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1.

EzMechanism: an automated tool to propose catalytic mechanisms of enzyme reactions.

Ribeiro, Antonio J M; Riziotis, Ioannis G; Tyzack, Jonathan D; Borkakoti, Neera; Thornton, Janet M.

Nat Methods; 20(10): 1516-1522, 2023 Oct.

Artículo en Inglés | MEDLINE | ID: mdl-37735566

2.

The mission to ensure continued funding for excellent basic research.

Lamond, Angus I; Dikic, Ivan; Nussenzweig, Andre; Müller, Christoph W; Thornton, Janet M; Yaffe, Michael B.

EMBO Rep; 24(7): e57498, 2023 Jul 05.

Artículo en Inglés | MEDLINE | ID: mdl-37227159

3.

Enzyme function and evolution through the lens of bioinformatics.

Ribeiro, Antonio J M; Riziotis, Ioannis G; Borkakoti, Neera; Thornton, Janet M.

Biochem J; 480(22): 1845-1863, 2023 11 29.

Artículo en Inglés | MEDLINE | ID: mdl-37991346

4.

GRaSP-web: a machine learning strategy to predict binding sites based on residue neighborhood graphs.

Santana, Charles A; Izidoro, Sandro C; de Melo-Minardi, Raquel C; Tyzack, Jonathan D; Ribeiro, António J M; Pires, Douglas E V; Thornton, Janet M; de A Silveira, Sabrina.

Nucleic Acids Res; 50(W1): W392-W397, 2022 07 05.

Artículo en Inglés | MEDLINE | ID: mdl-35524575

5.

Cell type-specific modulation of healthspan by Forkhead family transcription factors in the nervous system.

Bolukbasi, Ekin; Woodling, Nathaniel S; Ivanov, Dobril K; Adcott, Jennifer; Foley, Andrea; Rajasingam, Arjunan; Gittings, Lauren M; Aleyakpo, Benjamin; Niccoli, Teresa; Thornton, Janet M; Partridge, Linda.

Proc Natl Acad Sci U S A; 118(8)2021 02 23.

Artículo en Inglés | MEDLINE | ID: mdl-33593901

6.

Fine-tuning autophagy maximises lifespan and is associated with changes in mitochondrial gene expression in Drosophila.

Bjedov, Ivana; Cochemé, Helena M; Foley, Andrea; Wieser, Daniela; Woodling, Nathaniel S; Castillo-Quan, Jorge Iván; Norvaisas, Povilas; Lujan, Celia; Regan, Jennifer C; Toivonen, Janne M; Murphy, Michael P; Thornton, Janet; Kinghorn, Kerri J; Neufeld, Thomas P; Cabreiro, Filipe; Partridge, Linda.

PLoS Genet; 16(11): e1009083, 2020 11.

Artículo en Inglés | MEDLINE | ID: mdl-33253201

7.

Differential Complex Formation via Paralogs in the Human Sin3 Protein Interaction Network.

Adams, Mark K; Banks, Charles A S; Thornton, Janet L; Kempf, Cassandra G; Zhang, Ying; Miah, Sayem; Hao, Yan; Sardiu, Mihaela E; Killer, Maxime; Hattem, Gaye L; Murray, Alexis; Katt, Maria L; Florens, Laurence; Washburn, Michael P.

Mol Cell Proteomics; 19(9): 1468-1484, 2020 09.

Artículo en Inglés | MEDLINE | ID: mdl-32467258

8.

Context dependency of Set1/COMPASS-mediated histone H3 Lys4 trimethylation.

Thornton, Janet L; Westfield, Gerwin H; Takahashi, Yoh-Hei; Cook, Malcolm; Gao, Xin; Woodfin, Ashley R; Lee, Jung-Shin; Morgan, Marc A; Jackson, Jessica; Smith, Edwin R; Couture, Jean-Francois; Skiniotis, Georgios; Shilatifard, Ali.

Genes Dev; 28(2): 115-20, 2014 Jan 15.

Artículo en Inglés | MEDLINE | ID: mdl-24402317

9.

A global analysis of function and conservation of catalytic residues in enzymes.

Ribeiro, António J M; Tyzack, Jonathan D; Borkakoti, Neera; Holliday, Gemma L; Thornton, Janet M.

J Biol Chem; 295(2): 314-324, 2020 01 10.

Artículo en Inglés | MEDLINE | ID: mdl-31796628

10.

GRaSP: a graph-based residue neighborhood strategy to predict binding sites.

Santana, Charles A; Silveira, Sabrina de A; Moraes, João P A; Izidoro, Sandro C; de Melo-Minardi, Raquel C; Ribeiro, António J M; Tyzack, Jonathan D; Borkakoti, Neera; Thornton, Janet M.

Bioinformatics; 36(Suppl_2): i726-i734, 2020 12 30.

Artículo en Inglés | MEDLINE | ID: mdl-33381849

11.

Functional conservation in genes and pathways linking ageing and immunity.

Fabian, Daniel K; Fuentealba, Matías; Dönertas, Handan Melike; Partridge, Linda; Thornton, Janet M.

Immun Ageing; 18(1): 23, 2021 May 14.

Artículo en Inglés | MEDLINE | ID: mdl-33990202

12.

CATH: expanding the horizons of structure-based functional annotations for genome sequences.

Sillitoe, Ian; Dawson, Natalie; Lewis, Tony E; Das, Sayoni; Lees, Jonathan G; Ashford, Paul; Tolulope, Adeyelu; Scholes, Harry M; Senatorov, Ilya; Bujan, Andra; Ceballos Rodriguez-Conde, Fatima; Dowling, Benjamin; Thornton, Janet; Orengo, Christine A.

Nucleic Acids Res; 47(D1): D280-D284, 2019 01 08.

Artículo en Inglés | MEDLINE | ID: mdl-30398663

13.

An automated protocol for modelling peptide substrates to proteases.

Ochoa, Rodrigo; Magnitov, Mikhail; Laskowski, Roman A; Cossio, Pilar; Thornton, Janet M.

BMC Bioinformatics; 21(1): 586, 2020 Dec 29.

Artículo en Inglés | MEDLINE | ID: mdl-33375946

14.

Influence of aminoacyl-tRNA synthetase complex-interacting multifunctional protein 1 on epithelial differentiation and organization during lung development.

Lee, Daniel D; Hochstetler, Alexandra; Sah, Eric; Xu, Haiming; Lowe, Chinn-Woan; Santiaguel, Sara; Thornton, Janet Lea; Pajakowski, Adam; Schwarz, Margaret A.

Am J Physiol Lung Cell Mol Physiol; 319(2): L369-L379, 2020 08 01.

Artículo en Inglés | MEDLINE | ID: mdl-32579851

15.

The impact of AlphaFold2 one year on.

Jones, David T; Thornton, Janet M.

Nat Methods; 19(1): 15-20, 2022 01.

Artículo en Inglés | MEDLINE | ID: mdl-35017725

16.

Finding enzyme cofactors in Protein Data Bank.

Mukhopadhyay, Abhik; Borkakoti, Neera; Pravda, Lukás; Tyzack, Jonathan D; Thornton, Janet M; Velankar, Sameer.

Bioinformatics; 35(18): 3510-3511, 2019 09 15.

Artículo en Inglés | MEDLINE | ID: mdl-30759194

17.

VarMap: a web tool for mapping genomic coordinates to protein sequence and structure and retrieving protein structural annotations.

Stephenson, James D; Laskowski, Roman A; Nightingale, Andrew; Hurles, Matthew E; Thornton, Janet M.

Bioinformatics; 35(22): 4854-4856, 2019 11 01.

Artículo en Inglés | MEDLINE | ID: mdl-31192369

18.

Using the drug-protein interactome to identify anti-ageing compounds for humans.

Fuentealba, Matías; Dönertas, Handan Melike; Williams, Rhianna; Labbadia, Johnathan; Thornton, Janet M; Partridge, Linda.

PLoS Comput Biol; 15(1): e1006639, 2019 01.

Artículo en Inglés | MEDLINE | ID: mdl-30625143

19.

A Structured Workflow for Mapping Human Sin3 Histone Deacetylase Complex Interactions Using Halo-MudPIT Affinity-Purification Mass Spectrometry.

Banks, Charles A S; Thornton, Janet L; Eubanks, Cassandra G; Adams, Mark K; Miah, Sayem; Boanca, Gina; Liu, Xingyu; Katt, Maria L; Parmely, Tari J; Florens, Laurence; Washburn, Michael P.

Mol Cell Proteomics; 17(7): 1432-1447, 2018 07.

Artículo en Inglés | MEDLINE | ID: mdl-29599190

20.

Mechanism and Catalytic Site Atlas (M-CSA): a database of enzyme reaction mechanisms and active sites.

Ribeiro, António J M; Holliday, Gemma L; Furnham, Nicholas; Tyzack, Jonathan D; Ferris, Katherine; Thornton, Janet M.

Nucleic Acids Res; 46(D1): D618-D623, 2018 01 04.

Artículo en Inglés | MEDLINE | ID: mdl-29106569

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