Federico Marini

According to our database, Federico Marini authored at least 15 papers between 2016 and 2026.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2026

GeDi: simplifying gene set distances for enhanced omics interpretation in R/Bioconductor.

Annekathrin Silvia Nedwed, Arsenij Ustjanzew, Najla Abassi, Leon Dammer, Alicia Schulze, Sara Salome Helbich, Michael Delacher, Konstantin Strauch, Federico Marini

BMC Bioinform., December, 2026

CIA: unveiling cellular identities with cluster-independent annotation in single-cell RNA sequencing data for comprehensive cell type characterization and exploration.

Ivan Ferrari, Mattia Battistella, Francesca Vincenti, Andrea Gobbini, Federico Marini, Samuele Notarbartolo, Jole Costanza, Stefano Biffo, Renata M. Grifantini, Sergio Abrignani, Eugenia Galeota

BMC Bioinform., December, 2026

DeeDeeExperiment: building an infrastructure for integrating and managing omics data analysis results in R/Bioconductor.

Najla Abassi, Lea Schwarz, Edoardo Filippi, Federico Marini

Bioinform., 2026

2025

Predicting GD2 expression across cancer types by the integration of pathway topology and transcriptome data.

Arsenij Ustjanzew, Federico Marini, Saskia Wagner, Arthur Wingerter, Roger Sandhoff, Jörg Faber, Claudia Paret

Frontiers Bioinform., 2025

2022

Ten simple rules to host an inclusive conference.

Rocío Joo, Andrea Sánchez-Tapia, Sara Mortara, Yanina Bellini Saibene, Heather L. Turner, Dorothea Hug Peter, Natalia Soledad Morandeira, Matt Bannert, Batool Almazrouq, Elizabeth Hare, Laura Ación, Juan Pablo Narváez-Gómez, Marcela Alfaro Cordoba, Federico Marini, Rita Giordano, Silvia Canelón, Anicet Ebou, Adithi R. Upadhya, Joselyn Chávez, Janani Ravi

PLoS Comput. Biol., 2022

<i>SimBu</i>: bias-aware simulation of bulk RNA-seq data with variable cell-type composition.

Alexander Dietrich, Gregor Sturm, Lorenzo Merotto, Federico Marini, Francesca Finotello, Markus List

Bioinform., 2022

2021

TREND-DB - a transcriptome-wide atlas of the dynamic landscape of alternative polyadenylation.

Federico Marini, Denise Scherzinger, Sven Danckwardt

Nucleic Acids Res., 2021

cbpManager: a web application to streamline the integration of clinical and genomic data in cBioPortal to support the Molecular Tumor Board.

Arsenij Ustjanzew, Alexander Desuki, Christoph Ritzel, Alina Corinna Dolezilek, Daniel-Christoph Wagner, Jan Christoph, Philipp Unberath, Thomas Kindler, Jörg Faber, Federico Marini, Torsten Panholzer, Claudia Paret

BMC Medical Informatics Decis. Mak., 2021

GeneTonic: an R/Bioconductor package for streamlining the interpretation of RNA-seq data.

Federico Marini, Annekathrin Ludt, Jan Linke, Konstantin Strauch

BMC Bioinform., 2021

2020

ideal: an R/Bioconductor package for interactive differential expression analysis.

Federico Marini, Jan Linke, Harald Binder

BMC Bioinform., 2020

annoFuse: an R Package to annotate, prioritize, and interactively explore putative oncogenic RNA fusions.

Krutika S. Gaonkar, Federico Marini, Komal S. Rathi, Payal Jain, Yuankun Zhu, Nicholas A. Chimicles, Miguel A. Brown, Ammar S. Naqvi, Bo Zhang, Phillip B. Storm, John M. Maris, Pichai Raman, Adam C. Resnick, Konstantin Strauch, Jaclyn N. Taroni, Jo Lynne Rokita

BMC Bioinform., 2020

2019

pcaExplorer: an R/Bioconductor package for interacting with RNA-seq principal components.

Federico Marini, Harald Binder

BMC Bioinform., 2019

2018

iSEE: Interactive SummarizedExperiment Explorer.

Kevin C. Rue-Albrecht, Federico Marini, Charlotte Soneson, Aaron T. L. Lun

F1000Research, 2018

2017

Development of applications for interactive, comprehensive and reproducible data analysis = Entwicklung von Applikationen für interaktive, umfassende und reproduzierbare Datenanalyse.

Federico Marini

PhD thesis, 2017

2016

Systematically evaluating interfaces for RNA-seq analysis from a life scientist perspective.

Alicia Poplawski, Federico Marini, Moritz Hess, Tanja Zeller, Johanna Mazur, Harald Binder

Briefings Bioinform., 2016