Short Bio
Marco Cappellato completed his entire academic career at the University of Padua. In 2016 he graduated in Information Engineering, course where he learned the basic subjects of technology. In 2019 he finished his master degree in Bioengineering. Subsequently, He collaborated in a research activity with Professor Di Camillo on statistical methods for sequencing data. In November 2019 he started the PhD in information engineering. The aim of his PhD activity is to investigate the best pipeline for analyzing 16S rRNA-Seq data: from differential abundance analysis to network inference.
Academic Degree
PhD in Information Engineering
at the Department of Information Engineering, University of Padova, Padova, Italy
2019-2023
Thesis title: Evaluation of differential abundance and network inference methods for microbiota sequencing data.
Supervisor: Prof. Barbara Di Camillo
Cosupervisor: Dott. Giacomo Baruzzo, PhD
Master's Degree in Bioengineering at the University of Padova, Padova, Italy
2016-2019
Thesis title: Mappatura nello spazio 3-Dimensionale di dati di trascrittomica a singola cellula.
Supervisor: Prof. Barbara Di Camillo
Cosupervisor: Dott. Giacomo Baruzzo, PhD
Bachelor's degree in Information Engineering at the University of Padova, Padova, Italy
2012-2016
Thesis title: Modellazione della generazione e propagazione dell'impulso elettrico lungo la cellula nervosa.
Supervisor: Prof. Alessandra Bertoldo
Appointments
Research Collaborator
at the Department of Information Engineering, University of Padova, Padova, Italy
May 2022 - Aug 2022
Activity: Analysis of 16S rDNA-seq ALS dataset.
Research Collaborator
at the Department of Information Engineering, University of Padova, Padova, Italy
Apr 2019 - May 2019
Activity: Analysis of imputation methods for scRNA-seq data.
Awards
"Best performing teams (3rd place)" at "Metagenomics Diagnosis for Inflammatory Bowel Disease Challenge (MEDIC)", sbv IMPROVER Computational Challenge series 2019-2020
Team GiGi, University of Padova, Italy: Barbara Di Camillo, Marco Cappellato, Mehdi Poursheikhali Asghari, Sebastian Daberdaku, Giacomo Baruzzo, Filippo Pietrobon, Ilaria Patuzzi.
Participation to projects
SID_UNIPD 2021-2022 Project Grants: “tRajectoriEs of baCtErial NeTwoRks from hEalthy to disease state and back (RECENTRE)”
2021-2022
Principal investigator: Prof. Barbara Di Camillo, University of Padova
Role: collaborator
Progetti di Ricerca su Covid-19, Fondazione Cariparo: “Uncover a microbiota signature of upper respiratory tract in patients SARS-CoV-2 to identify a biomarker to guide physicians’ decision-making process”
2020-today
Principal investigator: Prof. Ignazio Castagliuolo, University of Padova
Role: collaborator
- Khachatryan L, Xiang Y, Ivanov A, et al. Results and lessons learned from the sbv IMPROVER metagenomics diagnostics for inflammatory bowel disease challenge. Sci Rep. 2023 Apr 18;13(1):6303
- Cappellato M, Baruzzo G, Di Camillo B. Investigating differential abundance methods in microbiome data: A benchmark study. PLoS Comput Biol. 2022 Sep 8;18(9):e1010467
- Cappellato M, Baruzzo G, Patuzzi I, Di Camillo B. Modeling Microbial Community Networks: Methods and Tools. Curr Genomics. 2021 Dec 16;22(4):267-290
- Tanevski J, Nguyen T, Truong B, et al. Gene selection for optimal prediction of cell position in tissues from single-cell transcriptomics data. Life Sci Alliance. 2020 Sep 24;3(11):e202000867
Selected conference contributions
Poster presentation: M. Cappellato, Bellato M, Baruzzo G, Facchin S, Barzon L, Besutti V, Brun P, Del Favero S, Schenato L, Savarino EV, Castagliuolo I, Di Camillo B. “Temporal changes in microbiome composition after FMT in subject with C.Difficile infection: a network perspective” at European Conference on Computational Biology (ECCB) 2022
Sitges, Spain, Sept 12-21, 2022
Oral presentation: A. Rossato, M. Cappellato, N. Nikoloska, G. Baruzzo, B. Di Camillo. “From microbial community model to interaction networks” at Annual Meeting of the Bioinformatics Italian Society (BITS) 2022
Verona, Italy, June 27-29, 2022
Oral presentation: M. Cappellato, G. Baruzzo, B. Di Camillo. “Comprehensive assessment of microbiome differential abundance tools” at Bioinformatics and Computational Biology Conference (BBCC) 2021 Meeting
Virtual conference, December 1-3, 2021
Poster presentation: M. Cappellato, G. Baruzzo, B. Di Camillo. “Investigating differential abundance methods in microbiome data: a benchmark study” at Annual Meeting of the Bioinformatics Italian Society (BITS) 2021
Virtual conference, July 1-2, 2021
Referee activity
Journal referee: IEEE Journal of Biomedical and Health Informatics
Conference referee: Research in Computational Molecular Biology (RECOMB) 2021, IEEE-EMBS International Conference on Biomedical and Health Informatics (BHI) 2021, Research in Computational Molecular Biology (RECOMB) 2022
Role in organization of scientific conferences
Instructor
Tutorial “Software containerization in bioinformatics: how to make reproducible, portable and reusable bioinformatics software&pipelines” at New Trends in Bioinformatics by ECCB - European Conference on Computational Biology (ECCB) 2022
Sitges, Spain, Sept 13, 2022
Students Supervision
Marco Cappellato has served as Co-Supervisor for:
5 Bachelor Degree students's thesis (Information Engineering and Biomedical Engineering)
3 Master Degree students's thesis (Bioengineering)
at the University of Padova.
Other activities
Development of the new SysBioBig – Systems Biology and Bioinformatics Group – website
Last update: 14-05-2023