Joana Pereira

ORCID

Publication Activity (10 Years)

Years Active: 2019-2024
Publications (10 Years): 12

Top Venues

Acta crystallographica. Section D, Structural biology

Proteins

Bioinformatics (Oxford, England)

Nature

Max-Planck-Institut für Entwicklungsbiologie

Universität Hamburg (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Max-Planck-Institut für Entwicklungsbiologie

Germany

Postdoctoral researcher :: Protein Evolution

European Molecular Biology Laboratory

Germany

PhD student

Education History

Universität Hamburg

Germany

PHD :: Chemistry

Universidade do Porto

Portugal

MSC :: Faculdade de Ciências

Publications

Lorenzo Pantolini, Gabriel Studer, Joana Pereira, Janani Durairaj, Gerardo Tauriello, Torsten Schwede
Embedding-based alignment: combining protein language models with dynamic programming alignment to detect structural similarities in the twilight-zone. Bioinformatics (Oxford, England) 40 (1) (2024)
Lorenzo Pantolini, Gabriel Studer, Joana Pereira, Janani Durairaj, Gerardo Tauriello, Torsten Schwede
Embedding-based alignment: combining protein language models with dynamic programming alignment to detect structural similarities in the twilight-zone. Bioinformatics (Oxford, England) 40 (1) (2024)
Lorenzo Pantolini, Gabriel Studer, Joana Pereira, Janani Durairaj, Gerardo Tauriello, Torsten Schwede
Embedding-based alignment: combining protein language models with dynamic programming alignment to detect structural similarities in the twilight-zone. Bioinformatics (Oxford, England) 40 (1) (2024)
Jon Agirre, Mihaela Atanasova, Haroldas Bagdonas, Charles B Ballard, Arnaud Baslé, James Beilsten-Edmands, Rafael Junqueira Borges, David G Brown, J Javier Burgos-Mármol, John M Berrisford, Paul S Bond, Iracema Caballero, Lucrezia Catapano, Grzegorz Chojnowski, Atlanta G Cook, Kathryn D Cowtan, Tristan I Croll, Judit É Debreczeni, Nicholas E Devenish, Eleanor J Dodson, Tarik R Drevon, Paul Emsley, Gwyndaf Evans, Phil R Evans, Maria Fando, James Foadi, Luis Fuentes-Montero, Elspeth F Garman, Markus Gerstel, Richard J Gildea, Kaushik Hatti, Maarten L Hekkelman, Philipp Heuser, Soon Wen Hoh, Michael A Hough, Huw T Jenkins, Elisabet Jiménez, Robbie P Joosten, Ronan M Keegan, Nicholas H Keep, Eugene B Krissinel, Petr Kolenko, Oleg Kovalevskiy, Victor S Lamzin, David M Lawson, Andrey A Lebedev, Andrew G W Leslie, Bernhard Lohkamp, Fei Long, Martin Malý, Airlie J McCoy, Stuart J McNicholas, Ana Medina, Claudia Millán, James W Murray, Garib N Murshudov, Robert A Nicholls, Martin E M Noble, Robert D Oeffner, Navraj S Pannu, James M Parkhurst, Nicholas Pearce, Joana Pereira, Anastassis Perrakis, Harold R Powell, Randy J Read, Daniel J Rigden, William Rochira, Massimo D Sammito, Filomeno Sánchez Rodríguez, George M Sheldrick, Kathryn L Shelley, Felix Simkovic, Adam J Simpkin, Pavol Skubák, Egor Sobolev, Roberto A Steiner, Kyle Stevenson, Ivo Tews, Jens M H Thomas, Andrea Thorn, Josep Triviño Valls, Ville Uski, Isabel Usón, Alexei Vagin, Sameer Velankar, Melanie Vollmar, Helen Walden, David Geoffrey Waterman, Keith S Wilson, Martyn David Winn, Graeme Winter, Marcin Wojdyr, Keitaro Yamashita
The CCP4 suite: integrative software for macromolecular crystallography. Acta crystallographica. Section D, Structural biology 79 (Pt 6) (2023)
Janani Durairaj, Andrew M Waterhouse, Toomas Mets, Tetiana Brodiazhenko, Minhal Abdullah, Gabriel Studer, Gerardo Tauriello, Mehmet Akdel, Antonina Andreeva, Alex Bateman, Tanel Tenson, Vasili Hauryliuk, Torsten Schwede, Joana Pereira
Uncovering new families and folds in the natural protein universe. Nature (2023)
Annika Topitsch, Torsten Schwede, Joana Pereira
Outer membrane β-barrel structure prediction through the lens of AlphaFold2. Proteins (2023)
Vitaly G Grigorenko, Tatiana E Petrova, Ciaran Carolan, Maya Yu Rubtsova, Igor V Uporov, Joana Pereira, Grzegorz Chojnowski, Valeriya R Samygina, Victor S Lamzin, Alexey M Egorov
Crystal structures of the molecular class A β-lactamase TEM-171 and its complexes with tazobactam. Acta crystallographica. Section D, Structural biology 78 (Pt 7) (2022)
Claudia Millán, Ronan M Keegan, Joana Pereira, Massimo D Sammito, Adam J Simpkin, Airlie J McCoy, Andrei N Lupas, Marcus D Hartmann, Daniel J Rigden, Randy J Read
Assessing the utility of CASP14 models for molecular replacement. Proteins 89 (12) (2021)
Joana Pereira, Adam J Simpkin, Marcus D Hartmann, Daniel J Rigden, Ronan M Keegan, Andrei N Lupas
High-accuracy protein structure prediction in CASP14. Proteins 89 (12) (2021)
Joana Pereira, Vikram Alva
How do I get the most out of my protein sequence using bioinformatics tools? Acta crystallographica. Section D, Structural biology 77 (Pt 9) (2021)
Grzegorz Chojnowski, Koushik Choudhury, Philipp Heuser, Egor Sobolev, Joana Pereira, Umut Oezugurel, Victor S Lamzin
The use of local structural similarity of distant homologues for crystallographic model building from a molecular-replacement solution. Acta crystallographica. Section D, Structural biology 76 (Pt 3) (2020)
Grzegorz Chojnowski, Joana Pereira, Victor S Lamzin
Sequence assignment for low-resolution modelling of protein crystal structures. Acta crystallographica. Section D, Structural biology 75 (Pt 8) (2019)

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Publication Activity (10 Years)

Top Topics

Top Venues

Joana Pereira