Investigation of protein family relationships with deep learning.

Autor: Ponamareva I; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, United Kingdom.; Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom., Andreeva A; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, United Kingdom., Bileschi ML; Google Research, Cambridge, MA 02142, United States., Colwell L; Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom.; Google Research, Cambridge, MA 02142, United States., Bateman A; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, United Kingdom.

Publikováno v: Bioinformatics advances [Bioinform Adv] 2024 Sep 18; Vol. 4 (1), pp. vbae132. Date of Electronic Publication: 2024 Sep 18 (Print Publication: 2024).

InterPro in 2022.

Autor: Paysan-Lafosse T; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK., Blum M; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK., Chuguransky S; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK., Grego T; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK., Pinto BL; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK., Salazar GA; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK., Bileschi ML; Google Research, Brain team, Cambridge, MA, USA., Bork P; European Molecular Biology Laboratory, Structural and Computational Biology Unit, Meyerhofstraße 1, 69117 Heidelberg, Germany.; Yonsei Frontier Lab (YFL), Yonsei University, 03722 Seoul, South Korea.; Department of Bioinformatics, Biocenter, University of Würzburg, 97074 Würzburg, Germany., Bridge A; Swiss-Prot Group, Swiss Institute of Bioinformatics, CMU, 1 rue Michel Servet, CH-1211, Geneva 4, Switzerland., Colwell L; Google Research, Brain team, Cambridge, MA, USA.; Department of Chemistry, University of Cambridge, Cambridge, UK., Gough J; Medical Research Council Laboratory of Molecular Biology, Cambridge Biomedical Campus, Francis Crick Ave, Trumpington, Cambridge CB2 0QH, UK., Haft DH; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD 20894, USA., Letunić I; Biobyte Solutions GmbH, Bothestr 142, 69126 Heidelberg, Germany., Marchler-Bauer A; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD 20894, USA., Mi H; Division of Bioinformatics, Department of Preventive Medicine, University of Southern California, Los Angeles, CA 90033, USA., Natale DA; Protein Information Resource, Georgetown University Medical Center, Washington, DC 20007, USA., Orengo CA; Department of Structural and Molecular Biology, University College London, Gower St, Bloomsbury, London WC1E 6BT, UK., Pandurangan AP; Medical Research Council Laboratory of Molecular Biology, Cambridge Biomedical Campus, Francis Crick Ave, Trumpington, Cambridge CB2 0QH, UK.; Department of Biochemistry, Sanger Building, University of Cambridge, Cambridge, UK., Rivoire C; Swiss-Prot Group, Swiss Institute of Bioinformatics, CMU, 1 rue Michel Servet, CH-1211, Geneva 4, Switzerland., Sigrist CJA; Swiss-Prot Group, Swiss Institute of Bioinformatics, CMU, 1 rue Michel Servet, CH-1211, Geneva 4, Switzerland., Sillitoe I; Department of Structural and Molecular Biology, University College London, Gower St, Bloomsbury, London WC1E 6BT, UK., Thanki N; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD 20894, USA., Thomas PD; Division of Bioinformatics, Department of Preventive Medicine, University of Southern California, Los Angeles, CA 90033, USA., Tosatto SCE; Department of Biomedical Sciences, University of Padua, via U. Bassi 58/b, 35131 Padua, Italy., Wu CH; Protein Information Resource, Georgetown University Medical Center, Washington, DC 20007, USA.; Center for Bioinformatics and Computational Biology and Protein Information Resource, University of Delaware, Newark, DE 19711, USA., Bateman A; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK.

Publikováno v: Nucleic acids research [Nucleic Acids Res] 2023 Jan 06; Vol. 51 (D1), pp. D418-D427.

Using deep learning to annotate the protein universe.

Autor: Bileschi ML; Google Research, Cambridge, MA, USA. mlbileschi@google.com., Belanger D; Google Research, Cambridge, MA, USA., Bryant DH; Google Research, Cambridge, MA, USA., Sanderson T; Google Research, Cambridge, MA, USA.; The Francis Crick Institute, London, UK., Carter B; MIT Computer Science and Artificial Intelligence Laboratory, Cambridge, MA, USA., Sculley D; Google Research, Cambridge, MA, USA., Bateman A; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Hinxton, UK., DePristo MA; Google Research, Cambridge, MA, USA.; BigHat Biosciences, San Mateo, CA, USA., Colwell LJ; Google Research, Cambridge, MA, USA. lcolwell@google.com.; Department of Chemistry, University of Cambridge, Cambridge, UK. lcolwell@google.com.

Publikováno v: Nature biotechnology [Nat Biotechnol] 2022 Jun; Vol. 40 (6), pp. 932-937. Date of Electronic Publication: 2022 Feb 21.