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Térmeg, A.* ; Storozhuk, V.* ; Kliesmete, Z.* ; Edenhofer, F.C.* ; Geuder, J.* ; Dietl, T. ; Vieth, B.* ; Janssen, P.* ; Richter, D.* ; Bonev, B. ; Hellmann, I.*

CroCoNet: A framework for the quantitative comparison of gene regulatory networks across species.

Genome Biol. 27:228 (2026)
Verlagsversion Forschungsdaten DOI PMC
Open Access Gold
Creative Commons Lizenzvertrag
To understand phenotypic evolution, it is essential to investigate the underlying gene regulatory networks (GRNs). However, most comparative GRN analyzes remain descriptive due to the low signal-to-noise ratio inherent in single-cell transcriptomics data. To address this, we introduce CroCoNet (Cross-species Comparison of Networks), an R-package for quantitative GRN comparison across species. CroCoNet builds comparable network modules centered on putative regulators and compares module topologies within and between species, distinguishing true evolutionary divergence from technical and biological confounders. We demonstrate its utility by comparing early neural differentiation across primates and validating results with a CRISPRi analysis of the diverged POU5F1 module.
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Publikationstyp Artikel: Journalartikel
Dokumenttyp Wissenschaftlicher Artikel
Schlagwörter Gene Regulatory Network ; Divergence (linguistics) ; Human Genetics ; Gene ; Network Topology ; Regulatory Sequence ; Transcriptome ; Network Analysis; Cell Fate; Expression; Evolution; Progenitor; Differentiation; Induction; Inference; Binding; Pax6; Es
ISSN (print) / ISBN 1474-760X
e-ISSN 1465-6906
Zeitschrift Genome Biology
Quellenangaben Band: 27, Heft: 1, Seiten: , Artikelnummer: 228 Supplement: ,
Verlag Springer
Verlagsort Campus, 4 Crinan St, London N1 9xw, England
Begutachtungsstatus Peer reviewed
Institut(e) Research Unit Brain Epigenomics (BEG)
Förderungen BioHPC hosted at Leibniz Rechenzentrum Munich funded by the DFG
Deutsche Forschungsgemeinschaft (DFG)
European Research Council Consolidator Grant