Author

Ralf Schmidt

University of Basel

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Systems Biology· 2 Bioengineering· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 3 Research Focus:differential expression· 3 Research Focus:gene regulatory network inference· 3 Organism:human· 3 Approach:statistical model· 3 Research Focus:benchmarking· 1 Research Focus:cell-cell communication· 1 Approach:experimental assay· 1

Frequent Co-Authors

Andreas J GruberiD· 3 shared Mihaela ZavolaniD· 3 shared Erik van NimwegeniD· 2 shared Georges Martin· 2 shared Souvik GhoshiD· 2 shared Andrada Iulia VeleaiD· 1 shared Andreas R Gruber· 1 shared Anna PakiD· 1 shared

Activity by Year

2015-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 20 mutual co-author links

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3 shared papersSystems Biology

Andreas J GruberORCID

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4 papers

Recent·Most cited

Thermoplastic polyurethane as a base material for soft, high-density neural interfaces

Anna Pak, Andrada Iulia Velea, Timothy Hosman, Joshua Wilson, Raphael Panskus, Manuel Seckel, Pablo de Anta Dardagan, Ralf Schmidt, Domonkos Horváth, Kinga Tóth, Domokos Meszéna, Astrid Gollhardt, Nasim Bakhshaee Babaroud, Barbara Pahl, Eleni Zingkou, , Vasiliki Giagka

This paper introduces thermoplastic polyurethane (TPU) as a base material for soft, high-density neural interfaces and demonstrates its fabrication and biocompatibility.

bioRxiv · Oct 13, 2026 · PreprintBioengineering

Frequent co-regulation of splicing and polyadenylation by RNA-binding proteins inferred with MAPP

Maciej Bąk, Erik van Nimwegen, Ralf Schmidt, Mihaela Zavolan, Andreas J Gruber

The paper introduces MAPP, a method to infer RNA-binding protein impacts on pre-mRNA processing from RNA-seq data, revealing co-regulation of splicing and polyadenylation.

bioRxiv · Jan 9, 2022 · PreprintSystems Biology

Discovery of physiological and cancer-related regulators of 3’ UTR processing with KAPAC

Andreas J Gruber, Ralf Schmidt, Souvik Ghosh, Georges Martin, Erik van Nimwegen, Mihaela Zavolan

The paper develops PAQR and KAPAC to analyze PAS use and motif activities in RNA-seq data, identifying Polypyrimidine tract binding protein 1 as a regulator of PAS choice in glioblastoma.

Genome biology · Mar 28, 2018Peer-reviewedSystems Biology

A comprehensive analysis of 3′ end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogenous ribonucleoprotein C on cleavage and polyadenylation

Andreas J Gruber, Ralf Schmidt, Andreas R Gruber, Georges Martin, Souvik Ghosh, Manuel Belmadani, Walter Keller, Mihaela Zavolan

The paper analyzes 3′ end sequencing data to identify novel polyadenylation signals and demonstrates HNRNPC's repressive role in poly(A) site usage and 3′ end processing.

bioRxiv · Nov 26, 2015Genomics