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Julian Gough (scientist)

October 27, 2023

Julian John Thurstan Gough (born 1974)[2] is a Group Leader in the Laboratory of Molecular Biology (LMB) of the Medical Research Council (MRC).[1][7][8] He was previously[when?] a professor of bioinformatics at the University of Bristol.[9]

Julian Gough
Born
Julian John Thurstan Gough[6]

September 1974 (age 49)[2]
EducationThe Perse School
Alma mater
Known forSuperfamily database
Scientific career
Fields
Institutions
ThesisHidden Markov models and their application to the genome analysis in the context of protein structure (2001)
Doctoral advisorCyrus Chothia[4][5]
Websitewww2.mrc-lmb.cam.ac.uk/group-leaders/a-to-g/julian-gough/

Education edit

Gough was educated at The Perse School[10] in Cambridge and the University of Bristol where he was awarded a joint honours degree in Mathematics and Physics in 1998.[9][10] He went on to complete his PhD in the Laboratory of Molecular Biology (LMB) supervised by Cyrus Chothia on genome analysis and protein structure as a postgraduate student of Sidney Sussex College, Cambridge, graduating in 2001.[5]

Career and research edit

Following his PhD, Gough completed postdoctoral research at the LMB and Stanford University, with Michael Levitt. Subsequently, he was a scientist at RIKEN in Tokyo before being appointed a member of faculty at the University of Bristol, where he has worked since 2007.[10] He has also been a visiting scientist at the Pasteur Institute in Paris and an associate professor at Tokyo Medical and Dental University.[9]

Gough's research interests are in bioinformatics, computational biology, molecular biology, genomics[1] which has led to the creation of the Superfamily database[11][12] of Hidden Markov models (HMMs) representing all proteins of known structure. His research has been published in leading peer reviewed scientific journals including Nature,[13][14] Science,[15][16] Cell,[17] Nucleic Acids Research,[18][19][20][21][22] PNAS,[23][24] the Biochemical Journal,[25] the Journal of Molecular Biology,[26][27][28] Genome Research,[29] Bioinformatics,[30] PLOS Genetics,[31] Nature Genetics[32] and the Journal of Bacteriology.[33]

Gough's research has been funded by the Biotechnology and Biological Sciences Research Council (BBSRC), the Engineering and Physical Sciences Research Council (EPSRC), the Natural Environment Research Council (NERC),[34] the European Union (EU) Seventh Research Framework Programme (FP7), the Japan Society for the Promotion of Science (JSPS) and the Royal Society of London.[9]

His former doctoral students and postdocs include Ralph Pethica,[4][35][36] Owen Rackham,[4][37] Hashem Shihab,[38][39][40][41] Matt Oates,[42][43] and Dimitrios Vavoulis.[41][42]

References edit

  1. ^ a b c Julian Gough publications indexed by Google Scholar  
  2. ^ a b c d . London: Companies House, Government of the United Kingdom. Archived from the original on 18 July 2016.
  3. ^ . University of Bristol. 3 June 2013. Archived from the original on 11 November 2014.
  4. ^ a b c Julian Gough at the Mathematics Genealogy Project
  5. ^ a b Gough, Julian (2001). (PDF) (PhD thesis). University of Cambridge. OCLC 879396947. EThOS 599547. Archived from the original (PDF) on 11 March 2015.
  6. ^ "University Library thesis catalog: Julian John Thurstan Gough". University of Cambridge. Archived from the original on 16 March 2015.
  7. ^ Julian Gough at DBLP Bibliography Server  
  8. ^ Julian Gough's publications indexed by the Scopus bibliographic database. (subscription required)
  9. ^ a b c d . University of Bristol. Archived from the original on 11 March 2015.
  10. ^ a b c "Julian Gough profile". LinkedIn. Archived from the original on 15 April 2015.
  11. ^ Gough, J.; Chothia, C. (2002). "SUPERFAMILY: HMMs representing all proteins of known structure. SCOP sequence searches, alignments and genome assignments". Nucleic Acids Research. 30 (1): 268–272. doi:10.1093/nar/30.1.268. PMC 99153. PMID 11752312.
  12. ^ De Lima Morais, D. A.; Fang, H.; Rackham, O. J. L.; Wilson, D.; Pethica, R.; Chothia, C.; Gough, J. (2010). "SUPERFAMILY 1.75 including a domain-centric gene ontology method". Nucleic Acids Research. 39 (Database issue): D427–D434. doi:10.1093/nar/gkq1130. PMC 3013712. PMID 21062816.
  13. ^ FANTOM Consortium and the RIKEN PMI and CLST (DGT); Forrest, A. R.; Kawaji, H; Rehli, M; Baillie, J. K.; De Hoon, M. J.; Haberle, V; Lassmann, T; Kulakovskiy, I. V.; Lizio, M; Itoh, M; Andersson, R; Mungall, C. J.; Meehan, T. F.; Schmeier, S; Bertin, N; Jørgensen, M; Dimont, E; Arner, E; Schmidl, C; Schaefer, U; Medvedeva, Y. A.; Plessy, C; Vitezic, M; Severin, J; Semple, C; Ishizu, Y; Young, R. S.; Francescatto, M; et al. (2014). "A promoter-level mammalian expression atlas". Nature. 507 (7493): 462–70. Bibcode:2014Natur.507..462T. doi:10.1038/nature13182. PMC 4529748. PMID 24670764.
  14. ^ Okazaki, Y.; Furuno, M.; Kasukawa, T.; Adachi, J.; Bono, H.; Kondo, S.; Nikaido, I.; Osato, N.; Saito, R.; Suzuki, H.; Yamanaka, I.; Kiyosawa, H.; Yagi, K.; Tomaru, Y.; Hasegawa, Y.; Nogami, A.; Schönbach, C.; Gojobori, T.; Baldarelli, R.; Hill, D. P.; Bult, C.; Hume, D. A.; Quackenbush, J.; Schriml, L. M.; Kanapin, A.; Matsuda, H.; Batalov, S.; Beisel, K. W.; Blake, J. A.; et al. (2002). "Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs". Nature. 420 (6915): 563–573. Bibcode:2002Natur.420..563O. doi:10.1038/nature01266. PMID 12466851.
  15. ^ Chothia, C; Gough, J; Vogel, C; Teichmann, S. A. (2003). "Evolution of the protein repertoire". Science. 300 (5626): 1701–3. Bibcode:2003Sci...300.1701C. doi:10.1126/science.1085371. PMID 12805536. S2CID 27681885.
  16. ^ Carninci, P; Kasukawa, T; Katayama, S; Gough, J; Frith, M. C.; Maeda, N; Oyama, R; Ravasi, T; Lenhard, B; Wells, C; Kodzius, R; Shimokawa, K; Bajic, V. B.; Brenner, S. E.; Batalov, S; Forrest, A. R.; Zavolan, M; Davis, M. J.; Wilming, L. G.; Aidinis, V; Allen, J. E.; Ambesi-Impiombato, A; Apweiler, R; Aturaliya, R. N.; Bailey, T. L.; Bansal, M; Baxter, L; Beisel, K. W.; Bersano, T; et al. (2005). "The transcriptional landscape of the mammalian genome". Science. 309 (5740): 1559–63. Bibcode:2005Sci...309.1559F. doi:10.1126/science.1112014. PMID 16141072. S2CID 8712839.
  17. ^ Ravasi, T; Suzuki, H; Cannistraci, C. V.; Katayama, S; Bajic, V. B.; Tan, K; Akalin, A; Schmeier, S; Kanamori-Katayama, M; Bertin, N; Carninci, P; Daub, C. O.; Forrest, A. R.; Gough, J; Grimmond, S; Han, J. H.; Hashimoto, T; Hide, W; Hofmann, O; Kamburov, A; Kaur, M; Kawaji, H; Kubosaki, A; Lassmann, T; Van Nimwegen, E; MacPherson, C. R.; Ogawa, C; Radovanovic, A; Schwartz, A; Teasdale, R. D.; Tegnér, J; Lenhard, B; Teichmann, SA; Arakawa, T; Ninomiya, N; Murakami, K; Tagami, M; Fukuda, S; Imamura, K; Kai, C; Ishihara, R; Kitazume, Y; Kawai, J; Hume, DA; Ideker, T; Hayashizaki, Y (2010). "An atlas of combinatorial transcriptional regulation in mouse and man". Cell. 140 (5): 744–52. doi:10.1016/j.cell.2010.01.044. PMC 2836267. PMID 20211142.  
  18. ^ Lewis, T. E.; Sillitoe, I; Andreeva, A; Blundell, T. L.; Buchan, D. W.; Chothia, C; Cozzetto, D; Dana, J. M.; Filippis, I; Gough, J; Jones, D. T.; Kelley, L. A.; Kleywegt, G. J.; Minneci, F; Mistry, J; Murzin, A. G.; Ochoa-Montaño, B; Oates, M. E.; Punta, M; Rackham, O. J.; Stahlhacke, J; Sternberg, M. J.; Velankar, S; Orengo, C (2015). "Genome3D: Exploiting structure to help users understand their sequences". Nucleic Acids Research. 43 (Database issue): D382–6. doi:10.1093/nar/gku973. PMC 4384030. PMID 25348407.
  19. ^ Mitchell, A; Chang, H. Y.; Daugherty, L; Fraser, M; Hunter, S; Lopez, R; McAnulla, C; McMenamin, C; Nuka, G; Pesseat, S; Sangrador-Vegas, A; Scheremetjew, M; Rato, C; Yong, S. Y.; Bateman, A; Punta, M; Attwood, T. K.; Sigrist, C. J.; Redaschi, N; Rivoire, C; Xenarios, I; Kahn, D; Guyot, D; Bork, P; Letunic, I; Gough, J; Oates, M; Haft, D; Huang, H; Natale, D. A. (2015). "The InterPro protein families database: The classification resource after 15 years". Nucleic Acids Research. 43 (Database issue): D213–21. doi:10.1093/nar/gku1243. PMC 4383996. PMID 25428371.  
  20. ^ Hunter, S.; Jones, P.; Mitchell, A.; Apweiler, R.; Attwood, T. K.; Bateman, A.; Bernard, T.; Binns, D.; Bork, P.; Burge, S.; De Castro, E.; Coggill, P.; Corbett, M.; Das, U.; Daugherty, L.; Duquenne, L.; Finn, R. D.; Fraser, M.; Gough, J.; Haft, D.; Hulo, N.; Kahn, D.; Kelly, E.; Letunic, I.; Lonsdale, D.; Lopez, R.; Madera, M.; Maslen, J.; McAnulla, C.; McDowall, J. (2011). "InterPro in 2011: New developments in the family and domain prediction database". Nucleic Acids Research. 40 (Database issue): D306–D312. doi:10.1093/nar/gkr948. PMC 3245097. PMID 22096229.
  21. ^ Hunter, S.; Apweiler, R.; Attwood, T.; Bairoch, A.; Bateman, A.; Binns, D.; Bork, P.; Das, U.; Daugherty, L.; Duquenne, L.; Finn, R. D.; Gough, J.; Haft, D.; Hulo, N.; Kahn, D.; Kelly, E.; Laugraud, A.; Letunic, I.; Lonsdale, D.; Lopez, R.; Madera, M.; Maslen, J.; McAnulla, C.; McDowall, J.; Mistry, J.; Mitchell, A.; Mulder, N.; Natale, D.; Orengo, C.; Quinn, A. F. (January 2009). "InterPro: the integrative protein signature database". Nucleic Acids Research. 37 (Database issue): D211–D215. doi:10.1093/nar/gkn785. ISSN 0305-1048. PMC 2686546. PMID 18940856.  
  22. ^ Mulder, N. J.; Apweiler, R; Attwood, T. K.; Bairoch, A; Bateman, A; Binns, D; Bradley, P; Bork, P; Bucher, P; Cerutti, L; Copley, R; Courcelle, E; Das, U; Durbin, R; Fleischmann, W; Gough, J; Haft, D; Harte, N; Hulo, N; Kahn, D; Kanapin, A; Krestyaninova, M; Lonsdale, D; Lopez, R; Letunic, I; Madera, M; Maslen, J; McDowall, J; Mitchell, A; et al. (2005). "InterPro, progress and status in 2005". Nucleic Acids Research. 33 (Database issue): D201–5. doi:10.1093/nar/gki106. PMC 540060. PMID 15608177.  
  23. ^ Vinogradov, S. N.; Hoogewijs, D; Bailly, X; Arredondo-Peter, R; Guertin, M; Gough, J; Dewilde, S; Moens, L; Vanfleteren, J. R. (2005). "Three globin lineages belonging to two structural classes in genomes from the three kingdoms of life". Proceedings of the National Academy of Sciences. 102 (32): 11385–9. Bibcode:2005PNAS..10211385V. doi:10.1073/pnas.0502103102. PMC 1183549. PMID 16061809.
  24. ^ Gherardi, E; Youles, M. E.; Miguel, R. N.; Blundell, T. L.; Iamele, L; Gough, J; Bandyopadhyay, A; Hartmann, G; Butler, P. J. (2003). "Functional map and domain structure of MET, the product of the c-met protooncogene and receptor for hepatocyte growth factor/scatter factor". Proceedings of the National Academy of Sciences. 100 (21): 12039–44. Bibcode:2003PNAS..10012039G. doi:10.1073/pnas.2034936100. PMC 218709. PMID 14528000.
  25. ^ Chothia, C; Gough, J (2009). "Genomic and structural aspects of protein evolution". Biochemical Journal. 419 (1): 15–28. doi:10.1042/BJ20090122. PMID 19272021.
  26. ^ Apic, G; Gough, J; Teichmann, S. A. (2001). "Domain combinations in archaeal, eubacterial and eukaryotic proteomes". Journal of Molecular Biology. 310 (2): 311–25. doi:10.1006/jmbi.2001.4776. PMID 11428892.
  27. ^ Gough, J.; Karplus, K.; Hughey, R.; Chothia, C. (2001). "Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure1". Journal of Molecular Biology. 313 (4): 903–919. CiteSeerX 10.1.1.144.6577. doi:10.1006/jmbi.2001.5080. PMID 11697912.
  28. ^ Teichmann, S. A.; Rison, S. C.; Thornton, J. M.; Riley, M; Gough, J; Chothia, C (2001). "The evolution and structural anatomy of the small molecule metabolic pathways in Escherichia coli". Journal of Molecular Biology. 311 (4): 693–708. CiteSeerX 10.1.1.121.1628. doi:10.1006/jmbi.2001.4912. PMID 11518524.
  29. ^ Kasukawa, T; Furuno, M; Nikaido, I; Bono, H; Hume, D. A.; Bult, C; Hill, D. P.; Baldarelli, R; Gough, J; Kanapin, A; Matsuda, H; Schriml, L. M.; Hayashizaki, Y; Okazaki, Y; Quackenbush, J (2003). "Development and evaluation of an automated annotation pipeline and cDNA annotation system". Genome Research. 13 (6B): 1542–51. doi:10.1101/gr.992803. PMC 403710. PMID 12819153.  
  30. ^ Shihab, H. A.; Gough, J; Cooper, D. N.; Day, I. N.; Gaunt, T. R. (2013). "Predicting the functional consequences of cancer-associated amino acid substitutions". Bioinformatics. 29 (12): 1504–10. doi:10.1093/bioinformatics/btt182. PMC 3673218. PMID 23620363.
  31. ^ Liu, J.; Gough, J.; Rost, B. (2006). "Distinguishing Protein-Coding from Non-Coding RNAs through Support Vector Machines". PLOS Genetics. 2 (4): e29. doi:10.1371/journal.pgen.0020029. PMC 1449884. PMID 16683024.
  32. ^ Fantom, Consortium; Suzuki, H; Forrest, A. R.; Van Nimwegen, E; Daub, C. O.; Balwierz, P. J.; Irvine, K. M.; Lassmann, T; Ravasi, T; Hasegawa, Y; De Hoon, M. J.; Katayama, S; Schroder, K; Carninci, P; Tomaru, Y; Kanamori-Katayama, M; Kubosaki, A; Akalin, A; Ando, Y; Arner, E; Asada, M; Asahara, H; Bailey, T; Bajic, V. B.; Bauer, D; Beckhouse, A. G.; Bertin, N; Björkegren, J; Brombacher, F; et al. (2009). "The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line". Nature Genetics. 41 (5): 553–62. doi:10.1038/ng.375. PMC 6711855. PMID 19377474.
  33. ^ Babu, M. M.; Priya, M. L.; Selvan, A. T.; Madera, M; Gough, J; Aravind, L; Sankaran, K (2006). "A database of bacterial lipoproteins (DOLOP) with functional assignments to predicted lipoproteins". Journal of Bacteriology. 188 (8): 2761–73. doi:10.1128/JB.188.8.2761-2773.2006. PMC 1446993. PMID 16585737.
  34. ^ . Research Councils UK. Archived from the original on 15 March 2015.
  35. ^ Pethica, Ralph Brian (2011). Sequences, structures and biological functions of molecular evolution (PhD thesis). University of Bristol. OCLC 784569999.
  36. ^ Pethica, R. B.; Levitt, M.; Gough, J. (2012). "Evolutionarily consistent families in SCOP: Sequence, structure and function". BMC Structural Biology. 12: 27. doi:10.1186/1472-6807-12-27. PMC 3495643. PMID 23078280.  
  37. ^ Rackham, Owen John Llewellyn (2012). Understanding and controlling the multi-scale complexity of the cell (PhD thesis). University of Bristol. Archived from the original on 16 March 2015.
  38. ^ Ali Shihab, Hashem (2013). (PhD thesis). University of Bristol. Archived from the original on 6 June 2022.
  39. ^ Shihab, H. A.; Gough, J; Mort, M; Cooper, D. N.; Day, I. N.; Gaunt, T. R. (2014). "Ranking non-synonymous single nucleotide polymorphisms based on disease concepts". Human Genomics. 8 (1): 11. doi:10.1186/1479-7364-8-11. PMC 4083756. PMID 24980617.
  40. ^ Shihab, H. A.; Gough, J; Cooper, D. N.; Day, I. N.; Gaunt, T. R. (2013). "Predicting the functional consequences of cancer-associated amino acid substitutions". Bioinformatics. 29 (12): 1504–10. doi:10.1093/bioinformatics/btt182. PMC 3673218. PMID 23620363.
  41. ^ a b . University of Bristol. Archived from the original on 19 March 2015.
  42. ^ a b Oates, M. E.; Stahlhacke, J; Vavoulis, D. V.; Smithers, B; Rackham, O. J.; Sardar, A. J.; Zaucha, J; Thurlby, N; Fang, H; Gough, J (2015). "The SUPERFAMILY 1.75 database in 2014: A doubling of data". Nucleic Acids Research. 43 (Database issue): D227–33. doi:10.1093/nar/gku1041. PMC 4383889. PMID 25414345.
  43. ^ Oates, M. E.; Romero, P; Ishida, T; Ghalwash, M; Mizianty, M. J.; Xue, B; Dosztányi, Z; Uversky, V. N.; Obradovic, Z; Kurgan, L; Dunker, A. K.; Gough, J (2013). "D²P²: Database of disordered protein predictions". Nucleic Acids Research. 41 (Database issue): D508–16. doi:10.1093/nar/gks1226. PMC 3531159. PMID 23203878.

October 27, 2023
julian, gough, scientist, julian, john, thurstan, gough, born, 1974, group, leader, laboratory, molecular, biology, medical, research, council, previously, when, professor, bioinformatics, university, bristol, julian, goughbornjulian, john, thurstan, gough, se. Julian John Thurstan Gough born 1974 2 is a Group Leader in the Laboratory of Molecular Biology LMB of the Medical Research Council MRC 1 7 8 He was previously when a professor of bioinformatics at the University of Bristol 9 Julian GoughBornJulian John Thurstan Gough 6 September 1974 age 49 2 EducationThe Perse SchoolAlma materUniversity of Bristol BSc University of Cambridge PhD Known forSuperfamily databaseScientific careerFieldsBioinformatics Computational Biology Molecular Biology Genomics 1 InstitutionsUniversity of Bristol RIKEN Stanford University Tokyo Medical and Dental University Pasteur Institute Laboratory of Molecular Biology LMB GeneTrainer Ltd 2 3 Cell Mogrify Ltd 2 ThesisHidden Markov models and their application to the genome analysis in the context of protein structure 2001 Doctoral advisorCyrus Chothia 4 5 Websitewww2 wbr mrc lmb wbr cam wbr ac wbr uk wbr group leaders wbr a to g wbr julian gough wbr Education editGough was educated at The Perse School 10 in Cambridge and the University of Bristol where he was awarded a joint honours degree in Mathematics and Physics in 1998 9 10 He went on to complete his PhD in the Laboratory of Molecular Biology LMB supervised by Cyrus Chothia on genome analysis and protein structure as a postgraduate student of Sidney Sussex College Cambridge graduating in 2001 5 Career and research editFollowing his PhD Gough completed postdoctoral research at the LMB and Stanford University with Michael Levitt Subsequently he was a scientist at RIKEN in Tokyo before being appointed a member of faculty at the University of Bristol where he has worked since 2007 10 He has also been a visiting scientist at the Pasteur Institute in Paris and an associate professor at Tokyo Medical and Dental University 9 Gough s research interests are in bioinformatics computational biology molecular biology genomics 1 which has led to the creation of the Superfamily database 11 12 of Hidden Markov models HMMs representing all proteins of known structure His research has been published in leading peer reviewed scientific journals including Nature 13 14 Science 15 16 Cell 17 Nucleic Acids Research 18 19 20 21 22 PNAS 23 24 the Biochemical Journal 25 the Journal of Molecular Biology 26 27 28 Genome Research 29 Bioinformatics 30 PLOS Genetics 31 Nature Genetics 32 and the Journal of Bacteriology 33 Gough s research has been funded by the Biotechnology and Biological Sciences Research Council BBSRC the Engineering and Physical Sciences Research Council EPSRC the Natural Environment Research Council NERC 34 the European Union EU Seventh Research Framework Programme FP7 the Japan Society for the Promotion of Science JSPS and the Royal Society of London 9 His former doctoral students and postdocs include Ralph Pethica 4 35 36 Owen Rackham 4 37 Hashem Shihab 38 39 40 41 Matt Oates 42 43 and Dimitrios Vavoulis 41 42 References edit a b c Julian Gough publications indexed by Google Scholar nbsp a b c d Julian GOUGH London Companies House Government of the United Kingdom Archived from the original on 18 July 2016 Genetrainer genetically guided fitness in the running for major technology award University of Bristol 3 June 2013 Archived from the original on 11 November 2014 a b c Julian Gough at the Mathematics Genealogy Project a b Gough Julian 2001 Hidden Markov models and their application to genome analysis in the context of protein structure PDF PhD thesis University of Cambridge OCLC 879396947 EThOS 599547 Archived from the original PDF on 11 March 2015 University Library thesis catalog Julian John Thurstan Gough University of Cambridge Archived from the original on 16 March 2015 Julian Gough at DBLP Bibliography Server nbsp Julian Gough s publications indexed by the Scopus bibliographic database subscription required a b c d Computational Genomics Group Professor Julian Gough University of Bristol Archived from the original on 11 March 2015 a b c Julian Gough profile LinkedIn Archived from the original on 15 April 2015 Gough J Chothia C 2002 SUPERFAMILY HMMs representing all proteins of known structure SCOP sequence searches alignments and genome assignments Nucleic Acids Research 30 1 268 272 doi 10 1093 nar 30 1 268 PMC 99153 PMID 11752312 De Lima Morais D A Fang H Rackham O J L Wilson D Pethica R Chothia C Gough J 2010 SUPERFAMILY 1 75 including a domain centric gene ontology method Nucleic Acids Research 39 Database issue D427 D434 doi 10 1093 nar gkq1130 PMC 3013712 PMID 21062816 FANTOM Consortium and the RIKEN PMI and CLST DGT Forrest A R Kawaji H Rehli M Baillie J K De Hoon M J Haberle V Lassmann T Kulakovskiy I V Lizio M Itoh M Andersson R Mungall C J Meehan T F Schmeier S Bertin N Jorgensen M Dimont E Arner E Schmidl C Schaefer U Medvedeva Y A Plessy C Vitezic M Severin J Semple C Ishizu Y Young R S Francescatto M et al 2014 A promoter level mammalian expression atlas Nature 507 7493 462 70 Bibcode 2014Natur 507 462T doi 10 1038 nature13182 PMC 4529748 PMID 24670764 Okazaki Y Furuno M Kasukawa T Adachi J Bono H Kondo S Nikaido I Osato N Saito R Suzuki H Yamanaka I Kiyosawa H Yagi K Tomaru Y Hasegawa Y Nogami A Schonbach C Gojobori T Baldarelli R Hill D P Bult C Hume D A Quackenbush J Schriml L M Kanapin A Matsuda H Batalov S Beisel K W Blake J A et al 2002 Analysis of the mouse transcriptome based on functional annotation of 60 770 full length cDNAs Nature 420 6915 563 573 Bibcode 2002Natur 420 563O doi 10 1038 nature01266 PMID 12466851 Chothia C Gough J Vogel C Teichmann S A 2003 Evolution of the protein repertoire Science 300 5626 1701 3 Bibcode 2003Sci 300 1701C doi 10 1126 science 1085371 PMID 12805536 S2CID 27681885 Carninci P Kasukawa T Katayama S Gough J Frith M C Maeda N Oyama R Ravasi T Lenhard B Wells C Kodzius R Shimokawa K Bajic V B Brenner S E Batalov S Forrest A R Zavolan M Davis M J Wilming L G Aidinis V Allen J E Ambesi Impiombato A Apweiler R Aturaliya R N Bailey T L Bansal M Baxter L Beisel K W Bersano T et al 2005 The transcriptional landscape of the mammalian genome Science 309 5740 1559 63 Bibcode 2005Sci 309 1559F doi 10 1126 science 1112014 PMID 16141072 S2CID 8712839 Ravasi T Suzuki H Cannistraci C V Katayama S Bajic V B Tan K Akalin A Schmeier S Kanamori Katayama M Bertin N Carninci P Daub C O Forrest A R Gough J Grimmond S Han J H Hashimoto T Hide W Hofmann O Kamburov A Kaur M Kawaji H Kubosaki A Lassmann T Van Nimwegen E MacPherson C R Ogawa C Radovanovic A Schwartz A Teasdale R D Tegner J Lenhard B Teichmann SA Arakawa T Ninomiya N Murakami K Tagami M Fukuda S Imamura K Kai C Ishihara R Kitazume Y Kawai J Hume DA Ideker T Hayashizaki Y 2010 An atlas of combinatorial transcriptional regulation in mouse and man Cell 140 5 744 52 doi 10 1016 j cell 2010 01 044 PMC 2836267 PMID 20211142 nbsp Lewis T E Sillitoe I Andreeva A Blundell T L Buchan D W Chothia C Cozzetto D Dana J M Filippis I Gough J Jones D T Kelley L A Kleywegt G J Minneci F Mistry J Murzin A G Ochoa Montano B Oates M E Punta M Rackham O J Stahlhacke J Sternberg M J Velankar S Orengo C 2015 Genome3D Exploiting structure to help users understand their sequences Nucleic Acids Research 43 Database issue D382 6 doi 10 1093 nar gku973 PMC 4384030 PMID 25348407 Mitchell A Chang H Y Daugherty L Fraser M Hunter S Lopez R McAnulla C McMenamin C Nuka G Pesseat S Sangrador Vegas A Scheremetjew M Rato C Yong S Y Bateman A Punta M Attwood T K Sigrist C J Redaschi N Rivoire C Xenarios I Kahn D Guyot D Bork P Letunic I Gough J Oates M Haft D Huang H Natale D A 2015 The InterPro protein families database The classification resource after 15 years Nucleic Acids Research 43 Database issue D213 21 doi 10 1093 nar gku1243 PMC 4383996 PMID 25428371 nbsp Hunter S Jones P Mitchell A Apweiler R Attwood T K Bateman A Bernard T Binns D Bork P Burge S De Castro E Coggill P Corbett M Das U Daugherty L Duquenne L Finn R D Fraser M Gough J Haft D Hulo N Kahn D Kelly E Letunic I Lonsdale D Lopez R Madera M Maslen J McAnulla C McDowall J 2011 InterPro in 2011 New developments in the family and domain prediction database Nucleic Acids Research 40 Database issue D306 D312 doi 10 1093 nar gkr948 PMC 3245097 PMID 22096229 Hunter S Apweiler R Attwood T Bairoch A Bateman A Binns D Bork P Das U Daugherty L Duquenne L Finn R D Gough J Haft D Hulo N Kahn D Kelly E Laugraud A Letunic I Lonsdale D Lopez R Madera M Maslen J McAnulla C McDowall J Mistry J Mitchell A Mulder N Natale D Orengo C Quinn A F January 2009 InterPro the integrative protein signature database Nucleic Acids Research 37 Database issue D211 D215 doi 10 1093 nar gkn785 ISSN 0305 1048 PMC 2686546 PMID 18940856 nbsp Mulder N J Apweiler R Attwood T K Bairoch A Bateman A Binns D Bradley P Bork P Bucher P Cerutti L Copley R Courcelle E Das U Durbin R Fleischmann W Gough J Haft D Harte N Hulo N Kahn D Kanapin A Krestyaninova M Lonsdale D Lopez R Letunic I Madera M Maslen J McDowall J Mitchell A et al 2005 InterPro progress and status in 2005 Nucleic Acids Research 33 Database issue D201 5 doi 10 1093 nar gki106 PMC 540060 PMID 15608177 nbsp Vinogradov S N Hoogewijs D Bailly X Arredondo Peter R Guertin M Gough J Dewilde S Moens L Vanfleteren J R 2005 Three globin lineages belonging to two structural classes in genomes from the three kingdoms of life Proceedings of the National Academy of Sciences 102 32 11385 9 Bibcode 2005PNAS 10211385V doi 10 1073 pnas 0502103102 PMC 1183549 PMID 16061809 Gherardi E Youles M E Miguel R N Blundell T L Iamele L Gough J Bandyopadhyay A Hartmann G Butler P J 2003 Functional map and domain structure of MET the product of the c met protooncogene and receptor for hepatocyte growth factor scatter factor Proceedings of the National Academy of Sciences 100 21 12039 44 Bibcode 2003PNAS 10012039G doi 10 1073 pnas 2034936100 PMC 218709 PMID 14528000 Chothia C Gough J 2009 Genomic and structural aspects of protein evolution Biochemical Journal 419 1 15 28 doi 10 1042 BJ20090122 PMID 19272021 Apic G Gough J Teichmann S A 2001 Domain combinations in archaeal eubacterial and eukaryotic proteomes Journal of Molecular Biology 310 2 311 25 doi 10 1006 jmbi 2001 4776 PMID 11428892 Gough J Karplus K Hughey R Chothia C 2001 Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure1 Journal of Molecular Biology 313 4 903 919 CiteSeerX 10 1 1 144 6577 doi 10 1006 jmbi 2001 5080 PMID 11697912 Teichmann S A Rison S C Thornton J M Riley M Gough J Chothia C 2001 The evolution and structural anatomy of the small molecule metabolic pathways in Escherichia coli Journal of Molecular Biology 311 4 693 708 CiteSeerX 10 1 1 121 1628 doi 10 1006 jmbi 2001 4912 PMID 11518524 Kasukawa T Furuno M Nikaido I Bono H Hume D A Bult C Hill D P Baldarelli R Gough J Kanapin A Matsuda H Schriml L M Hayashizaki Y Okazaki Y Quackenbush J 2003 Development and evaluation of an automated annotation pipeline and cDNA annotation system Genome Research 13 6B 1542 51 doi 10 1101 gr 992803 PMC 403710 PMID 12819153 nbsp Shihab H A Gough J Cooper D N Day I N Gaunt T R 2013 Predicting the functional consequences of cancer associated amino acid substitutions Bioinformatics 29 12 1504 10 doi 10 1093 bioinformatics btt182 PMC 3673218 PMID 23620363 Liu J Gough J Rost B 2006 Distinguishing Protein Coding from Non Coding RNAs through Support Vector Machines PLOS Genetics 2 4 e29 doi 10 1371 journal pgen 0020029 PMC 1449884 PMID 16683024 Fantom Consortium Suzuki H Forrest A R Van Nimwegen E Daub C O Balwierz P J Irvine K M Lassmann T Ravasi T Hasegawa Y De Hoon M J Katayama S Schroder K Carninci P Tomaru Y Kanamori Katayama M Kubosaki A Akalin A Ando Y Arner E Asada M Asahara H Bailey T Bajic V B Bauer D Beckhouse A G Bertin N Bjorkegren J Brombacher F et al 2009 The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line Nature Genetics 41 5 553 62 doi 10 1038 ng 375 PMC 6711855 PMID 19377474 Babu M M Priya M L Selvan A T Madera M Gough J Aravind L Sankaran K 2006 A database of bacterial lipoproteins DOLOP with functional assignments to predicted lipoproteins Journal of Bacteriology 188 8 2761 73 doi 10 1128 JB 188 8 2761 2773 2006 PMC 1446993 PMID 16585737 UK Government Grants awarded Julian Gough Research Councils UK Archived from the original on 15 March 2015 Pethica Ralph Brian 2011 Sequences structures and biological functions of molecular evolution PhD thesis University of Bristol OCLC 784569999 Pethica R B Levitt M Gough J 2012 Evolutionarily consistent families in SCOP Sequence structure and function BMC Structural Biology 12 27 doi 10 1186 1472 6807 12 27 PMC 3495643 PMID 23078280 nbsp Rackham Owen John Llewellyn 2012 Understanding and controlling the multi scale complexity of the cell PhD thesis University of Bristol Archived from the original on 16 March 2015 Ali Shihab Hashem 2013 Predicting the functional effects of genetic variation PhD thesis University of Bristol Archived from the original on 6 June 2022 Shihab H A Gough J Mort M Cooper D N Day I N Gaunt T R 2014 Ranking non synonymous single nucleotide polymorphisms based on disease concepts Human Genomics 8 1 11 doi 10 1186 1479 7364 8 11 PMC 4083756 PMID 24980617 Shihab H A Gough J Cooper D N Day I N Gaunt T R 2013 Predicting the functional consequences of cancer associated amino acid substitutions Bioinformatics 29 12 1504 10 doi 10 1093 bioinformatics btt182 PMC 3673218 PMID 23620363 a b People in the Computational Genomics group at Bristol University of Bristol Archived from the original on 19 March 2015 a b Oates M E Stahlhacke J Vavoulis D V Smithers B Rackham O J Sardar A J Zaucha J Thurlby N Fang H Gough J 2015 The SUPERFAMILY 1 75 database in 2014 A doubling of data Nucleic Acids Research 43 Database issue D227 33 doi 10 1093 nar gku1041 PMC 4383889 PMID 25414345 Oates M E Romero P Ishida T Ghalwash M Mizianty M J Xue B Dosztanyi Z Uversky V N Obradovic Z Kurgan L Dunker A K Gough J 2013 D P Database of disordered protein predictions Nucleic Acids Research 41 Database issue D508 16 doi 10 1093 nar gks1226 PMC 3531159 PMID 23203878 Retrieved from https en wikipedia org w index php title Julian Gough scientist amp oldid 1181782629, wikipedia, wiki, book, books, library,

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