Biography
I studied Biochemistry at the University of Cambridge, followed by a PhD in Protein Design at the Department of Crystallography, Birkbeck College, University of London. Following a postdoctoral fellowship at the Protein Engineering Research Institute in Osaka under the EU scientific training program in Japan, I returned to Cambridge in 1990 as a Zeneca Fellow at the MRC Centre for Protein Engineering to work on protein folding, classification and design.
I co-founded SCOP (the Structural Classification of Proteins database) and developed algorithms to make protein structure predictions and assess their accuracy and to calibrate the reliability of sequence alignment methods. I was one of the most successful participants in the first CASP (Critical Assessment of Structure Prediction) competition in 1994 and a co-organiser of subsequent CASP competitions (CASP2-CASP7) until 2007.
In 1997 I joined the Wellcome Trust Sanger Institute to become Head of Human Genome Analysis, where I was one of the organisers of the sequencing of the human genome. In 1999 I co-founded the Ensembl project to analysis, organise and provide access to the human genome. From 2007 I led the GENCODE project to annotate the structure of all human genes, initially as part of the ENCODE project. I was the Sanger Institute PI of the Genome Reference Consortium, which is responsible for reference genome sequences of human, mouse and zebrafish. I became Head of the Informatics division from 2007. After the announcement of the 100,000 genomes project 2012 I was seconded part-time as a specialist advisor for genomics to NHS England leading up to the creation of Genomics England.
In October 2013 I was appointed Professor of Bioinformatics and Head of the Department of Medical & Molecular Genetics at King's College London and Director of Bioinformatics for King's Health Partners with a part-time secondment as Head of Genome Analysis at Genomics England.
In 2018 I was also appointed as Associate Director (King's) for the Health Data Research London Site.
For a full list of publication please visit the Research Portal.
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Frankish, A., Diekhans, M., Jungreis, I., Lagarde, J., Loveland, J. E., Mudge, J. M., Sisu, C., Wright, J. C., Armstrong, J., Barnes, I., Berry, A., Bignell, A., Boix, C., Sala, S. C., Cunningham, F., Domenico, T. D., Donaldson, S., Fiddes, I. T., Girón, C. G., Gonzalez, J. M. & 36 others, Grego, T., Hardy, M., Hourlier, T., Howe, K. L., Hunt, T., Izuogu, O. G., Johnson, R., Martin, F. J., Martínez, L., Mohanan, S., Muir, P., Navarro, F. C. P., Parker, A., Pei, B., Pozo, F., Riera, F. C., Ruffier, M., Schmitt, B. M., Stapleton, E., Suner, M. M., Sycheva, I., Uszczynska-Ratajczak, B., Wolf, M. Y., Xu, J., Yang, Y. T., Yates, A., Zerbino, D., Zhang, Y., Choudhary, J. S., Gerstein, M., Guigó, R., Hubbard, T. J. P., Kellis, M., Paten, B., Tress, M. L. & Flicek, P., 8 Jan 2021, In: Nucleic Acids Research. 49, D1, p. D916-D923 Research output: Contribution to journal - Article - peer-review. DOIs: https://doi.org/10.1093/nar/gkaa1087
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Sisu, C., Muir, P., Frankish, A., Fiddes, I., Diekhans, M., Thybert, D., Odom, D. T., Flicek, P., Keane, T. M., Hubbard, T., Harrow, J. & Gerstein, M., 1 Dec 2020, In: Nature Communications. 11, 1, 3695. Research output: Contribution to journal - Article - peer-review. DOIs: https://doi.org/10.1038/s41467-020-17157-w
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Gkotsis, G., Mueller, C., Dobson, R., Hubbard, T. & Dutta, R., Nov 2020, In: Dementia and Geriatric Cognitive Disorders. 49, 3, p. 295-302 8 p. Research output: Contribution to journal - Article - peer-review. DOIs: https://doi.org/10.1159/000509123
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UK10K Consortium & Breen, G., 21 Jan 2020, In: Nature Communications. 10, 1, 357. Research output: Contribution to journal - Article - peer-review. DOIs: https://doi.org/10.1038/s41467-018-07863-x
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Deciphering Developmental Disorders Study, UK10K Consortium, NIHR BioResource, Simpson, M. A., Prigmore, E., Jones, P., Armstrong, R., Bennett, C., Berg, J., Bernhard, B., Cooper, N., Cox, H., Flinter, F., Fry, A., Gill, H., Gray, E., Harrison, V., Irving, M., Josifova, D., Langman, C. & 44 others, Mohammed, S., Moore, D., Murphy, H., Roberts, J., Tischkowitz, M., Wright, M., Bolton, P., Breen, G., Clement, G., Collier, D., Curran, S., Ellis, P., Evans, D., Hart, D., Hubbard, T., Hysi, P., Jamshidi, Y., Lachance, G., Lopes, M., McGuffin, P., Metrustry, S., Moayyeri, A., Onoufriadis, A., Parr, J. R., Quaye, L., Sharp, S. I., Small, K., Spasic-Boskovic, O., Stevens, E., Valdes, A., Walters, J. T. R., Wang, Y., Bennett, D., Bradley, J. R., Davis, J., Koziell, A., Machado, R., Richards, M., Smith, K., Southgate, L., Thomas, E., Trembath, R., Williamson, C. & Yong, P., 2 May 2019, In: American Journal of Human Genetics. 104, 5, p. 948-956 9 p. Research output: Contribution to journal - Article - peer-review. DOIs: https://doi.org/10.1016/j.ajhg.2019.03.005
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Frankish, A., Diekhans, M., Ferreira, A. M., Johnson, R., Jungreis, I., Loveland, J., Mudge, J. M., Sisu, C., Wright, J., Armstrong, J., Barnes, I., Berry, A., Bignell, A., Carbonell Sala, S., Chrast, J., Cunningham, F., Di Domenico, T., Donaldson, S., Fiddes, I. T., García Girón, C. & 35 others, Gonzalez, J. M., Grego, T., Hardy, M., Hourlier, T., Hunt, T., Izuogu, O. G., Lagarde, J., Martin, F. J., Martínez, L., Mohanan, S., Muir, P., Navarro, F. C. P., Parker, A., Pei, B., Pozo, F., Ruffier, M., Schmitt, B. M., Stapleton, E., Suner, M. M., Sycheva, I., Uszczynska-Ratajczak, B., Xu, J., Yates, A., Zerbino, D., Zhang, Y., Aken, B., Choudhary, J. S., Gerstein, M., Guigó, R., Hubbard, T. J. P., Kellis, M., Paten, B., Reymond, A., Tress, M. L. & Flicek, P., 8 Jan 2019, In: Nucleic Acids Research. 47, D1, p. D766-D773 Research output: Contribution to journal - Article - peer-review. DOIs: https://doi.org/10.1093/nar/gky955
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Schmidt, C. & Hubbard, T., 15 Jul 2018, In: Cardiovascular Research. 114, 9, p. E66-E67 Research output: Contribution to journal - Comment/debate - peer-review. DOIs: https://doi.org/10.1093/cvr/cvy133
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100 000 Genomes Project, Turnbull, C., Scott, R. H., Thomas, E., Jones, L., Murugaesu, N., Pretty, F. B., Halai, D., Baple, E., Craig, C., Hamblin, A., Henderson, S., Patch, C., O'Neill, A., Devereaux, A., Smith, K., Martin, A. R., Sosinsky, A., McDonagh, E. M., Sultana, R. & 10 others, Mueller, M., Smedley, D., Toms, A., Dinh, L., Fowler, T., Bale, M., Hubbard, T., Rendon, A., Hill, S. & Caulfield, M. J., 24 Apr 2018, In: BMJ. 361, 0, 7 p., k1687. Research output: Contribution to journal - Article - peer-review. DOIs: https://doi.org/10.1136/bmj.k1687
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Gkotsis, G., Oellrich, A., Velupillai, S., Liakata, M., Hubbard, T. J. P., Dobson, R. J. B. & Dutta, R., 16 May 2017, In: Scientific Reports. 7, p. 46813 Research output: Contribution to journal - Article - peer-review. DOIs: https://doi.org/10.1038/srep46813
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Schneider, V. A., Graves-Lindsay, T., Howe, K., Bouk, N., Chen, H-C., Kitts, P. A., Murphy, T. D., Pruitt, K. D., Thibaud-Nissen, F., Albracht, D., Fulton, R. S., Kremitzki, M., Magrini, V., Markovic, C., McGrath, S., Steinberg, K. M., Auger, K., Chow, W., Collins, J., Harden, G. & 18 others, Hubbard, T., Pelan, S., Simpson, J. T., Threadgold, G., Torrance, J., Wood, J. M., Clarke, L., Koren, S., Boitano, M., Peluso, P., Li, H., Chin, C-S., Phillippy, A. M., Durbin, R., Wilson, R. K., Flicek, P., Eichler, E. E. & Church, D. M., May 2017, In: Genome Research. 27, 5, p. 849-864 16 p. Research output: Contribution to journal - Article - peer-review. DOIs: https://doi.org/10.1101/gr.213611.116