Author

Sebastian Hoersch

Novartis (Switzerland)

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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Bioinformatics· 4 Genomics· 1

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 4 Approach:benchmark study· 3 Assay:bulk RNA-seq· 3 Research Focus:differential expression· 2 Research Focus:perturbation response prediction· 2 Approach:statistical model· 2 Assay:ChIP-seq· 1 Approach:deep learning· 1

Frequent Co-Authors

Elizaveta M. SolovyevaiD· 3 shared Bulent Ataman· 2 shared James Boylan· 2 shared Jeremy L. JenkinsiD· 2 shared Murthy V DevarakondaiD· 2 shared Theophile Bouiller· 2 shared Xiong LiuiD· 2 shared Alejandro ReyesiD· 1 shared

Activity by Year

2019-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 22 mutual co-author links

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3 shared papersBioinformatics

Elizaveta M. SolovyevaORCID

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Author profile →

5 papers

Recent·Most cited

Single Cell Foundation Models Evaluation (scFME) for In-Silico Perturbation

James Boylan, Elizaveta M. Solovyeva, Theophile Bouiller, Xiong Liu, Sebastian Hoersch, Bulent Ataman, Jeremy L. Jenkins, Murthy V Devarakonda

The paper introduces scFME, a framework to evaluate fine-tuned foundation models for in-silico perturbation, showing its effectiveness in characterizing model performance.

bioRxiv · Sep 22, 2025 · PreprintBioinformatics

Evaluating Foundation Models for In-Silico Perturbation

Xiong Liu, James Boylan, Theophile Bouiller, Elizaveta M. Solovyeva, Bulent Ataman, Sebastian Hoersch, Jeremy L. Jenkins, Murthy V Devarakonda

This paper evaluates foundation models for in-silico perturbation using a novel framework, revealing differences in their performance across biological contexts and gene categories.

bioRxiv · May 11, 2025 · PreprintBioinformatics

Benchmarking tools for transcription factor prioritization

Leonor Schubert Santana, Alejandro Reyes, Sebastian Hoersch, Enrico Ferrero, Christian Kolter, Swann Gaulis, Sebastian Steinhauser

This study benchmarks nine TF prioritization tools using H3K27ac ChIP-seq data from 84 perturbation experiments, identifying three top-performing tools.

Computational and Structural Biotechnology Journal · May 11, 2024Peer-reviewedBioinformatics

Integrative proteogenomics for differential expression and splicing variation in a DM1 mouse model

Elizaveta M. Solovyeva, Stephan Utzinger, Alexandra Vissières, Joanna Mitchelmore, Erik Ahrné, Erwin Hermes, Tania Poetsch, Marie Ronco, Michael Bidinosti, Claudia Merkl, Fabrizio C. Serluca, James D. Fessenden, Ulrike Naumann, Hans Voshol, Angelika S. Meyer, Sebastian Hoersch

The paper uses an integrative proteogenomics approach to analyze splicing variation and differential expression in a DM1 mouse model, identifying both known and novel aberrant splicing events.

Molecular & Cellular Proteomics · Nov 21, 2023Peer-reviewedGenomics

Gene-signatures predict biologically relevant dose-response potencies in phenotypic assays

Steffen Renner, Christian Bergsdorf, Rochdi Bouhelal, Magdalena Koziczak‐Holbro, Andrea Marco Amati, Valerie Techer-Etienne, Ludivine Flotte, Nicole Reymann, Karen Kapur, Sebastian Hoersch, Edward J. Oakeley, Ansgar Schuffenhauer, Hanspeter Gubler, Eugen Lounkine, Pierre J. Farmer

The paper introduces a method to quantify gene-signature dose-response potencies as EC50 and IC50 values, validated using two signaling pathways and showing high correlation with orthogonal readouts.

bioRxiv · Oct 9, 2019 · PreprintBioinformatics