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Page 1
Viruses.STRING: A Virus-Host Protein-Protein Interaction Database.
Cook HV, Doncheva NT, Szklarczyk D, von Mering C, Jensen LJ. Cook HV, et al. Viruses. 2018 Sep 23;10(10):519. doi: 10.3390/v10100519. Viruses. 2018. PMID: 30249048 Free PMC article.
The STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible.
Szklarczyk D, Morris JH, Cook H, Kuhn M, Wyder S, Simonovic M, Santos A, Doncheva NT, Roth A, Bork P, Jensen LJ, von Mering C. Szklarczyk D, et al. Among authors: cook h. Nucleic Acids Res. 2017 Jan 4;45(D1):D362-D368. doi: 10.1093/nar/gkw937. Epub 2016 Oct 18. Nucleic Acids Res. 2017. PMID: 27924014 Free PMC article.
An Integrative Approach to Virus-Host Protein-Protein Interactions.
Cook HV, Jensen LJ. Cook HV, et al. Methods Mol Biol. 2018;1819:175-196. doi: 10.1007/978-1-4939-8618-7_8. Methods Mol Biol. 2018. PMID: 30421404
A Guide to Dictionary-Based Text Mining.
Cook HV, Jensen LJ. Cook HV, et al. Methods Mol Biol. 2019;1939:73-89. doi: 10.1007/978-1-4939-9089-4_5. Methods Mol Biol. 2019. PMID: 30848457
eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences.
Huerta-Cepas J, Szklarczyk D, Forslund K, Cook H, Heller D, Walter MC, Rattei T, Mende DR, Sunagawa S, Kuhn M, Jensen LJ, von Mering C, Bork P. Huerta-Cepas J, et al. Among authors: cook h. Nucleic Acids Res. 2016 Jan 4;44(D1):D286-93. doi: 10.1093/nar/gkv1248. Epub 2015 Nov 17. Nucleic Acids Res. 2016. PMID: 26582926 Free PMC article.
eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses.
Huerta-Cepas J, Szklarczyk D, Heller D, Hernández-Plaza A, Forslund SK, Cook H, Mende DR, Letunic I, Rattei T, Jensen LJ, von Mering C, Bork P. Huerta-Cepas J, et al. Among authors: cook h. Nucleic Acids Res. 2019 Jan 8;47(D1):D309-D314. doi: 10.1093/nar/gky1085. Nucleic Acids Res. 2019. PMID: 30418610 Free PMC article.
miRandola 2017: a curated knowledge base of non-invasive biomarkers.
Russo F, Di Bella S, Vannini F, Berti G, Scoyni F, Cook HV, Santos A, Nigita G, Bonnici V, Laganà A, Geraci F, Pulvirenti A, Giugno R, De Masi F, Belling K, Jensen LJ, Brunak S, Pellegrini M, Ferro A. Russo F, et al. Among authors: cook hv. Nucleic Acids Res. 2018 Jan 4;46(D1):D354-D359. doi: 10.1093/nar/gkx854. Nucleic Acids Res. 2018. PMID: 29036351 Free PMC article.
Sigma factors in a thousand E. coli genomes.
Cook H, Ussery DW. Cook H, et al. Environ Microbiol. 2013 Dec;15(12):3121-9. doi: 10.1111/1462-2920.12236. Epub 2013 Aug 29. Environ Microbiol. 2013. PMID: 23992563
Virulence genes in a probiotic E. coli product with a recorded long history of safe use.
Wassenaar TM, Zschüttig A, Beimfohr C, Geske T, Auerbach C, Cook H, Zimmermann K, Gunzer F. Wassenaar TM, et al. Among authors: cook h. Eur J Microbiol Immunol (Bp). 2015 Mar;5(1):81-93. doi: 10.1556/EUJMI-D-14-00039. Epub 2015 Mar 26. Eur J Microbiol Immunol (Bp). 2015. PMID: 25883796 Free PMC article.
Data generation and network reconstruction strategies for single cell transcriptomic profiles of CRISPR-mediated gene perturbations.
Holding AN, Cook HV, Markowetz F. Holding AN, et al. Among authors: cook hv. Biochim Biophys Acta Gene Regul Mech. 2020 Jun;1863(6):194441. doi: 10.1016/j.bbagrm.2019.194441. Epub 2019 Nov 20. Biochim Biophys Acta Gene Regul Mech. 2020. PMID: 31756390 Review.