Use of beta-strand Interaction Pseudo-Potentials in Protein Structure Prediction and Modeling. - Tim J. P. Hubbard (HICSS (5), 1994)

A Specification for Defining and Annotating Regions of Macromolecular Structures. - Steven E. Brenner; Tim J. P. Hubbard (ISMB, 1995)

SCOP: a structural classification of proteins database. - Tim J. P. Hubbard; Alexey G. Murzin; Steven E. Brenner; Cyrus Chothia (Nucleic Acids Res., 1997)

SPEM: a parser for EMBL style flat file database entries. - Matthew R. Pocock; Tim J. P. Hubbard; Ewan Birney (Bioinform., 1998)

SCOP: a Structural Classification of Proteins database. - Tim J. P. Hubbard; Bart Ailey; Steven E. Brenner; Alexey G. Murzin; Cyrus Chothia (Nucleic Acids Res., 1999)

A browser for expression data. - Matthew R. Pocock; Tim J. P. Hubbard (Bioinform., 2000)

SCOP: a Structural Classification of Proteins database. - Loredana Lo Conte; Bart Ailey; Tim J. P. Hubbard; Steven E. Brenner; Alexey G. Murzin; Cyrus Chothia (Nucleic Acids Res., 2000)

Biological information: making it accessible and integrated (and trying to make sense of it). - Tim J. P. Hubbard (ECCB, 2002)

MaxBench: evaluation of sequence and structure comparison methods. - Raphaël Leplae; Tim J. P. Hubbard (Bioinform., 2002)

SCOP database in 2002: refinements accommodate structural genomics. - Loredana Lo Conte; Steven E. Brenner; Tim J. P. Hubbard; Cyrus Chothia; Alexey G. Murzin (Nucleic Acids Res., 2002)

The Ensembl genome database project. - Tim J. P. Hubbard; Daniel Barker; Ewan Birney; Graham Cameron; Yuan Chen 007; Laura Clarke; Tony Cox 001; James A. Cuff; Val Curwen; Thomas A. Down; Richard Durbin; Eduardo Eyras; et al. (Nucleic Acids Res., 2002)

ddbRNA: detection of conserved secondary structures in multiple alignments. - Diego di Bernardo; Thomas A. Down; Tim J. P. Hubbard (Bioinform., 2003)

Ensembl 2002: accommodating comparative genomics. - Michele E. Clamp; T. Daniel Andrews; Daniel Barker; Paul Bevan 001; Graham Cameron; Yuan Chen 007; Laura Clarke; Tony Cox 001; James A. Cuff; Val Curwen; Thomas A. Down; Richard Durbin; et al. (Nucleic Acids Res., 2003)

What can we learn from noncoding regions of similarity between genomes? - Thomas A. Down; Tim J. P. Hubbard (BMC Bioinform., 2004)

SCOP database in 2004: refinements integrate structure and sequence family data. - Antonina Andreeva; Dave Howorth; Steven E. Brenner; Tim J. P. Hubbard; Cyrus Chothia; Alexey G. Murzin (Nucleic Acids Res., 2004)

Ensembl 2004. - Ewan Birney; T. Daniel Andrews; Paul Bevan 001; Mario Cáccamo; Graham Cameron; Yuan Chen 007; Laura Clarke; Guy Coates; Tony Cox 001; James A. Cuff; Val Curwen; Tim Cutts; et al. (Nucleic Acids Res., 2004)

Adding Some SPICE to DAS. - Andreas Prlic; Thomas A. Down; Tim J. P. Hubbard (ECCB/JBI, 2005)

The Vertebrate Genome Annotation (Vega) database. - J. L. Ashurst; C.-K. Chen; James G. R. Gilbert; Kerstin Jekosch; Stephen Keenan; Patrick Meidl; Stephen M. J. Searle; Jim Stalker; Roy Storey; Stephen J. Trevanion; Laurens G. Wilming; Tim J. P. Hubbard (Nucleic Acids Res., 2005)

Ensembl 2005. - Tim J. P. Hubbard; D. Andrews; Mario Cáccamo; Graham Cameron; Yuan Chen 007; Michele E. Clamp; Laura Clarke; Guy Coates; Tony Cox 001; Fiona Cunningham; Val Curwen; Tim Cutts; et al. (Nucleic Acids Res., 2005)

The Distributed Annotation System for Integration of Biological Data. - Andreas Prlic; Ewan Birney; Tony Cox 001; Thomas A. Down; Robert D. Finn; Stefan Gräf; David K. Jackson; Andreas Kähäri; Eugene Kulesha; Roger Pettett; James A. Smith; Jim Stalker; et al. (DILS, 2006)

A machine learning strategy to identify candidate binding sites in human protein-coding sequence. - Thomas A. Down; Bernard Leong; Tim J. P. Hubbard (BMC Bioinform., 2006)

Ensembl 2006. - Ewan Birney; T. Daniel Andrews; Mario Cáccamo; Yuan Chen 007; Laura Clarke; Guy Coates; Tony Cox 001; Fiona Cunningham; Val Curwen; Tim Cutts; Thomas A. Down; Richard Durbin; et al. (Nucleic Acids Res., 2006)

Integrating sequence and structural biology with DAS. - Andreas Prlic; Thomas A. Down; Eugene Kulesha; Robert D. Finn; Andreas Kähäri; Tim J. P. Hubbard (BMC Bioinform., 2007)

SISYPHUS - structural alignments for proteins with non-trivial relationships. - Antonina Andreeva; Andreas Prlic; Tim J. P. Hubbard; Alexey G. Murzin (Nucleic Acids Res., 2007)

Ensembl 2007. - Tim J. P. Hubbard; Bronwen L. Aken; Kathryn Beal; Benoît Ballester; Mario Cáccamo; Yuan Chen 007; Laura Clarke; Guy Coates; Fiona Cunningham; Tim Cutts; Thomas A. Down; S. C. Dyer; et al. (Nucleic Acids Res., 2007)

Large-Scale Discovery of Promoter Motifs in Drosophila melanogaster. - Thomas A. Down; Casey M. Bergman; Jing Su; Tim J. P. Hubbard (PLoS Comput. Biol., 2007)

The Protein Feature Ontology: a tool for the unification of protein feature annotations. - Gabrielle A. Reeves; Karen Eilbeck; Michele Magrane; Claire O'Donovan; Luisa Montecchi-Palazzi; Midori A. Harris; Sandra E. Orchard; Rafael C. Jiménez; Andreas Prlic; Tim J. P. Hubbard; Henning Hermjakob; Janet M. Thornton (Bioinform., 2008)

NestedMICA as an ab initio protein motif discovery tool. - Mutlu Dogruel; Thomas A. Down; Tim J. P. Hubbard (BMC Bioinform., 2008)

Integrating biological data - the Distributed Annotation System. - Andrew M. Jenkinson; Mario Albrecht; Ewan Birney; Hagen Blankenburg; Thomas A. Down; Robert D. Finn; Henning Hermjakob; Tim J. P. Hubbard; Rafael C. Jiménez; Philip Jones; Andreas Kähäri; Eugene Kulesha; et al. (BMC Bioinform., 2008)

Data growth and its impact on the SCOP database: new developments. - Antonina Andreeva; Dave Howorth; John-Marc Chandonia; Steven E. Brenner; Tim J. P. Hubbard; Cyrus Chothia; Alexey G. Murzin (Nucleic Acids Res., 2008)

Priorities for nucleotide trace, sequence and annotation data capture at the Ensembl Trace Archive and the EMBL Nucleotide Sequence Database. - Guy Cochrane; Ruth Akhtar; Philippe Aldebert; Nicola Althorpe; Alastair Baldwin; Kirsty Bates; Sumit Bhattacharyya; James K. Bonfield; Lawrence Bower; Paul Browne; Matias Castro; Tony Cox 001; et al. (Nucleic Acids Res., 2008)

Ensembl 2008. - Paul Flicek; Bronwen L. Aken; Kathryn Beal; Benoît Ballester; Mario Cáccamo; Yuan Chen 007; Laura Clarke; Guy Coates; Fiona Cunningham; Tim Cutts; Thomas A. Down; S. C. Dyer; et al. (Nucleic Acids Res., 2008)

The vertebrate genome annotation (Vega) database. - Laurens G. Wilming; James G. R. Gilbert; Kerstin Howe; Stephen J. Trevanion; Tim J. P. Hubbard; Jennifer L. Harrow (Nucleic Acids Res., 2008)

Petabyte-scale innovations at the European Nucleotide Archive. - Guy Cochrane; Ruth Akhtar; James K. Bonfield; Lawrence Bower; Fehmi Demiralp; Nadeem Faruque; Richard Gibson; Gemma Hoad; Tim J. P. Hubbard; Christopher I. Hunter; Mikyung Jang; Szilveszter Juhos; et al. (Nucleic Acids Res., 2009)

Ensembl 2009. - Tim J. P. Hubbard; Bronwen L. Aken; Sarah C. Ayling; Benoît Ballester; Kathryn Beal; Eugene Bragin; Simon Brent; Yuan Chen 007; Peter Clapham; Laura Clarke; Guy Coates; Susan Fairley; et al. (Nucleic Acids Res., 2009)

iMotifs: an integrated sequence motif visualization and analysis environment. - Matias Piipari; Thomas A. Down; Harpreet Kaur Saini; Anton J. Enright; Tim J. P. Hubbard (Bioinform., 2010)

Metamotifs - a generative model for building families of nucleotide position weight matrices. - Matias Piipari; Thomas A. Down; Tim J. P. Hubbard (BMC Bioinform., 2010)

Ensembl's 10th year. - Paul Flicek; Bronwen L. Aken; Benoît Ballester; Kathryn Beal; Eugene Bragin; Simon Brent; Yuan Chen 007; Peter Clapham; Guy Coates; Susan Fairley; Stephen Fitzgerald; Julio Fernandez-Banet; et al. (Nucleic Acids Res., 2010)

Dalliance: interactive genome viewing on the web. - Thomas A. Down; Matias Piipari; Tim J. P. Hubbard (Bioinform., 2011)

Ensembl 2011. - Paul Flicek; M. Ridwan Amode; Daniel Barrell; Kathryn Beal; Simon Brent; Yuan Chen 007; Peter Clapham; Guy Coates; Susan Fairley; Stephen Fitzgerald; Leo Gordon; Maurice Hendrix; et al. (Nucleic Acids Res., 2011)

Ensembl 2012. - Paul Flicek; M. Ridwan Amode; Daniel Barrell; Kathryn Beal; Simon Brent; Denise Carvalho-Silva; Peter Clapham; Guy Coates; Susan Fairley; Stephen Fitzgerald; Laurent Gil; Leo Gordon; et al. (Nucleic Acids Res., 2012)

Ensembl 2013. - Paul Flicek; Ikhlak Ahmed; M. Ridwan Amode; Daniel Barrell; Kathryn Beal; Simon Brent; Denise Carvalho-Silva; Peter Clapham; Guy Coates; Susan Fairley; Stephen Fitzgerald; Laurent Gil; et al. (Nucleic Acids Res., 2013)

Current status and new features of the Consensus Coding Sequence database. - Catherine M. Farrell; Nuala A. O'Leary; Rachel A. Harte; Jane E. Loveland; Laurens G. Wilming; Craig Wallin; Mark Diekhans; Daniel Barrell; Stephen M. J. Searle; Bronwen L. Aken; Susan M. Hiatt; Adam Frankish; et al. (Nucleic Acids Res., 2014)

Ensembl 2014. - Paul Flicek; M. Ridwan Amode; Daniel Barrell; Kathryn Beal; Konstantinos Billis; Simon Brent; Denise Carvalho-Silva; Peter Clapham; Guy Coates; Stephen Fitzgerald; Laurent Gil; Carlos García-Girón; et al. (Nucleic Acids Res., 2014)

An interactive genome browser of association results from the UK10K cohorts project. - Matthias Geihs; Ying Yan; Klaudia Walter; Jie Huang; Yasin Memari; Josine L. Min; Daniel Mead; Tim J. P. Hubbard; Nicholas J. Timpson; Thomas A. Down; Nicole Soranzo (Bioinform., 2015)

The language of mental health problems in social media. - George Gkotsis; Anika Oellrich; Tim J. P. Hubbard; Richard J. B. Dobson; Maria Liakata; Sumithra Velupillai; Rina Dutta (CLPsych@HLT-NAACL, 2016)

Challenges and opportunities for system biology standards and tools in medical research. - Matthias König 003; Anika Oellrich; Dagmar Waltemath; Richard J. B. Dobson; Tim J. P. Hubbard; Olaf Wolkenhauer (ODLS, 2016)

Automated PDF highlighting to support faster curation of literature for Parkinson's and Alzheimer's disease. - Honghan Wu; Anika Oellrich; Christine Girges; Bernard de Bono; Tim J. P. Hubbard; Richard J. B. Dobson (Database J. Biol. Databases Curation, 2017)

GENCODE reference annotation for the human and mouse genomes. - Adam Frankish; Mark Diekhans; Anne-Maud Ferreira; Rory Johnson; Irwin Jungreis; Jane E. Loveland; Jonathan M. Mudge; Cristina Sisu; James C. Wright; Joel Armstrong; If Barnes; Andrew E. Berry; et al. (Nucleic Acids Res., 2019)

GENCODE 2021. - Adam Frankish; Mark Diekhans; Irwin Jungreis; Julien Lagarde; Jane E. Loveland; Jonathan M. Mudge; Cristina Sisu; James C. Wright; Joel Armstrong; If Barnes; Andrew E. Berry; Alexandra Bignell; et al. (Nucleic Acids Res., 2021)

GENCODE: reference annotation for the human and mouse genomes in 2023. - Adam Frankish; Silvia Carbonell Sala; Mark Diekhans; Irwin Jungreis; Jane E. Loveland; Jonathan M. Mudge; Cristina Sisu; James C. Wright; Carme Arnan; If Barnes; Abhimanyu Banerjee; Ruth Bennett; et al. (Nucleic Acids Res., 2023)