Erik L. L. Sonnhammer

Science for Life Laboratory — Sweden

Biochemistry, Genetics and Molecular Biology · Life Sciences

62h-index64.2kcitations222works15.12yr avg
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Research Topics

Genomics and Phylogenetic Studies(77), Bioinformatics and Genomic Networks(59), RNA and protein synthesis mechanisms(50), Machine Learning in Bioinformatics(46), Gene expression and cancer classification(37)

Publications220 total

GeneSNAKE: A Python package for simulation of gene regulatory networks and perturbation-induced expression data
Bioinformatics Advances·2026Open Access
GeneSNAKE: a Python package for benchmarking and simulation of gene regulatory networks and perturbation-induced expression data
2025Open Access
Quest for Orthologs in the era of Data Deluge and AI: Challenges and Innovations in Orthology Prediction and Data Integration
Journal of Molecular Evolution·2025· 3 citedOpen Access
BiGSM: Bayesian inference of gene regulatory network via sparse modelling
Bioinformatics·2025Open Access
Topology-based metrics for finding the optimal sparsity in gene regulatory network inference
Bioinformatics·2025Open Access
The FunCoup Cytoscape App: multi-species network analysis and visualization
Bioinformatics·2024· 6 citedOpen Access
The Pfam protein families database: embracing AI/ML
Nucleic Acids Research·2024· 178 citedOpen Access
FunCoup 6: advancing functional association networks across species with directed links and improved user experience
Nucleic Acids Research·2024· 4 citedOpen Access
The FunCoup Cytoscape App: multi-species network analysis and visualization
2024· 1 citedOpen Access
Quest for Orthologs in the Era of Biodiversity Genomics
Genome Biology and Evolution·2024· 16 citedOpen Access
New developments for the Quest for Orthologs benchmark service
NAR Genomics and Bioinformatics·2024· 10 citedOpen Access
FunCoup 6: advancing functional association networks across species with directed links and improved user experience
2024· 1 cited
Comprehensive analysis of the RBP regulome reveals functional modules and drug candidates in liver cancer
2024· 1 citedOpen Access
GeneSPIDER2: large scale GRN simulation and benchmarking with perturbed single-cell data
NAR Genomics and Bioinformatics·2024· 4 citedOpen Access
Benchmarking enrichment analysis methods with the disease pathway network
Briefings in Bioinformatics·2024· 17 citedOpen Access
FunCoup 6: advancing functional association networks across species with directed links and improved user experience
Faculty of 1000 Research Ltd·2024Open Access
Benchmarking enrichment analysis methods with the disease pathway network
2023Open Access
Data from A Novel ACKR2-Dependent Role of Fibroblast-Derived CXCL14 in Epithelial-to-Mesenchymal Transition and Metastasis of Breast Cancer
2023Open Access
Supplementary Data from A Novel ACKR2-Dependent Role of Fibroblast-Derived CXCL14 in Epithelial-to-Mesenchymal Transition and Metastasis of Breast Cancer
2023Open Access
Supplementary Figure Legends from A Novel ACKR2-Dependent Role of Fibroblast-Derived CXCL14 in Epithelial-to-Mesenchymal Transition and Metastasis of Breast Cancer
2023Open Access
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Frequent Co-authors

Alex Bateman(8), ROBERT FINN(7), Sean R. Eddy(7), Sofia K. Forslund(7), Jaina Mistry(6), Richard Durbin(6), Anders Krogh(5), Lukas Käll(5), John Tate(4), Timo Lassmann(4), Gunnar von Heijne(3), Gustavo A Salazar(3), Silvio C. E. Tosatto(3), Andreas Heger(3), Liisa Holm(3), Penny Coggill(3), Goran Ceric(3), Gabriel Östlund(3), Oliver Frings(3), Alan Sousa da Silva(3)