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E. Sonnhammer · SciRah

Researcher profile · Semantic Scholar

E. Sonnhammer

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E. Sonnhammer — researcher profile on SciRah

h-index: 65
Works: 196
Citations: 73K

Most-cited papers

The Pfam protein families database
M. Punta, P. Coggill, R. Eberhardt, J. Mistry +12 more
2011Nucleic Acids Res.6,805 citations Open access
Semantic Scholar
Pfam: The protein families database in 2021
J. Mistry, S. Chuguransky, Lowri Williams, Matloob Qureshi +8 more
2020Nucleic Acids Res.5,634 citations Open access
Semantic Scholar
The Pfam protein families database in 2019
S. El-Gebali, J. Mistry, A. Bateman, S. Eddy +12 more
2018Nucleic Acids Res.4,066 citations Open access
Semantic Scholar
Pfam: the protein families database
R. Finn, A. Bateman, J. Clements, P. Coggill +9 more
2013Nucleic Acids Res.1,419 citations Open access
Semantic Scholar
InParanoid 7: new algorithms and tools for eukaryotic orthology analysis
Gabriella Östlund, Thomas Schmitt, K. Forslund, Tina Köstler +4 more
2009Nucleic Acids Res.677 citations Open access
Semantic Scholar
Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity
E. Berglund, J. Maaskola, N. Schultz, S. Friedrich +14 more
2018Nature Communications504 citations Open access
Semantic Scholar
InParanoid 8: orthology analysis between 273 proteomes, mostly eukaryotic
E. Sonnhammer, Gabriella Östlund
2014Nucleic Acids Res.455 citations Open access
Semantic Scholar
Global networks of functional coupling in eukaryotes from comprehensive data integration.
A. Alexeyenko, E. Sonnhammer
2009Genome Research165 citations Open access
Semantic Scholar
A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family
J. Carreras-Puigvert, M. Zitnik, A. Jemth, M. Carter +20 more
2017Nature Communications140 citations Open access
Semantic Scholar
Big data and other challenges in the quest for orthologs
E. Sonnhammer, T. Gabaldón, Alan W. Sousa da Silva, M. Martin +4 more
2014Bioinform.125 citations Open access
Semantic Scholar
FunCoup 3.0: database of genome-wide functional coupling networks
Thomas Schmitt, Christoph Ogris, E. Sonnhammer
2013Nucleic Acids Res.113 citations Open access
Semantic Scholar
A Novel ACKR2-Dependent Role of Fibroblast-Derived CXCL14 in Epithelial-to-Mesenchymal Transition and Metastasis of Breast Cancer
Elin Sjöberg, M. Meyrath, L. Milde, M. Herrera +9 more
2019Clinical Cancer Research101 citations Open access
Semantic Scholar
Toward community standards in the quest for orthologs
C. Dessimoz, T. Gabaldón, D. Roos, E. Sonnhammer +1 more
2012Bioinform.100 citations Open access
Semantic Scholar
Evolution of protein domain architectures.
K. Forslund, E. Sonnhammer
2012Methods in molecular biology94 citations Open access
Semantic Scholar
Joining forces in the quest for orthologs
T. Gabaldón, C. Dessimoz, J. Huxley-Jones, A. Vilella +2 more
2009Genome Biology89 citations Open access
Semantic Scholar
Advances and Applications in the Quest for Orthologs
N. Glover, C. Dessimoz, I. Ebersberger, Sofia K. Forslund +10 more
2019Molecular biology and evolution85 citations Open access
Semantic Scholar
Domain architecture conservation in orthologs
K. Forslund, Isabella Pekkari, E. Sonnhammer
2011BMC Bioinformatics70 citations Open access
Semantic Scholar
Letter to the Editor: SeqXML and OrthoXML: standards for sequence and orthology information
Thomas Schmitt, David N. Messina, Fabian Schreiber, E. Sonnhammer
2011Briefings Bioinform.67 citations Open access
Semantic Scholar
Network-based Identification of Novel Cancer Genes
Gabriella Östlund, Mats Lindskog, E. Sonnhammer
2009Molecular & Cellular Proteomics67 citations Open access
Semantic Scholar
Prognostic significance in breast cancer of a gene signature capturing stromal PDGF signaling.
Oliver Frings, M. Augsten, N. Tobin, J. Carlson +7 more
2013American Journal of Pathology65 citations Open access
Semantic Scholar
Comparative interactomics with Funcoup 2.0
A. Alexeyenko, Thomas Schmitt, Andreas Tjärnberg, Dmitri Guala +2 more
2011Nucleic Acids Res.59 citations Open access
Semantic Scholar
Dynamic Zebrafish Interactome Reveals Transcriptional Mechanisms of Dioxin Toxicity
A. Alexeyenko, D. Wassenberg, E. Lobenhofer, J. Yen +3 more
2010PLoS ONE54 citations Open access
Semantic Scholar
A large-scale benchmark of gene prioritization methods
Dimitri Guala, E. Sonnhammer
2017Scientific Reports51 citations Open access
Semantic Scholar
Hieranoid: hierarchical orthology inference.
Fabian Schreiber, E. Sonnhammer
2013Journal of Molecular Biology50 citations
Semantic Scholar
FunCoup 4: new species, data, and visualization
Christoph Ogris, Dimitri Guala, M. Kaduk, E. Sonnhammer
2017Nucleic Acids Res.49 citations Open access
Semantic Scholar
A novel method for crosstalk analysis of biological networks: improving accuracy of pathway annotation
Christoph Ogris, Dimitri Guala, T. Helleday, E. Sonnhammer
2016Nucleic Acids Research46 citations Open access
Semantic Scholar
Funcoup 5: Functional association networks in all domains of life, supporting directed links and tissue-specificity.
E. Persson, Miguel Castresana-Aguirre, Davide Buzzao, Dimitri Guala +1 more
2021Journal of Molecular Biology45 citations Open access
Semantic Scholar
Functional association networks as priors for gene regulatory network inference
Matthew Studham, Andreas Tjärnberg, Torbjörn E. M. Nordling, S. Nelander +1 more
2014Bioinform.45 citations Open access
Semantic Scholar
The Quest for Orthologs benchmark service and consensus calls in 2020
A. Altenhoff, Javier Garrayo-Ventas, Salvatore Cosentino, D. Emms +19 more
2020Nucleic Acids Res.44 citations Open access
Semantic Scholar
Orthology confers intron position conservation
Anna Henricson, K. Forslund, E. Sonnhammer
2010BMC Genomics43 citations Open access
Semantic Scholar
Statistical Assessment of Crosstalk Enrichment between Gene Groups in Biological Networks
Theodore McCormack, Oliver Frings, A. Alexeyenko, E. Sonnhammer
2013PLoS ONE42 citations Open access
Semantic Scholar
PathwAX: a web server for network crosstalk based pathway annotation
Christoph Ogris, T. Helleday, E. Sonnhammer
2016Nucleic Acids Res.40 citations Open access
Semantic Scholar
A genome-wide IR-induced RAD51 foci RNAi screen identifies CDC73 involved in chromatin remodeling for DNA repair
P. Herr, Cecilia Lundin, B. Evers, D. Ebner +7 more
2015Cell Discovery38 citations Open access
Semantic Scholar
Gearing up to handle the mosaic nature of life in the quest for orthologs
K. Forslund, Cécile Pereira, S. Capella-Gutiérrez, Alana Sousa da Silva +63 more
2017Bioinform.36 citations Open access
Semantic Scholar
MaxLink: network-based prioritization of genes tightly linked to a disease seed set
Dimitri Guala, Erik Sjölund, E. Sonnhammer
2014Bioinform.35 citations Open access
Semantic Scholar
Proteome Organization in a Genome-Reduced Bacterium
M. Wistrand, L. Kall, E. Sonnhammer
200935 citations
Semantic Scholar
The Quest for Orthologs orthology benchmark service in 2022
Yannis Nevers, T. Jones, Dushyanth Jyothi, Bethan Yates +35 more
2022Nucleic Acids Res.33 citations Open access
Semantic Scholar
MetaTM - a consensus method for transmembrane protein topology prediction
M. Klammer, David N. Messina, Thomas Schmitt, E. Sonnhammer
2009BMC Bioinformatics32 citations Open access
Semantic Scholar
Comparative analysis and unification of domain-domain interaction networks
Patrik Björkholm, E. Sonnhammer
2009Bioinform.31 citations Open access
Semantic Scholar
Domainoid: domain-oriented orthology inference
E. Persson, M. Kaduk, Sofia K. Forslund, E. Sonnhammer
2019BMC Bioinformatics29 citations Open access
Semantic Scholar
Genome-wide functional association networks: background, data & state-of-the-art resources
Dimitri Guala, Christoph Ogris, N. Müller, E. Sonnhammer
2019Briefings Bioinform.28 citations Open access
Semantic Scholar
Improved orthology inference with Hieranoid 2
M. Kaduk, E. Sonnhammer
2017Bioinform.25 citations Open access
Semantic Scholar
HieranoiDB: a database of orthologs inferred by Hieranoid
M. Kaduk, Christian Riegler, Oliver Lemp, E. Sonnhammer
2016Nucleic Acids Res.25 citations Open access
Semantic Scholar
Quality criteria for finding genes with high mRNA-protein expression correlation and coexpression correlation.
G. Ostlund, E. Sonnhammer
2012Gene25 citations
Semantic Scholar
DNA Methylation Levels in Mononuclear Leukocytes from the Mother and Her Child Are Associated with IgE Sensitization to Allergens in Early Life
N. Acevedo, G. Scala, S. Merid, P. Frumento +13 more
2021International Journal of Molecular Sciences24 citations Open access
Semantic Scholar
Optimal Sparsity Criteria for Network Inference
Andreas Tjärnberg, Torbjörn E. M. Nordling, Matthew Studham, E. Sonnhammer
2013J. Comput. Biol.24 citations
Semantic Scholar
The Chironomus tentans genome sequence and the organization of the Balbiani ring genes
A. Kutsenko, T. Svensson, B. Nystedt, J. Lundeberg +5 more
2014BMC Genomics23 citations Open access
Semantic Scholar
Uncovering cancer gene regulation by accurate regulatory network inference from uninformative data
Deniz Seçilmiş, Thomas Hillerton, D. Morgan, Andreas Tjärnberg +3 more
2020npj Systems Biology and Applications22 citations Open access
Semantic Scholar
GeneSPIDER - gene regulatory network inference benchmarking with controlled network and data properties.
Andreas Tjärnberg, D. Morgan, Matthew Studham, Torbjörn E. M. Nordling +1 more
2017Molecular Biosystems22 citations
Semantic Scholar
Avoiding pitfalls in L1-regularised inference of gene networks.
Andreas Tjärnberg, Torbjörn E. M. Nordling, Matthew Studham, S. Nelander +1 more
2015Molecular Biosystems21 citations
Semantic Scholar

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