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134 results
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Automatic assessment of alignment quality.
Lassmann T, Sonnhammer EL. Lassmann T, et al. Among authors: sonnhammer el. Nucleic Acids Res. 2005 Dec 16;33(22):7120-8. doi: 10.1093/nar/gki1020. Print 2005. Nucleic Acids Res. 2005. PMID: 16361270 Free PMC article.
FunCoup 4: new species, data, and visualization.
Ogris C, Guala D, Sonnhammer ELL. Ogris C, et al. Nucleic Acids Res. 2018 Jan 4;46(D1):D601-D607. doi: 10.1093/nar/gkx1138. Nucleic Acids Res. 2018. PMID: 29165593 Free PMC article.
A novel method for crosstalk analysis of biological networks: improving accuracy of pathway annotation.
Ogris C, Guala D, Helleday T, Sonnhammer EL. Ogris C, et al. Among authors: sonnhammer el. Nucleic Acids Res. 2017 Jan 25;45(2):e8. doi: 10.1093/nar/gkw849. Epub 2016 Sep 22. Nucleic Acids Res. 2017. PMID: 27664219 Free PMC article.
Statistical assessment of crosstalk enrichment between gene groups in biological networks.
McCormack T, Frings O, Alexeyenko A, Sonnhammer EL. McCormack T, et al. Among authors: sonnhammer el. PLoS One. 2013;8(1):e54945. doi: 10.1371/journal.pone.0054945. Epub 2013 Jan 23. PLoS One. 2013. PMID: 23372799 Free PMC article.
Global networks of functional coupling in eukaryotes from comprehensive data integration.
Alexeyenko A, Sonnhammer EL. Alexeyenko A, et al. Among authors: sonnhammer el. Genome Res. 2009 Jun;19(6):1107-16. doi: 10.1101/gr.087528.108. Epub 2009 Feb 25. Genome Res. 2009. PMID: 19246318 Free PMC article.
siRNA specificity searching incorporating mismatch tolerance data.
Chalk AM, Sonnhammer EL. Chalk AM, et al. Among authors: sonnhammer el. Bioinformatics. 2008 May 15;24(10):1316-7. doi: 10.1093/bioinformatics/btn121. Epub 2008 Apr 7. Bioinformatics. 2008. PMID: 18397893
PathwAX: a web server for network crosstalk based pathway annotation.
Ogris C, Helleday T, Sonnhammer EL. Ogris C, et al. Among authors: sonnhammer el. Nucleic Acids Res. 2016 Jul 8;44(W1):W105-9. doi: 10.1093/nar/gkw356. Epub 2016 May 5. Nucleic Acids Res. 2016. PMID: 27151197 Free PMC article.
Optimal sparsity criteria for network inference.
Tjärnberg A, Nordling TE, Studham M, Sonnhammer EL. Tjärnberg A, et al. Among authors: sonnhammer el. J Comput Biol. 2013 May;20(5):398-408. doi: 10.1089/cmb.2012.0268. J Comput Biol. 2013. PMID: 23641867
Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER.
Wistrand M, Sonnhammer EL. Wistrand M, et al. Among authors: sonnhammer el. BMC Bioinformatics. 2005 Apr 15;6:99. doi: 10.1186/1471-2105-6-99. BMC Bioinformatics. 2005. PMID: 15831105 Free PMC article.
Kalign, Kalignvu and Mumsa: web servers for multiple sequence alignment.
Lassmann T, Sonnhammer EL. Lassmann T, et al. Among authors: sonnhammer el. Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W596-9. doi: 10.1093/nar/gkl191. Nucleic Acids Res. 2006. PMID: 16845078 Free PMC article.
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