Doolan, Denise, Field, Matt, and Douek, Daniel (2022) T cell differentiation and lineage choice are determined by the TCR. FASEB Journal, 36 (S1).

Brown, Grant J., Cañete, Pablo F., Wang, Hao, Medhavy, Arti, Bones, Josiah, Roco, Jonathan A., He, Yuke, Qin, Yuting, Cappello, Jean, Ellyard, Julia I., Bassett, Katharine, Shen, Qian, Burgio, Gaetan, Zhang, Yaoyuan, Turnbull, Cynthia, Meng, Xiangpeng, Wu, Phil, Cho, Eun, Miosge, Lisa A., Andrews, T. Daniel, Field, Matt A., Tvorogov, Denis, Lopez, Angel F., Babon, Jeffrey J., López, Cristina Aparicio, Gónzalez-Murillo, África, Garulo, Daniel Clemente, Pascual, Virginia, Levy, Tess, Mallack, Eric J., Calame, Daniel G., Lotze, Timothy, Lupski, James R., Ding, Huihua, Ullah, Tomalika R., Walters, Giles D., Koina, Mark E., Cook, Matthew C., Shen, Nan, de Lucas Collantes, Carmen, Corry, Ben, Gantier, Michael P., Athanasopoulos, Vicki, and Vinuesa, Carola G. (2022) TLR7 gain-of-function genetic variation causes human lupus. Nature, 605. pp. 349-356.

Swan, Tom, Russell, Tanya L., Staunton, Kyran M., Field, Matt A., Ritchie, Scott A., and Burkot, Thomas R. (2022) A literature review of dispersal pathways of Aedes albopictus across different spatial scales: implications for vector surveillance. Parasites & Vectors, 15 (1). 303.

Edwards, Richard J., Field, Matt A., Ferguson, James M., Dudchenko, Olga, Keilwagen, Jens, Rosen, Benjamin D., Johnson, Gary S., Rice, Edward S., Hillier, La Deanna, Hammond, Jillian M., Towarnicki, Samuel G., Omer, Arina, Khan, Ruqayya, Skvortsova, Ksenia, Bogdanovic, Ozren, Zammit, Robert A., Aiden, Erez Lieberman, Warren, Wesley C., and Ballard, J. William O. (2021) Chromosome-length genome assembly and structural variations of the primal Basenji dog (Canis lupus familiaris) genome. BMC Genomics, 22. 188.

Greenfield, Melinda J., Lach, Lori, Congdon, Brad C., Anslan, Sten, Tedersoo, Leho, Field, Matt, and Abell, Sandra E. (2021) Consistent patterns of fungal communities within ant-plants across a large geographic range strongly suggest a multipartite mutualism. Mycological Progress, 20. pp. 681-699.

Jiang, Simon H., Mercan, Sevcan, Papa, Ilenia, Moldovan, Max, Walters, Giles D., Koina, Mark, Fadia, Mitali, Stanley, Maurice, Lea-Henry, Tom, Cook, Amelia, Ellyard, Julia, McMorran, Brendan, Sundaram, Madhivanan, Thomson, Russell, Canete, Pablo F., Hoy, Wendy, Hutton, Holly, Srivastava, Monika, McKeon, Kathryn, de la Ru´a Figueroa, In˜igo, Cervera, Ricard, Faria, Raquel, D'Alfonso, Sandra, Gatto, Mariele, Athanasopoulos, Vicki, Field, Matthew, Mathews, John, Cho, Eun, Andrews, Thomas D., Kitching, A. Richard, Cook, Matthew C., Alarcon Riquelme, Marta, Bahlo, Melanie, and Vinuesa, Carola G. (2021) Deletions in VANGL1 are a risk factor for antibody-mediated kidney disease. Cell Reports Medicine, 2. 100475.

Hamzeh, Abdul Rezzak, Andrews, T. Daniel, and Field, Matt A. (2021) Detecting Causal Variants in Mendelian Disorders Using Whole-Genome Sequencing. In: Noam, Shomron, (ed.) Deep Sequencing Data Analysis. Methods in Molecular Biology, 2243 . Humana Press, New York, NY, USA, pp. 1-25.

Heijmenberg, Isis, Husain, Aliabbas, Sathkumara Mudiyanse, Harindra D., Muruganandah, Visai, Seifert, Julia, Miranda-Hernandez, Socorro, Kashyap, Rajpal Singh, Field, Matt A., Krishnamoorthy, Gopinath, and Kupz, Andreas (2021) ESX-5-targeted export of ESAT-6 in BCG combines enhanced immunogenicity & efficacy against murine tuberculosis with low virulence and reduced persistence. Vaccine, 39 (50). pp. 7265-7276.

McConnell, Hannah, Andrews, T. Daniel, and Field, Matt A. (2021) Efficacy of computational predictions of the functional effect of idiosyncratic pharmacogenetic variants. PeerJ, 9. e11774.

Khudhair, Zainab, Alhallaf, Rafid, Eichenberger, Ramon M., Whan, Jen, Kupz, Andreas, Field, Matt, Krause, Lutz, Wilson, David T., Daly, Norelle L., Giacomin, Paul, Sotillo, Javier, and Loukas, Alex (2021) Gastrointestinal helminth infection improves insulin sensitivity, decreases systemic inflammation, and alters the composition of gut microbiota in distinct mouse models of Type 2 diabetes. Frontiers in Endocrinology, 11. 606530.

Haigh, Oscar L., Grant, Emma J., Nguyen, Thi H.O., Kedzierska, Katherine, Field, Matt A., and Miles, John J. (2021) Genetic bias, diversity indices, physiochemical properties and CDR3 motifs divide auto-reactive from allo-reactive T-Cell repertoires. International Journal of Molecular Sciences, 22 (4). 1625.

Pearson, Mark S., Tedla, Bemnet A., Mekonnen, Gebeyaw G., Proietti, Carla, Becker, Luke, Nakajima, Rie, Jasinskas, Al, Doolan, Denise L., Amoah, Abena S., Knopp, Stefanie, Rollinson, David, Ali, Said M., Kabole, Fatma, Hokke, Cornelis H., Adegnika, Akim A., Field, Matt A., van Dam, Govert, Corstjens, Paul L.A.M., Mduluza, Takafira, Mutapi, Francisca, Oeuvray, Claude, Greco, Beatrice, Chaiyadet, Sujittra, Laha, Thewarach, Cai, Pengfei, McManus, Donald P., Bottazzi, Maria Elena, Felgner, Philip L., Sotillo, Javier, and Loukas, Alex (2021) Immunomics-guided discovery of serum and urine antibodies for diagnosing urogenital schistosomiasis: a biomarker identification study. The Lancet Microbe, 2 (11). e617-e626.

Brohus, Malene, Arsov, Todor, Wallace, David A., Jensen, Helene Halkjær, Nyegaard, Mette, Crotti, Lia, Adamski, Marcin, Zhang, Yafei, Field, Matt A., Athanasopoulo, Vicki, Baró, Isabelle, Ribeiro de Oliveira-Mendes, Bárbara B., Redon, Richard, Charpentier, Flavien, Raju, Hariharan, DiSilvestre, Deborah, Wei, Jinhong, Wang, Ruiwu, Rafehi, Haloom, Kaspi, Antony, Bahlo, Melanie, Dick, Ivy E., Chen, Sui Rong Wayne, Cook, Matthew C., Vinuesa, Carola G., Overgaard, Michael Toft, and Schwartz, Peter J. (2021) Infanticide vs. inherited cardiac arrhythmias. Europace, 23 (3). pp. 441-450.

Marthick, James R., Raspin, Kelsie, Foley, Georgea R., Blackburn, Nicholas B., Banks, Annette, Donovan, Shaun, Malley, Roslyn C., Field, Matthew A., Stanford, Janet L., Ostrander, Elaine A., FitzGerald, Liesel M., and Dickinson, Joanne L. (2021) Massively parallel sequencing in hereditary prostate cancer families reveals a rare risk variant in the DNA repair gene, RAD51C. European Journal of Cancer, 159. pp. 52-55.

Chng, Lena, Holt, Deborah C., Field, Matt, Francis, Joshua R., Tilakaratne, Dev, Dekkers, Milou H., Robinson, Greg, Mounsey, Kate, Pavlos, Rebecca, Bowen, Asha C., Fischer, Katja, Papenfuss, Anthony T., Gasser, Robin B., Korhonen, Pasi K., Currie, Bart J., McCarthy, James S., and Pasay, Cielo (2021) Molecular diagnosis of scabies using a novel probe-based polymerase chain reaction assay targeting high-copy number repetitive sequences in the Sarcoptes scabiei genome. PLoS Neglected Tropical Diseases, 15 (2). e0009149.

Adegboye, Oyelola, Field, Matt A., Kupz, Andreas, Pai, Saparna, Sharma, Dileep, Smout, Michael J., Wangchuk, Phurpa, Wong, Yide, and Loiseau, Claire (2021) Natural-product-based solutions for tropical infectious diseases. Clinical Microbiology Reviews, 34 (4). e00348-20.

Schmidt, Thomas L., Swan, Tom, Chung, Jessica, Karl, Stephan, Demok, Samuel, Yang, Qiong, Field, Matt, Muzari, Mutizwa Odwell, Ehlers, Gerhard, Brugh, Mathew, Bellwood, Rodney, Horne, Peter, Burkot, Thomas R., Ritchie, Scott, and Hoffmann, Ary A. (2021) Spatial population genomics of a recent mosquito invasion. Molecular Ecology, 30 (5). pp. 1174-1189.

Singh, Tejas P., Field, Matt A., Bown, Matthew J., Jones, Gregory T., and Golledge, Jonathan (2021) Systematic review of genome-wide association studies of abdominal aortic aneurysm. Atherosclerosis, 327. pp. 39-48.

Sathkumara, Harindra D., Eaton, Janet L., Field, Matt A., Govan, Brenda L., Ketheesan, Natkunam, and Kupz, Andreas (2021) A murine model of tuberculosis/type 2 diabetes comorbidity for investigating the microbiome, metabolome and associated immune parameters. Animal Models and Experimental Medicine, 4 (2). pp. 181-188.

Buitrago, Geraldine, Pickering, Darren, Ruscher, Roland, Cobos Caceres, Claudia, Jones, Linda, Cooper, Martha, Van Waardenberg, Ashley, Ryan, Stephanie, Miles, Kim, Field, Matthew, Dredge, Keith, Daly, Norelle L., Giacomin, Paul R., and Loukas, Alex (2021) A netrin domain-containing protein secreted by the human hookworm Necator americanus protects against CD4 T cell transfer colitis. Translational Research, 232. pp. 88-102.

Raspin, Kelsie, FitzGerald, Liesel M., Marthick, James R., Field, Matt A., Malley, Roslyn C., Banks, Annette, Donovan, Shaun, Thomson, Russell J., Foley, Georgea R., Stanford, Janet L., and Dickinson, Joanne L. (2021) A rare variant in EZH2 is associated with prostate cancer risk. International Journal of Cancer, 149 (5). pp. 1089-1099.

Loughland, Jessica R., Woodberry, Tonia, Field, Matt, Andrew, Dean W., SheelaNair, Arya, Dooley, Nicholas L., Piera, Kim A., Amante, Fiona H., Kenangalem, Enny, Price, Ric N., Engwerda, Christian R., Anstey, Nicholas M., McCarthy, James S., Boyle, Michelle J., and Minigo, Gabriela (2020) Transcriptional profiling and immunophenotyping show sustained activation of blood monocyte in subpatent Plasmodium falciparum infection. Clinical & Translational Immunology, 9. pp. 1-18.

Field, Matt A., Rosen, Benjamin D., Dudchenko, Olga, Chan, Eva K. F., Minoche, Andre E., Edwards, Richard J., Barton, Kirston, Lyons, Ruth J., Tuipulotu, Daniel Enosi, Hayes, Vanessa M., Omer, Arina D., Colaric, Zane, Keilwagen, Jens, Skvortsova, Ksenia, Bogdanovic, Ozren, Smith, Martin A., Aiden, Erez Lieberman, Smith, Timothy P. L., Zammit, Robert A., and Ballard, J. William O. (2020) Canfam GSD: De novo chromosome-length genome assembly of the German Shepherd Dog (Canis lupus familiaris) using a combination of long reads, optical mapping, and Hi-C. GigaScience, 9 (4). pp. 1-12.

Logan, Jayden, Pearson, Mark S., Manda, Srikanth S., Choi, Young-Jun, Field, Matthew, Eichenberger, Ramon M., Mulvenna, Jason, Nagaraj, Shivashankar H., Fujiwara, Ricardo T., Gazzinelli-Guimaraes, Pedro, Bueno, Lilian, Mati, Vitor, Bethony, Jeffrey M., Mitreva, Makedonka, Sotillo, Javier, and Loukas, Alex (2020) Comprehensive analysis of the secreted proteome of adult Necator americanus hookworms. PLoS Neglected Tropical Diseases, 14 (5). e0008237.

Field, Matt A. (2020) Detecting pathogenic variants in autoimmune diseases using high‐throughput sequencing. Immunology and Cell Biology, 99 (2). pp. 146-156.

Cooke, Ira, Ying, Hua, Forêt, Sylvain, Bongaerts, Pim, Strugnell, Jan M., Simakov, Oleg, Zhang, Jia, Field, Matt A., Rodriguez-Lanetty, Mauricio, Bell, Sara C., Bourne, David G., van Oppen, Madeleine J.H., Ragan, Mark A., and Miller, David J. (2020) Genomic signatures in the coral holobiont reveal host adaptations driven by Holocene climate change and reef specific symbionts. Science Advances, 6 (48). eabc6318.

Singh, Mandeep, Jackson, Katherine J.L., Wang, Jing J., Schofield, Peter, Field, Matt A., Koppstein, David, Peters, Timothy J., Burnett, Deborah L., Rizzetto, Simone, Nevoltris, Damien, Masle-Farquhar, Etienne, Faulks, Megan L., Russell, Amanda, Gokal, Divya, Hanioka, Asami, Horikawa, Keisuke, Colella, Alexander D., Chataway, Timothy K., Blackburn, James, Mercer, Tim R., Langley, David B., Goodall, D. Margaret, Jefferis, Roy, Komala, Muralikrishna Gangadharan, Kelleher, Anthony D., Suan, Dan, Rischmueller, Maureen, Christ, Daniel, Brink, Robert, Luciani, Fabio, Gordon, Tom P., Goodnow, Christopher C., and Reed, Joanne H. (2020) Lymphoma driver mutations in the pathogenic evolution of an iconic human autoantibody. Cell, 180 (5). pp. 878-894.

Sathkumara, Harindra D., Muruganandah, Visai, Cooper, Martha M., Field, Matt A., Alim, Md Abdul, Brosch, Roland, Ketheesan, Natkunam, Govan, Brenda, Rush, Catherine M., Henning, Lars, and Kupz, Andreas (2020) Mucosal delivery of ESX-1–expressing BCG strains provides superior immunity against tuberculosis in murine type 2 diabetes. National Academy of Sciences. Proceedings, 117 (34). pp. 20848-20859.

ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium, The (2020) Pan-cancer analysis of whole genomes. Nature, 578. pp. 82-93.

Bailey, Matthew H., Meyerson, William U., Dursi, Lewis Jonathan, Wang, Liang-Bo, Dong, Guanlan, Liang, Wen-Wei, Weerasinghe, Amilia, Li, Shantao, Li, Lize, Kelso, Sean, MC3 Working Group, PCAWG novel somatic mutation calling methods working group, Saksena, Gordon, Ellrott, Kyle, Wendl, Michael C., Wheeler, David A., Getz, Gad, Simpson, Jared T., Gerstein, Mark B., Ding, Li, and PCAWG Consortium (2020) Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. Nature Communications, 11. 4748.

Li, Constance H., Prokopec, Stephenie D., Sun, Ren X., Yousif, Fouad, Schmitz, Nathaniel, PCAWG Tumour Subtypes and Clinical Translation, Boutros, Paul C., and PCAWG Consortium (2020) Sex differences in oncogenic mutational processes. Nature Communications, 11. 4330.

Ratnatunga, Champa N., Lutzky, Viviana P., Kupz, Andreas, Doolan, Denise L., Reid, David W., Field, Matthew, Bell, Scott C., Thomson, Rachel M., and Miles, John J. (2020) The rise of non-tuberculosis mycobacterial lung disease. Frontiers in Immunology, 11. 303.

Wangchuk, Phurpa, Constantinoiu, Constantin, Eichenberger, Ramon M., Field, Matt, and Loukas, Alex (2019) Characterization of tapeworm metabolites and their reported biological activities. Molecules, 24 (8). 1480.

Jiang, Simon, Athanasopoulos, Vicki, Ellyard, Julia, Chuah, Aaron, Cappello, Jean, Cook, Amelia, Prabhu, Savit B., Cardenas, Jacob, Gu, Jinghua, Stanley, Maurice, Roco, Jonathan A., Papa, Ilenia, Yabas, Mehmet, Walters, Giles D., Burgio, Gaetan, McKeon, Kathryn, Byers, James M., Burrin, Charlotte, Enders, Anselm, Miosge, Lisa A., Canete, Pablo F., Jelusic, Marjia, Tasic, Velibor, Lungu, Adrian C., Alexander, Stephen I., Kitching, Arthur R., Fulcher, David, Shen, Nan, Arsov, Todor, Gatenby, Paul A., Babon, Jeff J., Mallon, Dominic F., de Lucas Collantes, Carmen, Stone, Eric A., Wu, Philip, Field, Matt, Andrews, Thomas D., Cho, Eun, Pascual, Virginia, Cook, Matthew, and Vinuesa, Carola G. (2019) Functional rare and low frequency variants in BLK and BANK1 contribute to human lupus. Nature Communications, 10. 2201.

Anuar, Nur Diana, Kurscheid, Sebastian, Field, Matt, Zhang, Lei, Rebar, Edward, Gregory, Philip, Buchou, Thierry, Bowles, Josephine, Koopman, Peter, Tremethick, David J., and Soboleva, Tatiana A. (2019) Gene editing of the multi-copy H2A.B gene and its importance for fertility. Genome Biology, 20. 23.

Thang, Mike W. C., Chua, Xin-Yi, Price, Gareth, Gorse, Dominique, and Field, Matt A. (2019) MetaDEGalaxy: Galaxy workflow for differential abundance analysis of 16s metagenomic data [version 2; peer review: 2 approved]. F1000Research, 8. 726.

Field, Matthew A., Burgio, Gaetan, Chuah, Aaron, Al Shekaili, Jalila, Hassan, Batool, Al Sukaiti, Nashat, Foote, Simon J., Cook, Matthew C., and Andrews, Daniel T. (2019) Recurrent miscalling of missense variation from short-read genome sequence data. BMC Genomics, 20 (Suppl 8). 546.

Waardenberg, Ashley J., and Field, Matthew A. (2019) consensusDE: an R package for assessing consensus of multiple RNA-seq algorithms with RUV correction. PeerJ, 7. e8206. pp. 1-16.

Eichenberger, Ramon M., Hasanuzzaman, Talukder, Field, Matt A., Wangchuk, Phurpa, Giacomin, Paul, Loukas, Alex, and Sotillo, Javier (2018) Characterization of Trichuris muris secreted proteins and extracellular vesicles provides new insights into host–parasite communication. Journal of Extracellular Vesicles, 7 (1). 1428004.

Cardinez, Chelisa, Miraghzadeh, Bahar, Tanita, Kay, da Silva, Elizabeth, Hoshino, Akihiro, Okada, Satoshi, Chand, Rochna, Asano, Takaki, Tsumura, Miyuki, Yoshida, Kenichi, Ohnish, Hidenori, Kato, Zenichiro, Yamazki, Masahide, Okuno, Yusuke, Miyano, Satoru, Kojima, Seiji, Ogawa, Seishi, Andrews, T. Daniel, Field, Matthew A., Burgio, Gaetan, Morio, Tomohiro, Vinuesa, Carola G., Kanegane, Hirokazu, and Cook, Matthew C. (2018) Gain-of-function IKBKB mutation causes human combined immune deficiency. The Journal of Experimental Medicine, 215 (11). pp. 2715-2724.

Eichenberger, Ramon M., Ryan, Stephanie, Jones, Linda, Buitrago, Geraldine, Polster, Ramona, Montes de Oca, Marcela, Zuvelek, Jennifer, Giacomin, Paul R., Dent, Lindsay A., Engwerda, Christian R., Field, Matthew A., Sotillo, Javier, and Loukas, Alex (2018) Hookworm secreted extracellular vesicles interact with host cells and prevent inducible colitis in mice. Frontiers in Immunology, 9.

McGuire, Helen M., Watkins, Thomas S., Field, Matthew, Taylor, Sarah, Yasuyama, Nao, Farmer, Andrew, Miles, John J., and Fazekas de St. Groth, Barbara (2018) TCR deep sequencing of transgenic RAG-1-deficient mice reveals endogenous TCR recombination: a cause for caution. Immunology and Cell Biology, 96 (6). pp. 642-645.

Hayward, Nicholas K., Wilmott, James S., Waddell, Nicola, Johansson, Peter A., Field, Matthew A., Nones, Katia, Patch, Ann-Marie, Kakavand, Hojabr, Alexandrov, Ludmil B., Burke, Hazel, Jakrot, Valerie, Kazakoff, Stephen, Holmes, Oliver, Leonard, Conrad, Sabarinathan, Radhakrishnan, Mularoni, Loris, Wood, Scott, Xu, Qinying, Waddell, Nick, Tembe, Varsha, Pupo, Gulietta M., De Paoli-Iseppi, Ricardo, Vilain, Ricardo E., Shang, Ping, Lau, Loretta M.S., Dagg, Rebecca A., Schramm, Sarah-Jane, Pritchard, Antonia, Dutton-Regester, Ken, Newell, Felicity, Fitzgerald, Anna, Shang, Catherine A., Grimmond, Sean M., Pickett, Hilda A., Yang, Jean Y., Stretch, Jonathan R., Behren, Andreas, Kefford, Richard F., Hersey, Peter, Long, Georgina V., Cebon, Jonathan, Shackleton, Mark, Spillane, Andrew J., Saw, Robyn P.M., López-Bigas, Núria, Pearson, John V., Thompson, John F., Scolyer, Richard A., and Mann, Graham J. (2017) Whole-genome landscapes of major melanoma subtypes. Nature, 545. pp. 175-180.

Sukaiti, Nashat Al, AbdelRahman, Khwater, AlShekaili, Jalila, Al Oraimi, Sumaya, Al Sinani, Aisha, Al Rahbi, Nasser, Cho, Vicky, Field, Matt, and Cook, Matthew C. (2017) Agammaglobulinaemia despite terminal B-cell differentiation in a patient with a novel LRBA mutation. Clinical & Translational Immunology, 6 (5). e144.

FitzGerald, Liesel M., Raspin, Kelsie, Marthick, James R., Field, Matt A., Malley, Roslyn C., Thomson, Russell J., Blackburn, Nicholas B., Banks, Annette, Charlesworth, Jac C., Donovan, Shaun, and Dickinson, Joanne L. (2017) Impact of the G84E variant on HOXB13 gene and protein expression in formalin-fixed, paraffin-embedded prostate tumours. Scientific Reports, 7. 17778.

Loughland, Jessica R., Minigo, Gabriela, Sarovich, Derek S., Field, Matt, Tipping, Peta E., Montes de Oca, Marcela, Piera, Kim A., Amante, Fiona H., Barber, Bridget E., Grigg, Matthew J., William, Timothy, Good, Michael F., Doolan, Denise L., Engwerda, Christian R., Anstey, Nicholas M., McCarthy, James S., and Woodberry, Tonia (2017) Plasmacytoid dendritic cells appear inactive during sub-microscopic Plasmodium falciparum blood-stage infection, yet retain their ability to respond to TLR stimulation. Scientific Reports, 7 (2596). pp. 1-11.

Wu, Zuopeng, Liang, Rong, Ohnesorg, Thomas, Cho, Vicky, Lam, Wesley, Abhayaratna, Walter P., Gatenby, Paul A., Perera, Chandima, Zhang, Yafei, Whittle, Belinda, Sinclair, Andrew, Goodnow, Christopher C., Field, Matthew, Andrews, T. Daniel, and Cook, Matthew C. (2016) Heterogeneity of human Neutrophil CD177 expression results from CD177P1 Pseudogene Conversion. PLOS Genetics, 12 (5). e1006067. pp. 1-22.

Andrews, T. Daniel, Jeelall, Yogesh, Talaulikar, Dipti, Goodnow, Christopher C., and Field, Matthew A. (2016) DeepSNVMiner: a sequence analysis tool to detect emergent, rare mutations in subsets of cell populations. PeerJ, 4. e2074. pp. 1-13.

Sabouri, Zahra, Perotti, Samuel, Spierings, Emily, Humburg, Peter, Yabas, Mehmet, Bergmann, Hannes, Horikawa, Keisuke, Roots, Carla, Lambe, Samantha, Young, Clara, Andrews, T. Dan, Field, Matthew, Enders, Anselm, Reed, Joanne H., and Goodnow, Christopher C. (2016) IgD attenuates the IgM-induced anergy response in transitional and mature B cells. Nature Communications, 7. 13381. pp. 1-11.

Wilmott, James S., Field, Matthew A., Johansson, Peter A., Kakavand, Hojabr, Shang, Ping, De Paoli-Iseppi, Ricardo, Vilain, Ricardo E., Pupo, Gulietta M., Tembe, Varsha, Jakrot, Valerie, Shang, Catherine A., Cebon, Jonathan, Shackleton, Mark, Fitzgerald, Anna, Thompson, John F., Hayward, Nichoas K., Mann, Graham J., and Scolyer, Richard A. (2015) Tumour procurement, DNA extraction, coverage analysis and optimisation of mutation-detection algorithms for human melanoma genomes. Pathology, 47 (7). pp. 683-693.

Field, Matthew A., Cho, Vicky, Andrews, T. Daniel, and Goodnow, Chris C. (2015) Reliably detecting clinically important variants requires both combined variant calls and optimized filtering strategies. PLoS ONE, 10 (11). e0143199. pp. 1-19.

Dunkerton, Sophie, Field, Matthew, Cho, Vicki, Bertram, Edward, Whittle, Belinda, Groves, Alexandra, and Goel, Himanshu (2015) A de novo Mutation in KMT2A (MLL) in monozygotic twins with Wiedemann–Steiner Syndrome. American Journal of Medical Genetics: Part A, 167 (9). pp. 2182-2187.

Field, Matthew A., Cho, Vicky, Cook, Matthew C., Enders, Anselm, Vinuesa, Carola G., Whittle, Belinda, Andrews, T. Daniel, and Goodnow, Chris C. (2015) Reducing the search space for causal genetic variants with VASP. Bioinformatics, 31 (14). pp. 2377-2379.

Johar, Angad S., Anaya, Juan-Manuel, Andrews, Dan, Patel, Hardip R., Field, Matthew, Goodnow, Chris, and Arcos-Burgos, Mauricio (2015) Candidate gene discovery in autoimmunity by using extreme phenotypes, next generation sequencing and whole exome capture. Autoimmunity Reviews, 14 (3). pp. 204-209.

Miosge, Lisa A., Field, Matthew A. , Sontani, Yovina, Cho, Vicky, Johnson, Simon, Palkova, Anna, Balakishnan, Bhavani, Liang, Rong, Zhang, Yafei, Lyon, Stephen, Beutler, Bruce, Whittle, Belinda, Bertram, Edward M., Enders, Anselm, Goodnow, Christopher C., and Andrews, T. Daniel (2015) Comparison of predicted and actual consequences of missense mutations. Proceedings of the National Academy of Sciences of the United States of America, 112 (37). E5189-E5198.

Johar, Angad S., Mastronardi, Claudio, Rojas-Villarraga, Adriana, Patel, Hardip R., Chuah, Aaron, Peng, Kaiman, Higgins, Angela, Milburn, Peter, Palmer, Stephanie, Silva-Lara, Maria Fernanda, Velez, Jorge I., Andrews, Dan, Field, Matthew, Huttley, Gavin, Goodnow, Chris, Anaya, Juan-Manuel, and Arcos-Burgos, Mauricio (2015) Novel and rare functional genomic variants in multiple autoimmune syndrome and Sjögren's syndrome. Journal of Translational Medicine, 13 (173). pp. 1-11.

Taupin, Douglas, Lam, Wesley, Rangiah, David, McCallum, Larissa, Whittle, Belinda, Zhang, Yafei, Andrews, Daniel, Field, Matthew, Goodnow, Christopher C., and Cook, Matthew C. (2015) A deleterious RNF43 germline mutation in a severely affected serrated polyposis kindred. Human Genome Variation, 2. 15013. pp. 1-3.

Ellyard, Julia I., Jerjen, Rebekka, Martin, Jaime L., Lee, Adrian Y.S., Field, Matthew A., Jiang, Simon H., Cappello, Jean, Naumann, Svenja K., Andrews, T. Daniel, Scott, Hamish S., Casarotto, Marco G., Goodnow, Christopher C., Chaitow, Jeffrey, Pascual, Virginia, Hertzog, Paul, Alexander, Stephen I., Cook, Matthew C., and Vinuesa, Carola G. (2014) Identification of a pathogenic variant in TREX1 in early-onset cerebral systemic lupus erythematosus by whole-exome sequencing. Arthritis & Rheumatism, 66 (12). pp. 3382-3386.

Lee, Cindy Eunhee, Fulcher, David A., Whittle, Belinda, Chand, Rochna, Fewings, Nicole, Field, Matthew, Andrews, Daniel, Goodnow, Christopher C., and Cook, Matthew C. (2014) Autosomal-dominant B-cell deficiency with alopecia due to a mutation in NFKB2 that results in nonprocessable p100. Blood, 124 (19). pp. 2964-2972.

Enders, Anselm, Short, Alanna, Miosge, Lisa A., Bergmann, Hannes, Sontani, Yovina, Bertram, Edward M., Whittle, Belinda, Balakishnan, Bhavani, Yoshida, Kaoru, Sjollema, Geoff, Field, Matthew A., Andrews, T. Daniel, Hagiwara, Hiromi, and Goodnow, Christopher C. (2014) Zinc-finger protein ZFP318 is essential for expression of IgD, the alternatively spliced Igh product made by mature B lymphocytes. Proceedings of the National Academy of Sciences, 111 (12). pp. 4513-4518.

Daley, Stephen R., Coakley, Kristen M., Hu, Daniel Y., Randall, Katrina L., Jenne, Craig N., Limnander, Andre, Myers, Darienne R., Polakos, Noelle K., Enders, Anselm, Roots, Carla, Balakishnan, Bhavani, Miosge, Lisa A., Sjollema, Geoff, Bertram, Edward M., Field, Matthew A., Shao, Yunli, Andrews, T. Daniel, Whittle, Belinda, Barnes, S. Whitney, Walker, John R., Cyster, Jason G., Goodnow, Christopher C., and Roose, Jeroen P. (2013) Rasgrp1 mutation increases naïve T-cell CD44 expression and drives mTOR-dependent accumulation of Helios⁺ T cells and autoantibodies. eLife, 2. e01020. pp. 1-26.

Bergmann, Hannes, Yabas, Mehmet, Short, Alanna, Miosge, Lisa, Barthel, Nadine, Teh, Charis E., Roots, Carla M., Bull, Katherine R., Jeelall, Yogesh, Horikawa, Keisuke, Whittle, Belinda, Balakishnan, Bhavani, Sjollema, Geoff, Bertram, Edward M., Mackay, Fabienne, Rimmer, Andrew J., Cornall, Richard J., Field, Matthew A., Andrews, T. Daniel, Goodnow, Christopher C., and Enders, Anselm (2013) B cell survival, surface BCR and BAFFR expression, CD74 metabolism, and CD8⁻ dendritic cells require the intramembrane endopeptidase SPPL2A. The Journal of Experimental Medicine, 210 (1). pp. 31-40.

Andrews, T.D., Whittle, B., Field, M.A., Balakishnan, B., Zhang, Y., Shao, Y., Cho, V., Kirk, M., Singh, M., Xia, Y., Hager, J., Winslade, S., Sjollema, G., Beutler, B., Enders, A., and Goodnow, C.C. (2012) Massively parallel sequencing of the mouse exome to accurately identify rare, induced mutations: an immediate source for thousands of new mouse models. Open Biology, 2 (5). 120061. pp. 1-16.

Morin, Ryan D., Mendez-Lago, Maria, Mungall, Andrew J., Goya, Rodrigo, Mungall, Karen L., Corbett, Richard D., Johnson, Nathalie A., Severson, Tesa M., Chiu, Readman, Field, Matthew, Jackman, Shaun, Krzywinski, Martin, Scott, David W., Trinh, Diane L., Tamura-Wells, Jessica, Li, Sa, Firme, Marlo R., Rogic, Sanja, Griffith, Malachi, Chan, Susanna, Yakovenko, Oleksandr, Meyer, Irmtraud M., Zhao, Eric Y., Smailus, Duane, Moksa, Michelle, Chittaranjan, Suganthi, Rimsza, Lisa, Brooks-Wilson, Angela, Spinelli, John J., Ben-Neriah, Susana, Meissner, Barbara, Woolcock, Bruce, Boyle, Merrill, McDonald, Helen, Tam, Angela, Zhao, Yongjun, Delaney, Allen, Zeng, Thomas, Tse, Kane, Butterfield, Yaron, Birol, Inanç, Holt, Rob, Schein, Jacqueline, Horsman, Douglas E., Moore, Richard, Jones, Steven J.M., Connors, Joseph M., Hirst, Martin, Gascoyne, Randy D., and Marra, Marco A. (2011) Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma. Nature, 476 (7360). pp. 298-303.

Duplessis, Sébastien, Cuomo, Christina A., Lin, Yao-Cheng, Aerts, Andrea, Tisserant, Emilie, Veneault-Fourrey, Claire, Joly, David L., Hacquard, Stéphane, Amselem, Joëlle, Cantarel, Brandi L., Chiu, Readman, Coutinho, Pedro M., Feau, Nicolas, Field, Matt, Frey, Pascal, Gelhaye, Eric, Goldberg, Jonathan, Grabherr, Manfred G., Kodira, Chinnappa D., Kohler, Annegret, Kües, Ursula, Lindquist, Erika A., Lucas, Susan M., Mago, Rohit, Mauceli, Evan, Morin, Emmanuelle, Murat, Claude, Pangilinan, Jasmyn L., Park, Robert, Pearson, Matthew, Quesneville, Hadi, Rouhier, Nicolas, Sakthikumar, Sharadha, Salamov, Asaf A., Schmutz, Jeremy, Selles, Benjamin, Shapiro, Harris, Tanguay, Philippe, Tuskan, Gerald A., Henrissat, Bernard, Van de Peer, Yves, Rouzé, Pierre, Ellis, Jeffrey G., Dodds, Peter N., Schein, Jacqueline E., Zhong, Shaobin, Hamelin, Richard C., Grigoriev, Igor V., Szabo, Les J., and Martin, Francis (2011) Obligate biotrophy features unraveled by the genomic analysis of rust fungi. Proceedings of the National Academy of Sciences, 108 (22). pp. 9166-9171.

Nefedov, Mikhail, Carbone, Lucia, Field, Matthew, Schein, Jacquie, and de Jong, Pieter J. (2011) Isolation of specific clones from nonarrayed BAC libraries through homologous recombination. Journal of Biomedicine and Biotechnology, 2011. 560124. pp. 1-8.

Robertson, Gordon, Schein, Jacqueline, Chiu, Readman, Corbett, Richard, Field, Matthew, Jackman, Shaun D., Mungall, Karen, Lee, Sam, Okada, Hisanaga Mark, Qian, Jenny Q., Griffith, Malachi, Raymond, Anthony, Thiessen, Nina, Cezard, Timothee, Butterfield, Yaron S., Newsome, Richard, Chan, Simon K., She, Rong, Varhol, Richard, Kamoh, Baljit, Prabhu, Anna-Liisa, Tam, Angela, Zhao, YongJun, Moore, Richard A., Hirst, Martin, Marra, Marco A,, Jones, Steven J.M., Hoodless, Pamela A., and Birol, Inanc (2010) De novo assembly and analysis of RNA-seq data. Nature Methods, 7 (11). pp. 909-912.

Krzywinski, Martin, Bosdet, Ian, Mathewson, Carrie, Wye, Natasja, Brebner, Jay, Chiu, Readman, Corbett, Richard, Field, Matthew, Lee, Darlene, Pugh, Trevor, Volik, Stas, Siddiqui, Asim, Jones, Steven, Schein, Jacquie, Collins, Collin, and Marra, Marco (2007) A BAC clone fingerprinting approach to the detection of human genome rearrangements. Genome Biology, 8 (10). R224. pp. 1-17.

Margulies, Elliot H., Cooper, Gregory M., Asimenos, George, Thomas, Daryl J., Dewey, Colin N., Siepel, Adam, Birney, Ewan, Keefe, Damian, Schwartz, Ariel S., Hou, Minmei, Taylor, James, Nikolaev, Sergey, Montoya-Burgos, Juan I., Löytynoja, Ari, Whelan, Simon, Pardi, Fabio, Massingham, Tim, Brown, James B., Bickel, Peter, Holmes, Ian, Mullikin, James C., Ureta-Vidal, Abel, Paten, Benedict, Stone, Eric A., Rosenbloom, Kate R., Kent, W. James, Bouffard, G.G., Guan, X., Hansen, N.F., Idol, J.R., Maduro, V.V.B., Maskeri, B., McDowell, J.C., Park, M., Thomas, P.J., Young, A.C., Blakesley, R.W., Muzny, D.M., Sodergren, E., Wheeler, D.A., Worley, K.C., Jiang, H., Weinstock, G.M., Gibbs, R.A., Graves, T., Fulton, R., Mardis, E.R., Wilson, R.K., Clamp, M., Cuff, J., Gnerre, S., Jaffe, D.B., Chang, J.L., Lindblad-Toh, K., Lander, E.S., Hinrichs, A., Trumbower, H., Clawson, H., Zweig, A., Kuhn, R.M., Barber, G., Harte, R., Karolchik, D., Field, Matt, Moore, R.A., Matthewson, C.A., Schein, J.E., Marra, M.A., Antonarakis, Stylianos E., Batzoglou, Serafim, Goldman, Nick, Hardison, Ross, Haussler, David, Miller, Webb, Pachter, Lior, Green, Eric D., and Sidow, Arend (2007) Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome. Genome Research, 17 (6). pp. 760-774.

Rogers, Matthew B., Archibald, John M., Field, Matthew A., Li, Catherine, Striepen, Boris, and Keeling, Patrick J. (2004) Plastid-targeting peptides from the Chlorarachniophyte Bigelowiella natans. Journal of Eukaryotic Microbiology, 51 (5). pp. 529-535.