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Fábio Madeira

Active 2012–2025

22
Papers
25,626
Citations
18
h-index
18
i10-index

Citations

Citations per year for Fábio Madeira1957: 1 citations1978: 2 citations1995: 1 citations1999: 3 citations2002: 2 citations2003: 2 citations2004: 1 citations2005: 1 citations2006: 2 citations2007: 2 citations2009: 1 citations2010: 1 citations2012: 2 citations2013: 1 citations2014: 2 citations2015: 3 citations2016: 2 citations2017: 3 citations2018: 9 citations2019: 230 citations2020: 711 citations2021: 1,026 citations2022: 1,328 citations2023: 1,108 citations2024: 2,235 citations2025: 951 citations2026: 74 citations1958–1977: no citations, so these years are not shown1979–1994: no citations, so these years are not shown1996–1998: no citations, so these years are not shown2000–2001: no citations, so these years are not shown2008: no citations, so this year is not shown2011: no citations, so this year is not shown

Citation sources

Countries

World map of the countries and regions citing this authorUnited States: 2,678 citing papers, 20.6% of this breakdownChina: 1,454 citing papers, 11.2% of this breakdownUnited Kingdom: 1,031 citing papers, 7.9% of this breakdownGermany: 992 citing papers, 7.6% of this breakdownFrance: 468 citing papers, 3.6% of this breakdownCanada: 397 citing papers, 3.1% of this breakdownSpain: 361 citing papers, 2.8% of this breakdownSwitzerland: 348 citing papers, 2.7% of this breakdownIndia: 339 citing papers, 2.6% of this breakdownItaly: 339 citing papers, 2.6% of this breakdownAustralia: 305 citing papers, 2.4% of this breakdownJapan: 283 citing papers, 2.2% of this breakdown
0%20.6%Other 30.7%

Institutions

Fields

  • Biochemistry, Genetics and Molecular Biology55.1%
  • Medicine16.8%
  • Agricultural and Biological Sciences6%
  • Computer Science5.4%
  • Immunology and Microbiology4.7%
  • Environmental Science3.8%
  • Other8.2%

Topics

  • Genomics and Phylogenetic Studies4%
  • RNA and protein synthesis mechanisms3.5%
  • Machine Learning in Bioinformatics3%
  • Protein Structure and Dynamics3%
  • Computational Drug Discovery Methods2.8%
  • Bioinformatics and Genomic Networks2.6%
  • Other81.1%

Coauthors

All papers

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  1. UniProt: the Universal Protein Knowledgebase in 2023

    Authors: Alex Bateman, María Martin, Sandra Orchard, Michele Magrane, Shadab Ahmad, Emanuele Alpi, Emily Bowler-Barnett, Ramona Britto, Hema Bye‐A‐Jee, Austra Cukura, Paul Denny, Tunca Doğan, ThankGod E. Ebenezer, Jun Fan, Penelope Garmiri, Leonardo Jose da Costa Gonzales, Emma Hatton-Ellis, Abdulrahman Hussein, Alexandr Ignatchenko, Giuseppe Insana, Rizwan Ishtiaq, Vishal Joshi, Dushyanth Jyothi, Swaathi Kandasaamy, Antonia Lock, Aurélien Luciani, Marija Lugaric, Jie Luo, Yvonne Lussi, Alistair MacDougall, Fábio Madeira, Mahdi Mahmoudy, Alok Mishra, Katie Moulang, Andrew Nightingale, Sangya Pundir, Guoying Qi, Shriya Raj, Pedro Raposo, Daniel L Rice, Rabie Saidi, Rafael Santos, Elena Speretta, James Stephenson, Prabhat Totoo, E. B. Turner, Nidhi Tyagi, Preethi Vasudev, Kate Warner, Xavier Watkins, Rossana Zaru, Hermann Zellner, Alan Bridge, Lucila Aimo, Ghislaine Argoud‐Puy, Andrea H Auchincloss, Kristian B. Axelsen, Parit Bansal, Delphine Baratin, Teresa M Batista Neto, Marie-Claude Blatter, Jerven Bolleman, Emmanuel Boutet, Lionel Breuza, Blanca Cabrera Gil, Cristina Casals‐Casas, Kamal Chikh Echioukh, Elisabeth Coudert, Beatrice Cuche, Edouard de Castro, Anne Estreicher, Maria Livia Famiglietti, Marc Feuermann, Elisabeth Gasteiger, Pascale Gaudet, Sébastien Géhant, Vivienne Baillie Gerritsen, Arnaud Gos, Nadine Gruaz, Chantal Hulo, Nevila Hyka‐Nouspikel, Florence Jungo, Arnaud Kerhornou, Philippe Le Mercier, Damien Lieberherr, Patrick Masson, Anne Morgat, Venkatesh Muthukrishnan, Salvo Paesano, Ivo Pedruzzi, Sandrine Pilbout, Lucille Pourcel, Sylvain Poux, Monica Pozzato, Manuela Pruess, Nicole Redaschi, Catherine Rivoire, Christian J A Sigrist, Karin Sonesson, Shyamala Sundaram and 14 more - Nucleic Acids Research, Nucleic Acids Res. 2022 cited by 7,020

  2. UniProt: the universal protein knowledgebase in 2021

    Authors: Alex Bateman, Maria Jesus Martin, Sandra E. Orchard, Michele Magrane, Rahat Agivetova, Shadab Ahmad, Emanuele Alpi, Emily H. Bowler-Barnett, Ramona Britto, Borisas Bursteinas, Hema Bye-A-Jee, Ray Coetzee, Austra Cukura, Alan W. Sousa da Silva, Paul Denny, Tunca Dogan, Thankgod Ebenezer, Jun Fan, Leyla Jael García Castro, Penelope Garmiri, George E. Georghiou, Leonardo Gonzales, Emma Hatton-Ellis, Abdulrahman Hussein, Alexandr Ignatchenko, Giuseppe Insana, Rizwan Ishtiaq, Petteri Jokinen, Vishal Joshi, Dushyanth Jyothi, Antonia Lock, Rodrigo Lopez, Aurelien Luciani, Jie Luo, Yvonne Lussi, Alistair MacDougall, Fábio Madeira, Mahdi Mahmoudy, Manuela Menchi, Alok Mishra, Katie Moulang, Andrew Nightingale, Carla Susana Oliveira, Sangya Pundir, Guoying Qi, Shriya Raj, Daniel Rice, Milagros Rodríguez-López, Rabie Saidi, Joseph Sampson, Tony Sawford, Elena Speretta, Edward Turner, Nidhi Tyagi, Preethi Vasudev, Vladimir Volynkin, Kate Warner, Xavier Watkins, Rossana Zaru, Hermann Zellner, Alan J. Bridge, Sylvain Poux, Nicole Redaschi, Lucila Aimo, Ghislaine Argoud-Puy, Andrea H. Auchincloss, Kristian B. Axelsen, Parit Bansal, Delphine Baratin, Marie-Claude Blatter, Jerven T. Bolleman, Emmanuel Boutet, Lionel Breuza, Cristina Casals-Casas, Edouard De Castro, Kamal Chikh Echioukh, Elisabeth Coudert, Béatrice A. Cuche, Mikael Doche, Dolnide Dornevil, Anne Estreicher, Maria Livia Famiglietti, Marc Feuermann, Elisabeth Gasteiger, Sebastien Gehant, Vivienne Baillie Gerritsen, Arnaud Gos, Nadine Gruaz-Gumowski, Ursula Hinz, Chantal Hulo, Nevila Hyka-Nouspikel, Florence Jungo, Guillaume Keller, Arnaud Kerhornou, Vicente Lara, Philippe Le Mercier, Damien Lieberherr, Thierry Lombardot, Xavier Martin, Patrick Masson and 33 more - Nucleic Acids Research, Nucleic Acids Res. 2020 cited by 7,040

  3. Search and sequence analysis tools services from EMBL-EBI in 2022

    Authors: Fábio Madeira, Matt Pearce, Adrian R. N. Tivey, Prasad Basutkar, Joon Lee, Ossama Edbali, Nandana Madhusoodanan, Anton Kolesnikov, Rodrigo Lopez - Nucleic Acids Research, Nucleic Acids Res. 2022 cited by 2,513

  4. The EMBL-EBI Job Dispatcher sequence analysis tools framework in 2024

    Authors: Fábio Madeira, Nandana Madhusoodanan, Joon Lee, Alberto Eusebi, Ania Niewielska, Adrian R. Tivey, Rodrigo López, Sarah Butcher - Nucleic Acids Research 2024 cited by 1,575

  5. The EMBL-EBI search and sequence analysis tools APIs in 2019

    Authors: Fábio Madeira, Young Mi Park, Joon Lee, Nicola Buso, Tamer Gur, Nandana Madhusoodanan, Prasad Basutkar, Adrian R. N. Tivey, Simon C. Potter, Robert D. Finn, Rodrigo Lopez - Nucleic Acids Research, Nucleic Acids Res. 2019 cited by 4,653

  6. Annotation of biologically relevant ligands in UniProtKB using ChEBI

    Authors: Elisabeth Coudert, Sébastien Géhant, Edouard de Castro, Monica Pozzato, Delphine Baratin, Teresa Batista Neto, Christian J A Sigrist, Nicole Redaschi, Alan Bridge, Alan Bridge, Lucila Aimo, Ghislaine Argoud‐Puy, Andrea H Auchincloss, Kristian B. Axelsen, Parit Bansal, Delphine Baratin, Teresa M Batista Neto, Marie-Claude Blatter, Jerven Bolleman, Emmanuel Boutet, Lionel Breuza, Blanca Cabrera Gil, Cristina Casals‐Casas, Kamal Chikh Echioukh, Elisabeth Coudert, Beatrice Cuche, Edouard de Castro, Anne Estreicher, Maria Livia Famiglietti, Marc Feuermann, Elisabeth Gasteiger, Pascale Gaudet, Sébastien Géhant, Vivienne Baillie Gerritsen, Arnaud Gos, Nadine Gruaz, Chantal Hulo, Nevila Hyka‐Nouspikel, Florence Jungo, Arnaud Kerhornou, Philippe Le Mercier, Damien Lieberherr, Patrick Masson, Anne Morgat, Venkatesh Muthukrishnan, Salvo Paesano, Ivo Pedruzzi, Sandrine Pilbout, Lucille Pourcel, Sylvain Poux, Monica Pozzato, Manuela Pruess, Nicole Redaschi, Catherine Rivoire, Christian J A Sigrist, Karin Sonesson, Shyamala Sundaram, Alex Bateman, María Martin, Sandra Orchard, Michele Magrane, Shadab Ahmad, Emanuele Alpi, Emily Bowler-Barnett, Ramona Britto, Hema Bye- A-Jee, Austra Cukura, Paul Denny, Tunca Doğan, ThankGod E. Ebenezer, Jun Fan, Penelope Garmiri, Leonardo Jose da Costa Gonzales, Emma Hatton-Ellis, Abdulrahman Hussein, Alexandr Ignatchenko, Giuseppe Insana, Rizwan Ishtiaq, Vishal Joshi, Dushyanth Jyothi, Swaathi Kandasaamy, Antonia Lock, Aurélien Luciani, Marija Lugaric, Jie Luo, Yvonne Lussi, Alistair MacDougall, Fábio Madeira, Mahdi Mahmoudy, Alok Mishra, Katie Moulang, Andrew Nightingale, Sangya Pundir, Guoying Qi, Shriya Raj, Pedro Raposo, Daniel L Rice, Rabie Saidi, Rafael Santos, Elena Speretta and 22 more - Bioinformatics, Bioinform. 2022 cited by 319

  7. InterPro in 2019: improving coverage, classification and access to protein sequence annotations

    Authors: Alex L. Mitchell, Teresa K. Attwood, Patricia C. Babbitt, Matthias Blum, Peer Bork, Alan J. Bridge, Shoshana D. Brown, Hsin-Yu Chang, Sara El-Gebali, Matthew Fraser, Julian Gough, David Haft, Hongzhan Huang, Ivica Letunic, Rodrigo Lopez, Aurelien Luciani, Fábio Madeira, Aron Marchler-Bauer, Huaiyu Mi, Darren A. Natale, Marco Necci, Gift Nuka, Christine A. Orengo, Arun Prasad Pandurangan, Typhaine Paysan-Lafosse, Sebastien Pesseat, Simon C. Potter, Matloob Qureshi, Neil D. Rawlings, Nicole Redaschi, Lorna J. Richardson, Catherine Rivoire, Gustavo A. Salazar, Amaia Sangrador-Vegas, Christian J. A. Sigrist, Ian Sillitoe, Granger G. Sutton, Narmada Thanki, Paul D. Thomas, Silvio C. E. Tosatto, Siew-Yit Yong, Robert D. Finn - Nucleic Acids Research, Nucleic Acids Res. 2018 cited by 1,539

  8. R2DT is a framework for predicting and visualising RNA secondary structure using templates

    Authors: Blake Sweeney, David Hoksza, Eric P. Nawrocki, Carlos Eduardo Ribas, Fábio Madeira, Jamie J. Cannone, Robin R. Gutell, Aparna Maddala, Caeden D. Meade, Loren Dean Williams, Anton S. Petrov, Patricia P. Chan, Todd M. Lowe, ROBERT FINN, Anton I. Petrov - Nature Communications 2021 cited by 147

  9. PDBe-KB: a community-driven resource for structural and functional annotations

    Authors: Mihaly Varadi, John M. Berrisford, Mandar S. Deshpande, Sreenath Nair, Aleksandras Gutmanas, David R. Armstrong, Lukás Pravda, Bissan Al-Lazikani, Stephen Anyango, Geoffrey J. Barton, Karel Berka, Tom L. Blundell, Neera Borkakoti, Jose M. Dana, Sayoni Das, Sucharita Dey, Patrizio Di Micco, Franca Fraternali, Toby J. Gibson, Manuela Helmer-Citterich, David Hoksza, Liang-Chin Huang, Rishabh Jain, Harry Jubb, Christos C. Kannas, Natarajan Kannan, Jaroslav Koca, Radoslav Krivák, Manjeet Kumar, Emmanuel D. Levy, Fábio Madeira, M. S. Madhusudhan, Henry J. Martell, Stuart A. MacGowan, Jake E. McGreig, Saqib Mir, Abhik Mukhopadhyay, Luca Parca, Typhaine Paysan-Lafosse, Leandro G. Radusky, António J. M. Ribeiro, Luis Serrano, Ian Sillitoe, Gulzar Singh, Petr Skoda, Radka Svobodová Vareková, Jonathan D. Tyzack, Alfonso Valencia, Eloy D. Villasclaras-Fernández, Wim F. Vranken, Mark N. Wass, Janet M. Thornton, Michael J. E. Sternberg, Christine A. Orengo, Sameer Velankar - Nucleic Acids Research, Nucleic Acids Res. 2019 cited by 137

  10. The European Nucleotide Archive in 2021

    Authors: Carla A. Cummins, Alisha Ahamed, Raheela Aslam, Josephine Burgin, Rajkumar Devraj, Ossama Edbali, Dipayan Gupta, Peter W. Harrison, Muhammad Haseeb, Sam Holt, Talal Ibrahim, Eugene Ivanov, Suran Jayathilaka, Vishnukumar Balavenkataraman Kadhirvelu, Simon Kay, Manish Kumar, Ankur Lathi, Rasko Leinonen, Fábio Madeira, Nandana Madhusoodanan, Milena Mansurova, Colman O'Cathail, Matt Pearce, Stephane Pesant, Nadim Rahman, Jeena Rajan, Gabriele Rinck, Sandeep Selvakumar, Alexey Sokolov, Swati Suman, Ross Thorne, Prabhat Totoo, Senthilnathan Vijayaraja, Zahra Waheed, Ahmad Zyoud, Rodrigo Lopez, Tony Burdett, Guy Cochrane - Nucleic Acids Research, Nucleic Acids Res. 2021 cited by 131

  11. 14-3-3-Pred: improved methods to predict 14-3-3-binding phosphopeptides

    Authors: Fábio Madeira, Michele Tinti, Gavuthami Murugesan, Emily Berrett, Margaret Stafford, Rachel Toth, Christian Cole, Carol MacKintosh, Geoffrey J. Barton - Bioinformatics, Bioinform. 2015 cited by 226

  12. JABAWS 2.2 distributed web services for Bioinformatics: protein disorder, conservation and RNA secondary structure

    Authors: Peter V. Troshin, James B. Procter, Alexander Sherstnev, Daniel L. Barton, Fábio Madeira, Geoffrey J. Barton - Bioinformatics, Bioinform. 2018 cited by 72

  13. Recommendations for the packaging and containerizing of bioinformatics software

    Authors: Björn A. Grüning, Olivier Sallou, Pablo A. Moreno, Felipe da Veiga Leprevost, Hervé Ménager, Dan Søndergaard, Hannes L. Röst, Timo Sachsenberg, Brian O'Connor, Fábio Madeira, Victoria Dominguez Del Angel, Michael R. Crusoe, Susheel Varma, Daniel J. Blankenberg, Rafael C. Jiménez, Daniel Blankenberg, Yasset Pérez-Riverol - F1000Research 2018 cited by 56

  14. The Dundee Resource for Sequence Analysis and Structure Prediction

    Authors: Stuart A. MacGowan, Fábio Madeira, Thiago Britto‐Borges, Mateusz Warowny, Alexey Drozdetskiy, James B Procter, Geoffrey J. Barton - Protein Science 2019 cited by 27

  15. R2DT: a comprehensive platform for visualizing RNA secondary structure

    Authors: Holly McCann, Caeden D. Meade, Loren Dean Williams, Anton S. Petrov, Philip Z. Johnson, Anne E. Simon, David Hoksza, Eric P. Nawrocki, Patricia P. Chan, Todd M. Lowe, Carlos Eduardo Ribas, Blake Sweeney, Fábio Madeira, Stephen Anyango, Sri Devan Appasamy, Mandar Deshpande, Mihály Váradi, Sameer Velankar, Craig L. Zirbel, Aleksei Naiden, Fabrice Jossinet, Anton I. Petrov - Nucleic Acids Research 2025 cited by 23

  16. Using EMBL‐EBI Services via Web Interface and Programmatically via Web Services

    Authors: Fábio Madeira, Nandana Madhusoodanan, Joon Lee, Alberto Eusebi, Ania Niewielska, Adrian R. Tivey, Stuart Meacham, Rodrigo López, Sarah Butcher - Current Protocols 2024 cited by 21

  17. Using EMBL‐EBI Services via Web Interface and Programmatically via Web Services

    Authors: Fábio Madeira, Nandana Madhusoodanan, Joon Lee, Adrian R. Tivey, Rodrigo López - Current Protocols in Bioinformatics 2019 cited by 52

  18. A unified analysis of evolutionary and population constraint in protein domains highlights structural features and pathogenic sites

    Authors: Stuart A. MacGowan, Fábio Madeira, Thiago Britto‐Borges, Geoffrey J. Barton - Communications Biology 2024 cited by 6

  19. ANIA: ANnotation and Integrated Analysis of the 14-3-3 interactome

    Authors: Michele Tinti, Fábio Madeira, Gavuthami Murugesan, Gerta Hoxhaj, Rachel Toth, Carol MacKintosh - Database, Database J. Biol. Databases Curation 2014 cited by 63

  20. Constraining Protein Docking with Coevolution Data for Medical Research

    Authors: Ludwig Krippahl, Fábio Madeira, Pedro Barahona - Lecture notes in computer science, AIME 2013 cited by 4

  21. Pycoevol - A Python Workflow to Study Protein-protein Coevolution

    Authors: Fábio Madeira, Ludwig Krippahl - Conference on Bioinformatics Models 2012 cited by 2

  22. Taxonomy Resolver: A Python package for building and filtering taxonomy trees

    Authors: Fábio Madeira, Nandana Madhusoodanan, Joonheung Lee, Alberto Eusebi, Ania Niewielska, Sarah Butcher - The Journal of Open Source Software, J. Open Source Softw. 2025 cited by 0

All 22 papers shown.