Bium(MZ)
Core Facility Bioinformatics
Federico Marini, Dr. rer. physiol.
About me
I am the Head of the Bioinformatics Group (Division Genomic Statistics and Bioinformatics) at the Institute of Medical Biostatistics, Epidemiology and Informatics (IMBEI) in Mainz, Germany.
My research interests involve the development of methods and software for interactive and reproducible research, bringing together the fields of bioinformatics, statistics, genomics, and biology.
Since May 2017, I serve as Joint Head of the Bioinformatics Core Facility, together with Jens Marquardt (2017-2019) and with Friedrich Foerster (since November 2019).
I love working in the R programming language, and with software from the Bioconductor project, where I also contributed some packages.
You can reach me via:
E-Mail:
Phone: 06131 - 17 8108
You can find my personal website at https://federicomarini.github.io
Education
- PhD in Biostatistics/Bioinformatics, 2017 - University Medical Center Mainz, IMBEI
- MSc in Biomedical Engineering, 2008 - Politecnico di Milano
- BSc in Biomedical Engineering, 2005 - Politecnico di Milano
Projects
Being a Virchow Fellow at the Center for Thrombosis and Hemostasis, I can sit at the interface with many other disciplines and focus on translational bioinformatics.
With platelets transcriptomics as a use case, I am particularly interested to develop methodologies and implement methods (software packages, web applications, ...) for interactive and reproducible research in RNA-seq analysis and other -omics data.
- Plateletopedia: Understanding platelet transcriptomics, one dataset after the other, with different bioinformatics perspectives.
Interests/Skills
- Bioinformatics and Biostatistics
- Transcriptomics & Genomics
- R, Bioconductor, Shiny
- Interactive & reproducible analyses
- Platelets!
Publications
Here's a link to PubMed for all my publications (warning: omonimy cases ahead, for clarity see my full publication list in Google Scholar).
Software
You can find some of the packages I developed on Bioconductor:
- pcaExplorer: Interactive Visualization of RNA-seq Data Using a Principal Components Approach
- ideal: Interactive Differential Expression AnaLysis
- iSEE: Interactive SummarizedExperiment Explorer, jointly with Charlotte Soneson, Aaron Lun, Kevin Rue-Albrecht
Other software packages can be found online at my GitHub page, https://github.com/federicomarini.