Experience

UCL

• United Kingdom
• Research Services
• 700 & Above Employee

• Group Lead

  • Sep 2020 - Present



The Francis Crick Institute

• United Kingdom
• Research Services
• 700 & Above Employee

• Visiting Scientist

  • Sep 2020 - Present



Princeton University

• United States
• Higher Education
• 700 & Above Employee

• Postdoctoral Research Associate

  • Apr 2017 - Aug 2020

  My research concerns the development of algorithms and mathematical models to address biological problems that arise from the study of sequencing data in the field of computational biology. In particular, my current research focuses on the identification and evolutionary study of Copy-Number Aberrations (CNAs)–which are frequent somatic mutations in cancer that either amplify or delete large genomic segments–starting from both tumor bulk and single-cell sequencing data. One of the goals of my research is to show that formal mathematical formulations for biologically motivated problems and careful analysis of their computational aspects are crucial to obtain meaningful results. Show less



Università degli Studi di Milano-Bicocca

• Italy
• Research Services
• 700 & Above Employee

• PHD Candidate

  • Jan 2014 - Mar 2017

  The research interests of Simone Zaccaria mainly concern computational biology, bioinformatics,algorithms, computational complexity, fixed-parameter tractable algorithms, approximation, anddata structures. His current focus is the Single Individual Haplotype Assembly for diploid species,such as humans, that aims at reconstructing the two distinct chromosome copies (haplotypes)from high-throughput sequencing reads. Due to the advent of “future-generation” sequencingtechnologies such as Illumina Moleculo, long reads become a reality. The design of new algorithmsthat are able to deal with these data and to exploit their characteristics, such as error distribution,is of fundamental importance. Simone studied the computational complexity, tractability, andapproximability of the most interesting formulations of the problem, and designed a fixed-parametertractable algorithm on parameters that are not expected to grow as fast as read length. Thispromising algorithm has been implemented (HapCol), and experiments on both simulated and realdata have been performed in order to evaluate the performances and the accuracy of the resultinghaplotypes. Show less

• Teaching Assistant

  • Oct 2014 - Feb 2015

  Teacher assistant for the course of Programming of the bachelor degree



Brown University

• United States
• Higher Education
• 700 & Above Employee

• Visiting Research Fellow

  • Nov 2015 - Jul 2016

  Visiting Research Fellow at Brown University in the Center for Computational Molecular Biology with prof. Ben Raphael. The work is focused on the study of algorithms and problems in Bioinformatics arising from the cancer genomics context. Visiting Research Fellow at Brown University in the Center for Computational Molecular Biology with prof. Ben Raphael. The work is focused on the study of algorithms and problems in Bioinformatics arising from the cancer genomics context.



Centrum Wiskunde & Informatica

• Netherlands
• Research Services
• 700 & Above Employee

• Visiting Research Scholar

  • Jul 2015 - Jul 2015

  Research Meeting with Prof. Gunnar Klau and Prof. Nadia Pisanti Research Meeting with Prof. Gunnar Klau and Prof. Nadia Pisanti



Bielefeld University

• Germany
• Research
• 700 & Above Employee

• Visiting Research Scholar

  • Sep 2012 - Feb 2013

  Research fellow under the supervision of Prof. Jens Stoye. Research focus on comparative genomics. Research fellow under the supervision of Prof. Jens Stoye. Research focus on comparative genomics.



Università degli Studi di Milano-Bicocca

• Italy
• Research Services
• 700 & Above Employee

• Teaching Assistant

  • Feb 2012 - Jul 2012

  Teaching tutor for the courses of Algorithms and Operative Research of the bachelor degree Teaching tutor for the courses of Algorithms and Operative Research of the bachelor degree



PERSICO GROUP

• Italy
• Industrial Machinery Manufacturing
• 200 - 300 Employee

• Internship

  • Sep 2008 - Oct 2008

  Internship to the administration office for network and IT management Internship to the administration office for network and IT management