Who are we

The group

We are located in the Department of Biosciences of the University of Milan. Due to the nature of computational work, we collaborate both in person and online. 

The group includes the PI, yours truly, and students with a passion for AI, computational modeling, statistics, and affine topics. Lab members belong to several institutions. Currently, lab members are:

• Francesco Santoro, PhD student at the Dottorato di Ricerca in Bioingegneria, Bioinformatica e Tecnologie per la salute, University of Pavia

• Milad Ansari, master student at the University of Milan

Interested in joining? Drop me an email. We do have an opening for PhD students, as well as thesis (final triennale/specialistica) opportunities.

Recently supervised students

• O. Simbari, "Automazione di simulazioni molecolari su calcolatore ad alte prestazioni per supporto e generazione di ipotesi farmacologiche", Laurea Magistrale in Ingegneria Biomedica, University of Pavia (110+laude/110)

• C. Pacini, "Local latent space dimension of the dynamics of biopolymers", Laurea Triennale in Fisica, University of Milan (110/110)

• I. Boniardi, "Identificazione di un nuovo hotspot di instabilità della Gelsolina", Corso di laurea in Chimica e Tecnologie Farmaceutiche, University of Milan

• E. Fagnani, "In silico and in vitro characterization of Type I BIR domains inhibitors in cancer therapy", Master degree in Molecular Biotechnology and Bioinformatics, University of Milan

• I. Bussoli, "Eventi di legame rari in Dinamica Molecolare: il caso del dominio SH2 e del peptide pYEEI", Corso di Laurea Magistrale in Scienze Statistiche, Università degli Studi di Padova

Courses

In the past I've lectured for courses including:

• Fondamenti di Informatica Laboratorio (Dept. of Engineering and Computers Science, University of Pavia, Italy);

• Molecular Simulations (Master in Bioinformatics for Health Sciences, Universitat Pompeu Fabra, Spain);

• High Performance Computing (Master in Bioinformatics for Health Sciences, UPF);

• Fonts i tecnologies de la informació (Biologia Humana, UPF).  

Some course material is linked below (likely outdated).

• Automated ligand parametrization at the High Throughput Molecular Dynamics workshop (session 2), PRBB Barcelona, 7 Nov. 2013.

• Coarse graining at the High Throughput Molecular Dynamics workshop (session 2), PRBB Barcelona, 8 Nov. 2013.

• High performance computing (HPC), Master in Bioinformatics for Health Sciences, Universitat Pompeu Fabra, 2012

• Introduction to database modeling, part of the course Fonts i Tecnologies (spanish, biology undergraduate) Universitat Pompeu Fabra, 2011

• Slides for the High performance computing (HPC) course: class 7, class 8 (master Bioinformatics for Health Sciences) Universitat Pompeu Fabra, 2010

• Slides for the Molecular Simulations (MSI) course: preparing simulations (class 2); free energy of deca-alanin (class 23-24) (master Bioinformatics for Health Sciences,Universitat Pompeu Fabra, 2010)

• Slides for the course Fondamenti Informatica Laboratorio (Università di Pavia, 2002-2008)