2025

  1. Miguel Sanchez-Marin, Marco Giulini, Alexandre MJJ Bonvin Combining AI structure prediction and integrative modelling for nanobody-antigen complexes biorxiv

  2. Giovanni Mattiotti, Vittoria Nanna, Marco Giulini, Domenico Alberga, Giuseppe Felice Mangiatordi, Nuria Sánchez-Puig, Michele Saviano, Luca Tubiana, Raffaello Potestio, Gianluca Lattanzi, Dritan Siliqi Structural Implications of Missense Point Mutations in Shwachman–Bodian–Diamond Syndrome Protein (SBDS): A Combined SAXS/MD Investigation AcS Omega

  3. Kira Devantier, Trine L Toft-Bertelsen, Andreas Prestel, Viktoria MS Kjaer, Cagla Sahin, Marco Giulini, Stavroula Louka, Katja Spiess, Asmita Manandhar, Katrine Qvortrup, et al. The SH protein of mumps virus is a druggable pentameric viroporin. Science Advances

  4. Marco Giulini, Victor Reys, João M.C. Teixeira, Brian Jiménez-García, Rodrigo V. Honorato, et al. HADDOCK3: A modular and versatile platform for integrative modelling of biomolecular complexes Journal of Chemical Information and Modeling

  5. Xiaotong Xu, Marco Giulini, Alexandre MJJ Bonvin, Improved prediction of antibody and their complexes with clustered generative modelling ensembles Bioinformatics Advances

2024

  1. Victor Reys, Marco Giulini, Vlad Cojocaru, Anna Engel, Xiaotong Xu, Jorge Roel-Touris, Cunliang Geng, Francesco Ambrosetti, Brian Jimenez-Garcia, Zuzana Jandova, et al. Integrative modeling in the age of machine learning: A summary of HADDOCK strategies in capri rounds 47-55 Proteins: Structure, Function, and Bioinformatics
  2. Anna Ranaudo, Marco Giulini, Angela Pelissou Ayuso, and Alexandre MJJ Bonvin Modeling protein-glycan interactions with HADDOCK. Journal of Chemical Information and Modeling
  3. Rodrigo V Honorato, Mikael E Trellet, Brian Jimenez-Garcia, Jorg J Schaarschmidt, Marco Giulini, Victor Reys, Panagiotis I Koukos, Joao PGLM Rodrigues, Ezgi Karaca, Gydo CP van Zundert, et al. The HADDOCK2.4 web server for integrative modeling of biomolecular complexes Nature Protocols
  4. Marco Giulini, Constantin Schneider, Daniel Cutting, Nikita Desai, Charlotte M Deane, and Alexandre MJJ Bonvin Towards the accurate modelling of antibody-antigen complexes from sequence using machine learning and information-driven docking Bioinformatics
  5. Marco Giulini, Raffaele Fiorentini, Luca Tubiana, Raffaello Potestio, and Roberto Menichetti. EXCOGITO, an extensible coarse-graining toolbox for the investigation of biomolecules by means of low-resolution representations Journal of Chemical Information and Modeling
  6. Marco Giulini, Rodrigo V Honorato, Jesus L Rivera, and Alexandre MJJ Bonvin. ARCTIC-3D: automatic retrieval and clustering of interfaces in complexes from 3d structural information Communications Biology

2023

  1. Marc F Lensink, Guillaume Brysbaert, Nessim Raouraoua, Paul A Bates, Marco Giulini, Rodrigo V Honorato, Charlotte van Noort, Joao MC Teixeira, Alexandre MJJ Bonvin, Ren Kong, et al. Impact of AlphaFold on structure prediction of protein complexes: The CASP15-CAPRI experiment Proteins: Structure, Function, and Bioinformatics

2022

  1. Roi Holtzman, Marco Giulini, and Raffaello Potestio. Making sense of complex systems through resolution, relevance, and mapping entropy Phys. Rev. E

  2. PhD Thesis: Marco Giulini The mapping problem in coarse-grained modelling of biomolecules University of Trento

2021

  1. Roberto Menichetti, Marco Giulini, and Raffaello Potestio A journey through mapping space: characterising the statistical and metric properties of reduced representations of macromolecules The European Physical Journal B
  2. Marco Giulini, Marta Rigoli, Giovanni Mattiotti, Roberto Menichetti, Thomas Tarenzi, Raffaele Fiorentini, and Raffaello Potestio. From system modelling to system analysis: the impact of resolution level and resolution distribution in the computer-aided investigation of biomolecules Frontiers in Molecular Biosciences
  3. Federico Errica, Marco Giulini, Davide Bacciu, Roberto Menichetti, Alessio Micheli, and Raffaello Potestio. A deep graph network-enhanced sampling approach to effciently explore the space of reduced representations of proteins Frontiers in Molecular Biosciences

2020

  1. Marco Giulini, Roberto Menichetti, M Scott Shell, and Raffaello Potestio. An information theory- based approach for optimal model reduction of biomolecules Journal of chemical theory and computation

2019

  1. Marco Giulini and Raffaello Potestio A deep learning approach to the structural analysis of proteins Interface focus

2018

  1. Marco Chierici, Marco Giulini, Nicole Bussola, Giuseppe Jurman, and Cesare Furlanello. Machine learning models for predicting endocrine disruption potential of environmental chemicals Journal of Environmental Science and Health, Part C