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Tim J. P. Hubbard

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2008
27EEAntonina Andreeva, Dave Howorth, John-Marc Chandonia, Steven E. Brenner, Tim J. P. Hubbard, Cyrus Chothia, Alexey G. Murzin: Data growth and its impact on the SCOP database: new developments. Nucleic Acids Research 36(Database-Issue): 419-425 (2008)
26EEGuy Cochrane, Ruth Akhtar, Philippe Aldebert, Nicola Althorpe, Alastair Baldwin, Kirsty Bates, Sumit Bhattacharyya, James K. Bonfield, Lawrence Bower, Paul Browne, Matias Castro, Tony Cox, Fehmi Demiralp, Ruth Eberhardt, Nadeem Faruque, Gemma Hoad, Mikyung Jang, Tamara Kulikova, Alberto Labarga, Rasko Leinonen, Steven Leonard, Quan Lin, Rodrigo Lopez, Dariusz Lorenc, Hamish McWilliam, Gaurab Mukherjee, Francesco Nardone, Sheila Plaister, Stephen Robinson, Siamak Sobhany, Robert Vaughan, Dan Wu, Weimin Zhu, Rolf Apweiler, Tim J. P. Hubbard, Ewan Birney: Priorities for nucleotide trace, sequence and annotation data capture at the Ensembl Trace Archive and the EMBL Nucleotide Sequence Database. Nucleic Acids Research 36(Database-Issue): 5-12 (2008)
25EEPaul Flicek, B. L. Aken, K. Beal, B. Ballester, Mario Cáccamo, Yuan Chen, Laura Clarke, G. Coates, Fiona Cunningham, Tim Cutts, Thomas A. Down, S. C. Dyer, T. Eyre, S. Fitzgerald, J. Fernandez-Banet, Stefan Gräf, S. Haider, Martin Hammond, Richard C. G. Holland, Kevin L. Howe, K. Howe, N. Johnson, A. Jenkinson, Andreas Kähäri, Damian Keefe, Felix Kokocinski, Eugene Kulesha, Daniel Lawson, I. Longden, Karine Megy, Patrick Meidl, B. Overduin, A. Parker, B. Pritchard, Andreas Prlic, S. Rice, D. Rios, M. Schuster, I. Sealy, Guy Slater, Damian Smedley, G. Spudich, S. Trevanion, Albert J. Vilella, J. Vogel, S. White, M. Wood, Ewan Birney, Tony Cox, Val Curwen, Richard Durbin, X. M. Fernandez-Suarez, J. Herrero, Tim J. P. Hubbard, Arek Kasprzyk, Glenn Proctor, James Smith, Abel Ureta-Vidal, Stephen M. J. Searle: Ensembl 2008. Nucleic Acids Research 36(Database-Issue): 707-714 (2008)
24EEL. G. Wilming, J. G. R. Gilbert, K. Howe, S. Trevanion, Tim J. P. Hubbard, J. L. Harrow: The vertebrate genome annotation (Vega) database. Nucleic Acids Research 36(Database-Issue): 753-760 (2008)
2007
23EEAntonina Andreeva, Andreas Prlic, Tim J. P. Hubbard, Alexey G. Murzin: SISYPHUS - structural alignments for proteins with non-trivial relationships. Nucleic Acids Research 35(Database-Issue): 253-259 (2007)
22EETim J. P. Hubbard, B. L. Aken, K. Beal, B. Ballester, Mario Cáccamo, Yuan Chen, Laura Clarke, G. Coates, Fiona Cunningham, Tim Cutts, Thomas Down, S. C. Dyer, S. Fitzgerald, J. Fernandez-Banet, Stefan Gräf, S. Haider, Martin Hammond, J. Herrero, Richard C. G. Holland, Kevin L. Howe, K. Howe, N. Johnson, Andreas Kähäri, Damian Keefe, Felix Kokocinski, Eugene Kulesha, Daniel Lawson, I. Longden, Craig Melsopp, Karine Megy, Patrick Meidl, B. Ouverdin, A. Parker, Andreas Prlic, S. Rice, D. Rios, M. Schuster, I. Sealy, J. Severin, Guy Slater, Damian Smedley, G. Spudich, S. Trevanion, Albert J. Vilella, J. Vogel, S. White, M. Wood, Tony Cox, Val Curwen, Richard Durbin, X. M. Fernandez-Suarez, Paul Flicek, Arek Kasprzyk, Glenn Proctor, Stephen M. J. Searle, James Smith, Abel Ureta-Vidal, Ewan Birney: Ensembl 2007. Nucleic Acids Research 35(Database-Issue): 610-617 (2007)
2006
21EEAndreas Prlic, Ewan Birney, Tony Cox, Thomas A. Down, Robert D. Finn, Stefan Gräf, David K. Jackson, Andreas Kähäri, Eugene Kulesha, Roger Pettett, James Smith, Jim Stalker, Tim J. P. Hubbard: The Distributed Annotation System for Integration of Biological Data. DILS 2006: 195-203
20EEEwan Birney, T. Daniel Andrews, Mario Cáccamo, Yuan Chen, Laura Clarke, G. Coates, Tony Cox, Fiona Cunningham, Val Curwen, Tim Cutts, Thomas Down, Richard Durbin, X. M. Fernandez-Suarez, Paul Flicek, Stefan Gräf, Martin Hammond, J. Herrero, Kevin L. Howe, V. Iyer, K. Jekosch, Andreas Kähäri, Arek Kasprzyk, Damian Keefe, Felix Kokocinski, Eugene Kulesha, D. London, I. Longden, Craig Melsopp, Patrick Meidl, B. Overduin, A. Parker, Glenn Proctor, Andreas Prlic, Mark Rae, D. Rios, Seth Redmond, M. Schuster, I. Sealy, Stephen M. J. Searle, J. Severin, Guy Slater, Damian Smedley, James Smith, Arne Stabenau, Jim Stalker, S. Trevanion, Abel Ureta-Vidal, J. Vogel, S. White, Cara Woodwark, Tim J. P. Hubbard: Ensembl 2006. Nucleic Acids Research 34(Database-Issue): 556-561 (2006)
2005
19EEAndreas Prlic, Thomas A. Down, Tim J. P. Hubbard: Adding Some SPICE to DAS. ECCB/JBI 2005: 41
18EETim J. P. Hubbard, D. Andrews, Mario Cáccamo, Graham Cameron, Yuan Chen, Michele E. Clamp, Laura Clarke, G. Coates, Tony Cox, Fiona Cunningham, Val Curwen, Tim Cutts, Thomas Down, Richard Durbin, X. M. Fernandez-Suarez, James Gilbert, Martin Hammond, J. Herrero, H. Hotz, Kevin L. Howe, V. Iyer, K. Jekosch, Andreas Kähäri, Arek Kasprzyk, Damian Keefe, S. Keenan, Felix Kokocinski, D. London, I. Longden, Graham P. McVicker, Craig Melsopp, Patrick Meidl, Simon C. Potter, Glenn Proctor, Mark Rae, D. Rios, M. Schuster, Stephen M. J. Searle, J. Severin, Guy Slater, Damian Smedley, James Smith, William Spooner, Arne Stabenau, Jim Stalker, R. Storey, S. Trevanion, Abel Ureta-Vidal, J. Vogel, S. White, Cara Woodwark, Ewan Birney: Ensembl 2005. Nucleic Acids Research 33(Database-Issue): 447-453 (2005)
17EEJ. L. Ashurst, C.-K. Chen, J. G. R. Gilbert, K. Jekosch, S. Keenan, Patrick Meidl, Stephen M. J. Searle, Jim Stalker, R. Storey, S. Trevanion, L. G. Wilming, Tim J. P. Hubbard: The Vertebrate Genome Annotation (Vega) database. Nucleic Acids Research 33(Database-Issue): 459-465 (2005)
2004
16EEThomas A. Down, Tim J. P. Hubbard: What can we learn from noncoding regions of similarity between genomes? BMC Bioinformatics 5: 131 (2004)
15 Antonina Andreeva, Dave Howorth, Steven E. Brenner, Tim J. P. Hubbard, Cyrus Chothia, Alexey G. Murzin: SCOP database in 2004: refinements integrate structure and sequence family data. Nucleic Acids Research 32(Database-Issue): 226-229 (2004)
14EEEwan Birney, T. Daniel Andrews, Paul Bevan, Mario Cáccamo, Graham Cameron, Yuan Chen, Laura Clarke, G. Coates, Tony Cox, James A. Cuff, Val Curwen, Tim Cutts, Thomas Down, Richard Durbin, Eduardo Eyras, X. M. Fernandez-Suarez, P. Gane, B. Gibbins, James Gilbert, Martin Hammond, H. Hotz, V. Iyer, Andreas Kähäri, K. Jekosch, Arek Kasprzyk, Damian Keefe, S. Keenan, Heikki Lehväslaiho, Graham P. McVicker, Craig Melsopp, Patrick Meidl, Emmanuel Mongin, Roger Pettett, Simon C. Potter, Glenn Proctor, Mark Rae, Stephen M. J. Searle, Guy Slater, Damian Smedley, James Smith, William Spooner, Arne Stabenau, Jim Stalker, R. Storey, Abel Ureta-Vidal, Cara Woodwark, Michele E. Clamp, Tim J. P. Hubbard: Ensembl 2004. Nucleic Acids Research 32(Database-Issue): 468-470 (2004)
2003
13 Diego di Bernardo, Thomas Down, Tim J. P. Hubbard: ddbRNA: detection of conserved secondary structures in multiple alignments. Bioinformatics 19(13): 1606-1611 (2003)
12 Michele E. Clamp, T. Daniel Andrews, Daniel Barker, Paul Bevan, Graham Cameron, Yuan Chen, Laura Clarke, Tony Cox, James A. Cuff, Val Curwen, Thomas Down, Richard Durbin, Eduardo Eyras, James Gilbert, Martin Hammond, Tim J. P. Hubbard, Arek Kasprzyk, Damian Keefe, Heikki Lehväslaiho, V. Iyer, Craig Melsopp, Emmanuel Mongin, Roger Pettett, Simon C. Potter, Alastair Rust, Esther Schmidt, Stephen M. J. Searle, Guy Slater, James Smith, William Spooner, Arne Stabenau, Jim Stalker, Elia Stupka, Abel Ureta-Vidal, Imre Vastrik, Ewan Birney: Ensembl 2002: accommodating comparative genomics. Nucleic Acids Research 31(1): 38-42 (2003)
2002
11 Tim J. P. Hubbard: Biological information: making it accessible and integrated (and trying to make sense of it). ECCB 2002: 140-140
10 Raphaël Leplae, Tim J. P. Hubbard: MaxBench: evaluation of sequence and structure comparison methods. Bioinformatics 18(3): 494-495 (2002)
9 Loredana Lo Conte, Steven E. Brenner, Tim J. P. Hubbard, Cyrus Chothia, Alexey G. Murzin: SCOP database in 2002: refinements accommodate structural genomics. Nucleic Acids Research 30(1): 264-267 (2002)
8 Tim J. P. Hubbard, Daniel Barker, Ewan Birney, Graham Cameron, Yuan Chen, Laura Clarke, Tony Cox, James A. Cuff, Val Curwen, Thomas Down, Richard Durbin, Eduardo Eyras, James Gilbert, Martin Hammond, Lukasz Huminiecki, Arek Kasprzyk, Heikki Lehväslaiho, Philip Lijnzaad, Craig Melsopp, Emmanuel Mongin, Roger Pettett, Matthew R. Pocock, Simon C. Potter, Alastair Rust, Esther Schmidt, Stephen M. J. Searle, Guy Slater, James Smith, William Spooner, Arne Stabenau, Jim Stalker, Elia Stupka, Abel Ureta-Vidal, Imre Vastrik, Michele E. Clamp: The Ensembl genome database project. Nucleic Acids Research 30(1): 38-41 (2002)
2000
7 Matthew R. Pocock, Tim J. P. Hubbard: A browser for expression data. Bioinformatics 16(4): 402-403 (2000)
6 Loredana Lo Conte, Bart Ailey, Tim J. P. Hubbard, Steven E. Brenner, Alexey G. Murzin, Cyrus Chothia: SCOP: a Structural Classification of Proteins database. Nucleic Acids Research 28(1): 257-259 (2000)
1999
5 Tim J. P. Hubbard, Bart Ailey, Steven E. Brenner, Alexey G. Murzin, Cyrus Chothia: SCOP: a Structural Classification of Proteins database. Nucleic Acids Research 27(1): 254-256 (1999)
1998
4 Matthew R. Pocock, Tim J. P. Hubbard, Ewan Birney: SPEM: a parser for EMBL style flat file database entries. Bioinformatics 14(9): 823-824 (1998)
1997
3 Tim J. P. Hubbard, Alexey G. Murzin, Steven E. Brenner, Cyrus Chothia: SCOP: a structural classification of proteins database. Nucleic Acids Research 25(1): 236-239 (1997)
1995
2 Steven E. Brenner, Tim J. P. Hubbard: A Specification for Defining and Annotating Regions of Macromolecular Structures. ISMB 1995: 66-74
1994
1 Tim J. P. Hubbard: Use of beta-strand Interaction Pseudo-Potentials in Protein Structure Prediction and Modeling. HICSS (5) 1994: 336-344

Coauthor Index

1Bart Ailey [5] [6]
2B. L. Aken [22] [25]
3Ruth Akhtar [26]
4Philippe Aldebert [26]
5Nicola Althorpe [26]
6Antonina Andreeva [15] [23] [27]
7D. Andrews [18]
8T. Daniel Andrews [12] [14] [20]
9Rolf Apweiler [26]
10J. L. Ashurst [17]
11Alastair Baldwin [26]
12B. Ballester [22] [25]
13Daniel Barker [8] [12]
14Kirsty Bates [26]
15K. Beal [22] [25]
16Diego di Bernardo [13]
17Paul Bevan [12] [14]
18Sumit Bhattacharyya [26]
19Ewan Birney [4] [8] [12] [14] [18] [20] [21] [22] [25] [26]
20James K. Bonfield [26]
21Lawrence Bower [26]
22Steven E. Brenner [2] [3] [5] [6] [9] [15] [27]
23Paul Browne [26]
24Mario Cáccamo [14] [18] [20] [22] [25]
25Graham Cameron [8] [12] [14] [18]
26Matias Castro [26]
27John-Marc Chandonia [27]
28C.-K. Chen [17]
29Yuan Chen [8] [12] [14] [18] [20] [22] [25]
30Cyrus Chothia [3] [5] [6] [9] [15] [27]
31Michele E. Clamp [8] [12] [14] [18]
32Laura Clarke [8] [12] [14] [18] [20] [22] [25]
33G. Coates [14] [18] [20] [22] [25]
34Guy Cochrane [26]
35Loredana Lo Conte [6] [9]
36Antony Cox (Tony Cox) [8] [12] [14] [18] [20] [21] [22] [25] [26]
37James A. Cuff [8] [12] [14]
38Fiona Cunningham [18] [20] [22] [25]
39Val Curwen [8] [12] [14] [18] [20] [22] [25]
40Tim Cutts [14] [18] [20] [22] [25]
41Fehmi Demiralp [26]
42Thomas A. Down (Thomas Down) [8] [12] [13] [14] [16] [18] [19] [20] [21] [22] [25]
43Richard Durbin [8] [12] [14] [18] [20] [22] [25]
44S. C. Dyer [22] [25]
45Ruth Eberhardt [26]
46Eduardo Eyras [8] [12] [14]
47T. Eyre [25]
48Nadeem Faruque [26]
49J. Fernandez-Banet [22] [25]
50X. M. Fernandez-Suarez [14] [18] [20] [22] [25]
51Robert D. Finn [21]
52S. Fitzgerald [22] [25]
53Paul Flicek [20] [22] [25]
54P. Gane [14]
55B. Gibbins [14]
56J. G. R. Gilbert [17] [24]
57James Gilbert [8] [12] [14] [18]
58Stefan Gräf [20] [21] [22] [25]
59S. Haider [22] [25]
60Martin Hammond [8] [12] [14] [18] [20] [22] [25]
61J. L. Harrow [24]
62J. Herrero [18] [20] [22] [25]
63Gemma Hoad [26]
64Richard C. G. Holland [22] [25]
65H. Hotz [14] [18]
66K. Howe [22] [24] [25]
67Kevin L. Howe [18] [20] [22] [25]
68Dave Howorth [15] [27]
69Lukasz Huminiecki [8]
70V. Iyer [12] [14] [18] [20]
71David K. Jackson [21]
72Mikyung Jang [26]
73K. Jekosch [14] [17] [18] [20]
74A. Jenkinson [25]
75N. Johnson [22] [25]
76Andreas Kähäri [14] [18] [20] [21] [22] [25]
77Arek Kasprzyk [8] [12] [14] [18] [20] [22] [25]
78Damian Keefe [12] [14] [18] [20] [22] [25]
79S. Keenan [14] [17] [18]
80Felix Kokocinski [18] [20] [22] [25]
81Eugene Kulesha [20] [21] [22] [25]
82Tamara Kulikova [26]
83Alberto Labarga [26]
84Daniel Lawson [22] [25]
85Heikki Lehväslaiho [8] [12] [14]
86Rasko Leinonen [26]
87Steven Leonard [26]
88Raphaël Leplae [10]
89Philip Lijnzaad [8]
90Quan Lin [26]
91D. London [18] [20]
92I. Longden [18] [20] [22] [25]
93Rodrigo Lopez [26]
94Dariusz Lorenc [26]
95Graham P. McVicker [14] [18]
96Hamish McWilliam [26]
97Karine Megy [22] [25]
98Patrick Meidl [14] [17] [18] [20] [22] [25]
99Craig Melsopp [8] [12] [14] [18] [20] [22]
100Emmanuel Mongin [8] [12] [14]
101Gaurab Mukherjee [26]
102Alexey G. Murzin [3] [5] [6] [9] [15] [23] [27]
103Francesco Nardone [26]
104B. Ouverdin [22]
105B. Overduin [20] [25]
106A. Parker [20] [22] [25]
107Roger Pettett [8] [12] [14] [21]
108Sheila Plaister [26]
109Matthew R. Pocock [4] [7] [8]
110Simon C. Potter [8] [12] [14] [18]
111B. Pritchard [25]
112Andreas Prlic [19] [20] [21] [22] [23] [25]
113Glenn Proctor [14] [18] [20] [22] [25]
114Mark Rae [14] [18] [20]
115Seth Redmond [20]
116S. Rice [22] [25]
117D. Rios [18] [20] [22] [25]
118Stephen Robinson [26]
119Alastair Rust [8] [12]
120Esther Schmidt [8] [12]
121M. Schuster [18] [20] [22] [25]
122I. Sealy [20] [22] [25]
123Stephen M. J. Searle [8] [12] [14] [17] [18] [20] [22] [25]
124J. Severin [18] [20] [22]
125Guy Slater [8] [12] [14] [18] [20] [22] [25]
126Damian Smedley [14] [18] [20] [22] [25]
127James Smith [8] [12] [14] [18] [20] [21] [22] [25]
128Siamak Sobhany [26]
129William Spooner [8] [12] [14] [18]
130G. Spudich [22] [25]
131Arne Stabenau [8] [12] [14] [18] [20]
132Jim Stalker [8] [12] [14] [17] [18] [20] [21]
133R. Storey [14] [17] [18]
134Elia Stupka [8] [12]
135S. Trevanion [17] [18] [20] [22] [24] [25]
136Abel Ureta-Vidal [8] [12] [14] [18] [20] [22] [25]
137Imre Vastrik [8] [12]
138Robert Vaughan [26]
139Albert J. Vilella [22] [25]
140J. Vogel [18] [20] [22] [25]
141S. White [18] [20] [22] [25]
142L. G. Wilming [17] [24]
143M. Wood [22] [25]
144Cara Woodwark [14] [18] [20]
145Dan Wu [26]
146Weimin Zhu [26]

Colors in the list of coauthors

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