Dr. rer. physiol. Federico Marini

Research Associate | Department of Genomic Statistics and Bioinformatics

Building: Bonifazius-Turm A
21. floor, room 10
Phone: +49 (0) 6131 17-8108 or +49 0(6) 131 39-38711
Mail: marinif@uni-mainz.de




Research Interests

  • Transcriptomics & Genomics
  • Data Visualization
  • Interactive & Reproducible Research

Projects and Activities

  • TRP X35
  • Virchow Fellowship
  • Bioinformatics Workshops
  • Organizer of the Summer School in Bioinformatics

Short CV

Professional career
  • Since 2020 - Deputy Head of the Statistical Genomics and Bioinformatics Division, IMBEI, Mainz - Germany
  • Since 2018 - Postdoctoral Scientist (Virchow Fellow), IMBEI & CTH, University Medical Center Mainz - Germany
  • Since 2017 - Deputy Head of the Biostatistics and Bioinformatics Division, IMBEI, Mainz - Germany, and Joint Head of the Core Facility Bioinformatics - BIUM(MZ), University Medical Center Mainz - Germany
  • 2013-2017 - PhD Student - Bioinformatics, IMBEI, Mainz - Germany/Member of the Core Facility Bioinformatics - BIUM(MZ)
  • 2012-2013 - Research Fellow - Computational Biology, IMB Mainz - Germany
  • 2009-2011 - Research Fellow - Biomedical Engineer & Bioinformatician, IRCCS Eugenio Medea, Bosisio Parini (LC) - Italy
University training and degrees

  • 2013-2017 - PhD in Biostatistics/Bioinformatics, IMBEI - University Medical Center Mainz
  • 2005-2008 - Master of Science in Biomedical Engineering, Politecnico di Milano, Milan - Italy
  • 2002-2005 - Bachelor in Biomedical Engineering, Politecnico di Milano, Milan - Italy
Other professional activities
  • Member of the GMDS
  • Head of the Program Committee, eRum 2020
  • Organizing Committee, EuroBioc2020


Publications

ORCID

Google Scholar


Selected publications:

- Marini F, Scherzinger D, Danckwardt S. TREND-DB-a transcriptome-wide atlas of the dynamic landscape of alternative polyadenylation. Nucleic Acids Res. 2021 Jan 8;49(D1):D243-D253. doi: 10.1093/nar/gkaa722. PubMed PMID: 32976578; PubMed Central PMCID: PMC7778938.
- Marini F, Linke J, Binder H. ideal: an R/Bioconductor package for interactive differential expression analysis. BMC Bioinformatics. 2020 Dec 9;21(1):565. doi: 10.1186/s12859-020-03819-5. PubMed PMID: 33297942; PubMed Central PMCID: PMC7724894.
- Amezquita RA, Lun ATL, Becht E, Carey VJ, Carpp LN, Geistlinger L, Marini F, Rue-Albrecht K, Risso D, Soneson C, Waldron L, Pagès H, Smith ML, Huber W, Morgan M, Gottardo R, Hicks SC. Orchestrating single-cell analysis with Bioconductor. Nat Methods. 2020 Feb;17(2):137-145. doi: 10.1038/s41592-019-0654-x. Epub 2019 Dec 2. Review. PubMed PMID: 31792435; PubMed Central PMCID: PMC7358058.
- Marini F, Binder H. pcaExplorer: an R/Bioconductor package for interacting with RNA-seq principal components. BMC Bioinformatics. 2019 Jun 13;20(1):331. doi: 10.1186/s12859-019-2879-1. PubMed PMID: 31195976; PubMed Central PMCID: PMC6567655.
- Rue-Albrecht K, Marini F, Soneson C, Lun ATL. iSEE: Interactive SummarizedExperiment Explorer. F1000Res. 2018;7:741. doi: 10.12688/f1000research.14966.1. eCollection 2018. PubMed PMID: 30002819; PubMed Central PMCID: PMC6013759.



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