Improving B-cell epitope prediction and its application to global antibody-antigen docking. - Konrad Krawczyk; Xiaofeng Liu; Terry Baker; Jiye Shi; Charlotte M. Deane (Bioinform., 2014)

SAbDab: the structural antibody database. - James Dunbar; Konrad Krawczyk; Jinwoo Leem; Terry Baker; Angelika Fuchs; Guy Georges; Jiye Shi; Charlotte M. Deane (Nucleic Acids Res., 2014)

Progress and challenges in predicting protein interfaces. - Reyhaneh Esmaielbeiki; Konrad Krawczyk; Bernhard Knapp; Jean-Christophe Nebel; Charlotte M. Deane (Briefings Bioinform., 2016)

Tertiary Element Interaction in HIV-1 TAR. - Konrad Krawczyk; Adelene Y. L. Sim; Bernhard Knapp; Charlotte M. Deane; Peter Minary (J. Chem. Inf. Model., 2016)

SAbPred: a structure-based antibody prediction server. - James Dunbar; Konrad Krawczyk; Jinwoo Leem; Claire Marks; Jaroslaw Nowak; Cristian Regep; Guy Georges; Sebastian Kelm; Bojana Popovic; Charlotte M. Deane (Nucleic Acids Res., 2016)

In silico structural modeling of multiple epigenetic marks on DNA. - Konrad Krawczyk; Samuel Demharter; Bernhard Knapp; Charlotte M. Deane; Peter Minary (Bioinform., 2018)

STCRDab: the structural T-cell receptor database. - Jinwoo Leem; Saulo Henrique Pires de Oliveira; Konrad Krawczyk; Charlotte M. Deane (Nucleic Acids Res., 2018)

Computational approaches to therapeutic antibody design: established methods and emerging trends. - Richard A. Norman; Francesco Ambrosetti; Alexandre M. J. J. Bonvin; Lucy J. Colwell; Sebastian Kelm; Sandeep Kumar; Konrad Krawczyk (Briefings Bioinform., 2020)

The evolution of contact prediction: evidence that contact selection in statistical contact prediction is changing. - Mark Chonofsky; Saulo Henrique Pires de Oliveira; Konrad Krawczyk; Charlotte M. Deane (Bioinform., 2020)

Machine-designed biotherapeutics: opportunities, feasibility and advantages of deep learning in computational antibody discovery. - Wiktoria Wilman; Sonia Wróbel; Weronika Bielska; Piotr Deszynski; Pawel Dudzic; Igor Jaszczyszyn; Jedrzej Kaniewski; Jakub Mlokosiewicz; Anahita Rouyan; Tadeusz Satlawa; Sandeep Kumar; Victor Greiff; et al. (Briefings Bioinform., 2022)

AbDiver: a tool to explore the natural antibody landscape to aid therapeutic design. - Jakub Mlokosiewicz; Piotr Deszynski; Wiktoria Wilman; Igor Jaszczyszyn; Rajkumar Ganesan; Aleksandr Kovaltsuk; Jinwoo Leem; Jacob D. Galson; Konrad Krawczyk (Bioinform., 2022)

MS2AI: automated repurposing of public peptide LC-MS data for machine learning applications. - Tobias Greisager Rehfeldt; Konrad Krawczyk; Mathias Bøgebjerg; Veit Schwämmle; Richard Röttger (Bioinform., 2022)

INDI - integrated nanobody database for immunoinformatics. - Piotr Deszynski; Jakub Mlokosiewicz; Adam Volanakis; Igor Jaszczyszyn; Natalie Castellana; Stefano Bonissone; Rajkumar Ganesan; Konrad Krawczyk (Nucleic Acids Res., 2022)

JADE with k Nearest Neighbors Surrogate Model. - Konrad Krawczyk; Jaroslaw Arabas (GECCO Companion, 2023)

Comparison of Different Surrogate Models for the JADE Algorithm. - Konrad Krawczyk; Jaroslaw Arabas (IJCCI, 2023)

Empirical Study of Surrogate Model Assisting JADE: Relation Between the Model Accuracy and the Optimization Efficiency. - Konrad Krawczyk; Jaroslaw Arabas (GECCO Companion, 2024)

RIOT - Rapid Immunoglobulin Overview Tool - annotation of nucleotide and amino acid immunoglobulin sequences using an open germline database. - Pawel Dudzic; Bartosz Janusz; Tadeusz Satlawa; Dawid Chomicz; Tomasz Gawlowski; Rafal Grabowski; Przemek Józwiak; Mateusz Tarkowski; Maciej Mycielski; Sonia Wróbel; Konrad Krawczyk (Briefings Bioinform., 2024)

LAP: Liability Antibody Profiler by sequence & structural mapping of natural and therapeutic antibodies. - Tadeusz Satlawa; Mateusz Tarkowski; Sonia Wróbel; Pawel Dudzic; Tomasz Gawlowski; Tomasz Klaus; Marek Orlowski; Anna Kostyn; Sandeep Kumar; Andrew Buchanan; Konrad Krawczyk (PLoS Comput. Biol., 2024)