SEQANALREF: a sequence analysis bibliographic reference databank. - Amos Bairoch (Comput. Appl. Biosci., 1991)

The PROSITE dictionary of sites and patterns in proteins, its current status. - Amos Bairoch (Nucleic Acids Res., 1993)

The ENZYME data bank. - Amos Bairoch (Nucleic Acids Res., 1993)

The SWISS-PROT protein sequence data bank, recent developments. - Amos Bairoch; Brigitte Boeckmann (Nucleic Acids Res., 1993)

A Generalized Profile Syntax for Biomolecular Sequence Motifs and its Function in Automatic Sequence Interpretation. - Philipp Bucher; Amos Bairoch (ISMB, 1994)

New Developments in Linking of Biological Databases and Computer-Generation of Annotations: SWISS-PROT and Its Computer-Annotated Supplement TREMBL. - Rolf Apweiler; Vivien Junker; Alain Gateau; Claire O'Donovan; Fiona Lang; Amos Bairoch (German Conference on Bioinformatics - Selected Papers, 1996)

New Developments in the Linking of Biological Databases and Computer-Generation of Annotation. - Rolf Apweiler; Vivien Junker; Alain Gateau; Claire O'Donovan; Fiona Lang; Amos Bairoch (German Conference on Bioinformatics, 1996)

The SWISS-2DPAGE database of two-dimensional polyacrylamide gel electrophoresis, its status in 1995. - Ron D. Appel; Jean-Charles Sanchez; Amos Bairoch; Olivier Golaz; Florence Ravier; Christian Pasquali; Graham J. Hughes; Denis F. Hochstrasser (Nucleic Acids Res., 1996)

The ENZYME data bank in 1995. - Amos Bairoch (Nucleic Acids Res., 1996)

The SWISS-PROT protein sequence data bank and its new supplement TREMBL. - Amos Bairoch; Rolf Apweiler (Nucleic Acids Res., 1996)

The PROSITE database, its status in 1995. - Amos Bairoch; Philipp Bucher; Kay Hofmann (Nucleic Acids Res., 1996)

LISTA, LISTA-HOP and LISTA-HON: a comprehensive compilation of protein encoding sequences and its associated homology databases from the yeast Saccharomyces. - Reinhard Dölz; Marie-Odile Mossé; Piotr P. Slonimski; Amos Bairoch; Patrick Linder (Nucleic Acids Res., 1996)

Protein Sequence Annotation in the Genome Era: The Annotation Concept of SWISS-PROT + TREMBL. - Rolf Apweiler; Alain Gateau; Sergio Contrino; Maria Jesus Martin; Vivien Junker; Claire O'Donovan; Fiona Lang; Nicoletta Mitaritonna; Stephanie Kappus; Amos Bairoch (ISMB, 1997)

The SWISS-PROT protein sequence data bank and its supplement TrEMBL. - Amos Bairoch; Rolf Apweiler (Nucleic Acids Res., 1997)

The PROSITE database, its status in 1997. - Amos Bairoch; Philipp Bucher; Kay Hofmann (Nucleic Acids Res., 1997)

The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1998. - Amos Bairoch; Rolf Apweiler (Nucleic Acids Res., 1998)

Current status of the SWISS-2DPAGE database. - Christine Hoogland; Jean-Charles Sanchez; Luisa Tonella; Amos Bairoch; Denis F. Hochstrasser; Ron D. Appel (Nucleic Acids Res., 1998)

GPCRDB: an information system for G protein-coupled receptors. - Florence Horn; Jonathan Weare; Margot W. Beukers; S. Hörsch; Amos Bairoch; W. Chen; Øyvind Edvardsen; Fabien Campagne; Gert Vriend (Nucleic Acids Res., 1998)

Representation of functional information in the SWISS-PROT Data Bank. - Vivien L. Junker; Rolf Apweiler; Amos Bairoch (Bioinform., 1999)

The ENZYME data bank in 1999. - Amos Bairoch (Nucleic Acids Res., 1999)

The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1999. - Amos Bairoch; Rolf Apweiler (Nucleic Acids Res., 1999)

The PROSITE database, its status in 1999. - Kay Hofmann; Philipp Bucher; Laurent Falquet; Amos Bairoch (Nucleic Acids Res., 1999)

The SWISS-2DPAGE database: what has changed during the last year. - Christine Hoogland; Jean-Charles Sanchez; Luisa Tonella; Amos Bairoch; Denis F. Hochstrasser; Ron D. Appel (Nucleic Acids Res., 1999)

InterPro-an integrated documentation resource for protein families, domains and functional sites. - Rolf Apweiler; Terri K. Attwood; Amos Bairoch; Alex Bateman; Ewan Birney; Margaret Biswas; Philipp Bucher; Lorenzo Cerutti; Florence Corpet; Michael D. R. Croning; Richard Durbin; Laurent Falquet; et al. (Bioinform., 2000)

Serendipity in bioinformatics, the tribulations of a Swiss bioinformatician through exciting times!. - Amos Bairoch (Bioinform., 2000)

The ENZYME database in 2000. - Amos Bairoch (Nucleic Acids Res., 2000)

The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000. - Amos Bairoch; Rolf Apweiler (Nucleic Acids Res., 2000)

The 1999 SWISS-2DPAGE database update. - Christine Hoogland; Jean-Charles Sanchez; Luisa Tonella; Pierre-Alain Binz; Amos Bairoch; Denis F. Hochstrasser; Ron D. Appel (Nucleic Acids Res., 2000)

Technical comment to "Database verification studies of SWISS-PROT and GenBank" by Karp et al. - Rolf Apweiler; Paul J. Kersey; Vivien Junker; Amos Bairoch (Bioinform., 2001)

The InterPro database, an integrated documentation resource for protein families, domains and functional sites. - Rolf Apweiler; Terri K. Attwood; Amos Bairoch; Alex Bateman; Ewan Birney; Margaret Biswas; Philipp Bucher; Lorenzo Cerutti; Florence Corpet; Michael D. R. Croning; Richard Durbin; Laurent Falquet; et al. (Nucleic Acids Res., 2001)

InterPro: An Integrated Documentation Resource for Protein Families, Domains and Functional Sites - Nicola J. Mulder; Rolf Apweiler; Terri K. Attwood; Amos Bairoch; Alex Bateman; David Binns; Margaret Biswas; Paul Bradley; Peer Bork; Philipp Bucher; Richard R. Copley; Emmanuel Courcelle; et al. (Briefings Bioinform., 2002)

High-quality Protein Knowledge Resource: SWISS-PROT and TrEMBL. - Claire O'Donovan; Maria Jesus Martin; Alexandre Gattiker; Elisabeth Gasteiger; Amos Bairoch; Rolf Apweiler (Briefings Bioinform., 2002)

PROSITE: A Documented Database Using Patterns and Profiles as Motif Descriptors. - Christian J. A. Sigrist; Lorenzo Cerutti; Nicolas Hulo; Alexandre Gattiker; Laurent Falquet; Marco Pagni; Amos Bairoch; Philipp Bucher (Briefings Bioinform., 2002)

The Sulfinator: predicting tyrosine sulfation sites in protein sequences. - Flavio Monigatti; Elisabeth Gasteiger; Amos Bairoch; Eva Jung (Bioinform., 2002)

The PROSITE database, its status in 2002. - Laurent Falquet; Marco Pagni; Philipp Bucher; Nicolas Hulo; Christian J. A. Sigrist; Kay Hofmann; Amos Bairoch (Nucleic Acids Res., 2002)

Automated annotation of microbial proteomes in SWISS-PROT. - Alexandre Gattiker; Karine Michoud; Catherine Rivoire; Andrea H. Auchincloss; Elisabeth Coudert; Tania Lima; Paul J. Kersey; Marco Pagni; Christian J. A. Sigrist; Corinne Lachaize; Anne-Lise Veuthey; Elisabeth Gasteiger; et al. (Comput. Biol. Chem., 2003)

The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. - Brigitte Boeckmann; Amos Bairoch; Rolf Apweiler; Marie-Claude Blatter; Anne Estreicher; Elisabeth Gasteiger; Maria Jesus Martin; Karine Michoud; Claire O'Donovan; Isabelle Phan; Sandrine Pilbout; Michel Schneider (Nucleic Acids Res., 2003)

ExPASy: the proteomics server for in-depth protein knowledge and analysis. - Elisabeth Gasteiger; Alexandre Gattiker; Christine Hoogland; Ivan Ivanyi; Ron D. Appel; Amos Bairoch (Nucleic Acids Res., 2003)

The InterPro Database, 2003 brings increased coverage and new features. - Nicola J. Mulder; Rolf Apweiler; Terri K. Attwood; Amos Bairoch; Daniel Barrell; Alex Bateman; David Binns; Margaret Biswas; Paul Bradley; Peer Bork; Philipp Bucher; Richard R. Copley; et al. (Nucleic Acids Res., 2003)

NEWT, a new taxonomy portal. - I. Q. H. Phan; Sandrine Pilbout; Wolfgang Fleischmann; Amos Bairoch (Nucleic Acids Res., 2003)

Swiss-Prot: Juggling between evolution and stability. - Amos Bairoch; Brigitte Boeckmann; Serenella Ferro; Elisabeth Gasteiger (Briefings Bioinform., 2004)

UniProt: the Universal Protein knowledgebase. - Rolf Apweiler; Amos Bairoch; Cathy H. Wu; Winona C. Barker; Brigitte Boeckmann; Serenella Ferro; Elisabeth Gasteiger; Hongzhan Huang; Rodrigo Lopez; Michele Magrane; Maria Jesus Martin; Darren A. Natale; et al. (Nucleic Acids Res., 2004)

IntEnz, the integrated relational enzyme database. - Astrid Fleischmann; Michael Darsow; Kirill Degtyarenko; Wolfgang Fleischmann; Sinéad Boyce; Kristian B. Axelsen; Amos Bairoch; Dietmar Schomburg; Keith F. Tipton; Rolf Apweiler (Nucleic Acids Res., 2004)

IntAct: an open source molecular interaction database. - Henning Hermjakob; Luisa Montecchi-Palazzi; Chris Lewington; Sugath Mudali; Samuel Kerrien; Sandra E. Orchard; Martin Vingron; Bernd Roechert; Peter Roepstorff; Alfonso Valencia; Hanah Margalit; John Armstrong; et al. (Nucleic Acids Res., 2004)

Recent improvements to the PROSITE database. - Nicolas Hulo; Christian J. A. Sigrist; Virginie Le Saux; Petra S. Langendijk-Genevaux; Lorenza Bordoli; Alexandre Gattiker; Edouard De Castro; Philipp Bucher; Amos Bairoch (Nucleic Acids Res., 2004)

ProRule: a new database containing functional and structural information on PROSITE profiles. - Christian J. A. Sigrist; Edouard De Castro; Petra S. Langendijk-Genevaux; Virginie Le Saux; Amos Bairoch; Nicolas Hulo (Bioinform., 2005)

The Universal Protein Resource (UniProt). - Amos Bairoch; Rolf Apweiler; Cathy H. Wu; Winona C. Barker; Brigitte Boeckmann; Serenella Ferro; Elisabeth Gasteiger; Hongzhan Huang; Rodrigo Lopez; Michele Magrane; Maria Jesus Martin; Darren A. Natale; et al. (Nucleic Acids Res., 2005)

InterPro, progress and status in 2005. - Nicola J. Mulder; Rolf Apweiler; Teresa K. Attwood; Amos Bairoch; Alex Bateman; David Binns; Paul Bradley; Peer Bork; Phillip Bucher; Lorenzo Cerutti; Richard R. Copley; Emmanuel Courcelle; et al. (Nucleic Acids Res., 2005)

ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins. - Edouard De Castro; Christian J. A. Sigrist; Alexandre Gattiker; Virginie Bulliard; Petra S. Langendijk-Genevaux; Elisabeth Gasteiger; Amos Bairoch; Nicolas Hulo (Nucleic Acids Res., 2006)

The PROSITE database. - Nicolas Hulo; Amos Bairoch; Virginie Bulliard; Lorenzo Cerutti; Edouard De Castro; Petra S. Langendijk-Genevaux; Marco Pagni; Christian J. A. Sigrist (Nucleic Acids Res., 2006)

The Universal Protein Resource (UniProt): an expanding universe of protein information. - Cathy H. Wu; Rolf Apweiler; Amos Bairoch; Darren A. Natale; Winona C. Barker; Brigitte Boeckmann; Serenella Ferro; Elisabeth Gasteiger; Hongzhan Huang; Rodrigo Lopez; Michele Magrane; Maria Jesus Martin; et al. (Nucleic Acids Res., 2006)

New developments in the InterPro database. - Nicola J. Mulder; Rolf Apweiler; Teresa K. Attwood; Amos Bairoch; Alex Bateman; David Binns; Peer Bork; Virginie Buillard; Lorenzo Cerutti; Richard R. Copley; Emmanuel Courcelle; Ujjwal Das; et al. (Nucleic Acids Res., 2007)

UniProtKB/Swiss-Prot: New and Future Developments. - Amos Bairoch (DILS, 2008)

Review of the selected proceedings of the Fifth International Workshop on Data Integration in the Life Sciences 2008. - Amos Bairoch; Sarah Cohen Boulakia; Christine Froidevaux (BMC Bioinform., 2008)

The 20 years of PROSITE. - Nicolas Hulo; Amos Bairoch; Virginie Bulliard; Lorenzo Cerutti; Béatrice A. Cuche; Edouard De Castro; Corinne Lachaize; Petra S. Langendijk-Genevaux; Christian J. A. Sigrist (Nucleic Acids Res., 2008)

Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase. - Pascale Gaudet; Lydie Lane; Petra Fey; Alan J. Bridge; Sylvain Poux; Andrea H. Auchincloss; Kristian B. Axelsen; Silvia Braconi-Quintaje; Emmanuel Boutet; P. Brown; Elisabeth Coudert; Ruchira S. Datta; et al. (Database J. Biol. Databases Curation, 2009)

Infrastructure for the life sciences: design and implementation of the UniProt website. - Eric Jain; Amos Bairoch; Severine Duvaud; Isabelle Phan; Nicole Redaschi; Baris E. Suzek; Maria Jesus Martin; Peter B. McGarvey; Elisabeth Gasteiger (BMC Bioinform., 2009)

CTdatabase: a knowledge-base of high-throughput and curated data on cancer-testis antigens. - Luiz Gonzaga Almeida; Noboru J. Sakabe; Alice R. de Oliveira; Maria Cristina C. Silva; Alex S. Mundstein; Tzeela Cohen; Yao-Tseng Chen; Ramon Chua; Sita Gurung; Sacha Gnjatic; Achim A. Jungbluth; Otavia L. Caballero; et al. (Nucleic Acids Res., 2009)

InterPro: the integrative protein signature database. - Sarah Hunter; Rolf Apweiler; Teresa K. Attwood; Amos Bairoch; Alex Bateman; David Binns; Peer Bork; Ujjwal Das; Louise C. Daugherty; Lauranne Duquenne; Robert D. Finn; Julian Gough; et al. (Nucleic Acids Res., 2009)

HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot. - Tania Lima; Andrea H. Auchincloss; Elisabeth Coudert; Guillaume Keller; Karine Michoud; Catherine Rivoire; Virginie Bulliard; Edouard De Castro; Corinne Lachaize; Delphine Baratin; Isabelle Phan; Lydie Bougueleret; et al. (Nucleic Acids Res., 2009)

OpenFluDB, a database for human and animal influenza virus. - Robin Liechti; Anne Gleizes; Dmitry Kuznetsov; Lydie Bougueleret; Philippe Le Mercier; Amos Bairoch; Ioannis Xenarios (Database J. Biol. Databases Curation, 2010)

PROSITE, a protein domain database for functional characterization and annotation. - Christian J. A. Sigrist; Lorenzo Cerutti; Edouard De Castro; Petra S. Langendijk-Genevaux; Virginie Bulliard; Amos Bairoch; Nicolas Hulo (Nucleic Acids Res., 2010)

A Preliminary Study on the Prediction of Human Protein Functions. - Guido Bologna; Anne-Lise Veuthey; Marco Pagni; Lydie Lane; Amos Bairoch (IWINAC (1), 2011)

Towards BioDBcore: a community-defined information specification for biological databases. - Pascale Gaudet; Amos Bairoch; Dawn Field; Susanna-Assunta Sansone; Chris F. Taylor; Teresa K. Attwood; Alex Bateman; Judith A. Blake; Carol J. Bult; J. Michael Cherry; Rex L. Chisholm; Guy Cochrane; et al. (Database J. Biol. Databases Curation, 2011)

ViralZone: a knowledge resource to understand virus diversity. - Chantal Hulo; Edouard De Castro; Patrick Masson; Lydie Bougueleret; Amos Bairoch; Ioannis Xenarios; Philippe Le Mercier (Nucleic Acids Res., 2011)

neXtProt: a knowledge platform for human proteins. - Lydie Lane; Ghislaine Argoud-Puy; Aurore Britan; Isabelle Cusin; Paula Duek Roggli; Olivier Evalet; Alain Gateau; Pascale Gaudet; Anne Gleizes; Alexandre Masselot; Catherine Zwahlen; Amos Bairoch (Nucleic Acids Res., 2012)

UniPathway: a resource for the exploration and annotation of metabolic pathways. - Anne Morgat; Eric Coissac; Elisabeth Coudert; Kristian B. Axelsen; Guillaume Keller; Amos Bairoch; Alan J. Bridge; Lydie Bougueleret; Ioannis Xenarios; Alain Viari (Nucleic Acids Res., 2012)

Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support. - Heinz Stockinger; Adrian M. Altenhoff; Konstantin Arnold; Amos Bairoch; Frederic B. Bastian; Sven Bergmann; Lydie Bougueleret; Philipp Bucher; Mauro Delorenzi; Lydie Lane; Philippe Le Mercier; Frédérique Lisacek; et al. (Nucleic Acids Res., 2014)

Querying neXtProt nanopublications and their value for insights on sequence variants and tissue expression. - Christine Chichester; Pascale Gaudet; Oliver Karch; Paul Groth; Lydie Lane; Amos Bairoch; Barend Mons; Antonis Loizou (J. Web Semant., 2014)

Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat. - Patricia C. Babbitt; Pantelis G. Bagos; Amos Bairoch; Alex Bateman; Arnaud Chatonnet; Mark Jinan Chen; David J. Craik; Robert D. Finn; David E. Gloriam; Daniel H. Haft; Bernard Henrissat; Gemma L. Holliday; et al. (Database J. Biol. Databases Curation, 2015)

Deep Question Answering for protein annotation. - Julien Gobeill; Arnaud Gaudinat; Emilie Pasche; Dina Vishnyakova; Pascale Gaudet; Amos Bairoch; Patrick Ruch (Database J. Biol. Databases Curation, 2015)

The neXtProt knowledgebase on human proteins: current status. - Pascale Gaudet; Pierre-André Michel; Monique Zahn-Zabal; Isabelle Cusin; Paula Duek Roggli; Olivier Evalet; Alain Gateau; Anne Gleizes; Mario Pereira; Daniel Dinis Teixeira; Ying Zhang; Lydie Lane; et al. (Nucleic Acids Res., 2015)

Converting neXtProt into Linked Data and nanopublications. - Christine Chichester; Oliver Karch; Pascale Gaudet; Lydie Lane; Barend Mons; Amos Bairoch (Semantic Web, 2015)

ICEPO: the ion channel electrophysiology ontology. - Valérie Hinard; Aurore Britan; J. S. Rougier; Amos Bairoch; Hugues Abriel; Pascale Gaudet (Database J. Biol. Databases Curation, 2016)

Triage by ranking to support the curation of protein interactions. - Luc Mottin; Emilie Pasche; Julien Gobeill; Valentine Rech de Laval; Anne Gleizes; Pierre-André Michel; Amos Bairoch; Pascale Gaudet; Patrick Ruch (Database J. Biol. Databases Curation, 2017)

The neXtProt knowledgebase on human proteins: 2017 update. - Pascale Gaudet; Pierre-André Michel; Monique Zahn-Zabal; Aurore Britan; Isabelle Cusin; Marcin Domagalski; Paula Duek Roggli; Alain Gateau; Anne Gleizes; Valérie Hinard; Valentine Rech de Laval; JinJin Lin; et al. (Nucleic Acids Res., 2017)

The Feature-Viewer: a visualization tool for positional annotations on a sequence. - Lisanna Paladin; Mathieu Schaeffer; Pascale Gaudet; Monique Zahn-Zabal; Pierre-André Michel; Damiano Piovesan; Silvio C. E. Tosatto; Amos Bairoch (Bioinform., 2020)

The ABCD database: a repository for chemically defined antibodies. - Wanessa C. Lima; Elisabeth Gasteiger; Paolo Marcatili; Paula Duek Roggli; Amos Bairoch; Pierre Cosson (Nucleic Acids Res., 2020)

The neXtProt knowledgebase in 2020: data, tools and usability improvements. - Monique Zahn-Zabal; Pierre-André Michel; Alain Gateau; Frédéric Nikitin; Mathieu Schaeffer; Estelle Audot; Pascale Gaudet; Paula Duek Roggli; Daniel Dinis Teixeira; Valentine Rech de Laval; Kasun Samarasinghe; Amos Bairoch; et al. (Nucleic Acids Res., 2020)

Functionathon: a manual data mining workflow to generate functional hypotheses for uncharacterized human proteins and its application by undergraduate students. - Paula Duek Roggli; Camille Mary; Monique Zahn-Zabal; Amos Bairoch; Lydie Lane (Database J. Biol. Databases Curation, 2021)

A large collection of bioinformatics question-query pairs over federated knowledge graphs: methodology and applications. - Jerven T. Bolleman; Vincent Emonet; Adrian M. Altenhoff; Amos Bairoch; Marie-Claude Blatter; Alan J. Bridge; Severine Duvaud; Elisabeth Gasteiger; Dmitry Kuznetsov; Sébastien Moretti; Pierre-André Michel; Anne Morgat; et al. (CoRR, 2024)