Federico Marini

13 papers Journal 12
YearRankTypeTitle / Venue / Authors
2026 J jnl
CIA: unveiling cellular identities with cluster-independent annotation in single-cell RNA sequencing data for comprehensive cell type characterization and exploration.
BMC Bioinform.
Ivan Ferrari, Mattia Battistella, Francesca Vincenti, Andrea Gobbini, Federico Marini, Samuele Notarbartolo, Jole Costanza, Stefano Biffo, Renata M. Grifantini, Sergio Abrignani, Eugenia Galeota
2026 J jnl
GeDi: simplifying gene set distances for enhanced omics interpretation in R/Bioconductor.
BMC Bioinform.
Annekathrin Silvia Nedwed, Arsenij Ustjanzew, Najla Abassi, Leon Dammer, Alicia Schulze, Sara Salome Helbich, Michael Delacher, Konstantin Strauch, Federico Marini
2025 J jnl
Predicting GD2 expression across cancer types by the integration of pathway topology and transcriptome data.
Frontiers Bioinform.
Arsenij Ustjanzew, Federico Marini, Saskia Wagner, Arthur Wingerter, Roger Sandhoff, Jörg Faber, Claudia Paret
2022 J jnl
Ten simple rules to host an inclusive conference.
PLoS Comput. Biol.
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
2021 J jnl
GeneTonic: an R/Bioconductor package for streamlining the interpretation of RNA-seq data.
BMC Bioinform.
Federico Marini, Annekathrin Ludt, Jan Linke, Konstantin Strauch
2021 J jnl
TREND-DB - a transcriptome-wide atlas of the dynamic landscape of alternative polyadenylation.
Nucleic Acids Res.
Federico Marini, Denise Scherzinger, Sven Danckwardt
2021 J jnl
cbpManager: a web application to streamline the integration of clinical and genomic data in cBioPortal to support the Molecular Tumor Board.
BMC Medical Informatics Decis. Mak.
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
2020 J jnl
annoFuse: an R Package to annotate, prioritize, and interactively explore putative oncogenic RNA fusions.
BMC Bioinform.
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
2020 J jnl
ideal: an R/Bioconductor package for interactive differential expression analysis.
BMC Bioinform.
Federico Marini, Jan Linke, Harald Binder
2019 J jnl
pcaExplorer: an R/Bioconductor package for interacting with RNA-seq principal components.
BMC Bioinform.
Federico Marini, Harald Binder
2018 J jnl
iSEE: Interactive SummarizedExperiment Explorer.
F1000Research
Kevin C. Rue-Albrecht, Federico Marini, Charlotte Soneson, Aaron T. L. Lun
2017 — —
Development of applications for interactive, comprehensive and reproducible data analysis = Entwicklung von Applikationen für interaktive, umfassende und reproduzierbare Datenanalyse.
Federico Marini
2016 J jnl
Systematically evaluating interfaces for RNA-seq analysis from a life scientist perspective.
Briefings Bioinform.
Alicia Poplawski, Federico Marini, Moritz Hess, Tanja Zeller, Johanna Mazur, Harald Binder