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Number of items: 70.

A

Adeyelu, Tolulope; Bordin, Nicola; Waman, Vaishali P; Sadlej, Marta; Sillitoe, Ian; Moya-Garcia, Aurelio A; Orengo, Christine A; (2023) KinFams: De-Novo Classification of Protein Kinases Using CATH Functional Units. Biomolecules , 13 (2) , Article 277. 10.3390/biom13020277. Green open access
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B

Bates, George Thomas; (2023) Molecular mechanisms regulating CHC22 clathrin function. Doctoral thesis (Ph.D), UCL (University College London). Green open access
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Bdzhola, AV; Filonenko, VV; Gout, IT; Malanchuk, OM; (2023) The use of the in situ proximity ligation assay for validating S6 kinase 1 CoAlation under oxidative stress. Biopolymers & Cell , 39 (4) pp. 277-282. 10.7124/bc.000AA5. Green open access
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Blacker, Thomas S; Duchen, Michael R; Bain, Angus J; (2023) Distinct NAD(P)H binding configurations revealed by fluorescence lifetime, anisotropy and polarised two-photon absorption. Biophysical Journal 10.1016/j.bpj.2023.02.014. (In press). Green open access
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Bolik-Coulon, N; Sever, AIM; Harkness, RW; Aramini, JM; Toyama, Y; Hansen, DF; Kay, LE; (2023) Less is more: A simple methyl-TROSY based pulse scheme offers improved sensitivity in applications to high molecular weight complexes. Journal of Magnetic Resonance , 346 , Article 107326. 10.1016/j.jmr.2022.107326. Green open access
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Bordin, Nicola; Lau, Andy M; Orengo, Christine; (2023) Large-scale clustering of AlphaFold2 3D models shines light on the structure and function of proteins. Molecular Cell , 83 (22) pp. 3950-3952. 10.1016/j.molcel.2023.10.039.

Bordin, Nicola; Sillitoe, Ian; Nallapareddy, Vamsi; Rauer, Clemens; Lam, Su Datt; Waman, Vaishali P; Sen, Neeladri; ... Orengo, Christine; + view all (2023) AlphaFold2 reveals commonalities and novelties in protein structure space for 21 model organisms. Communications Biology , 6 (1) , Article 160. 10.1038/s42003-023-04488-9. Green open access
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Boron, Veronica A; Martin, Andrew CR; (2023) abYpap: Improvements to the Prediction of Antibody V H/V L Packing Using Gradient Boosted Regression. Protein Engineering, Design and Selection , Article gzad021. 10.1093/protein/gzad021. (In press). Green open access
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Bunney, Tom D; Katan, Matilda; (2023) Targeting G-CSF to treat autoinflammation. Nature Immunology , 24 pp. 736-737. 10.1038/s41590-023-01474-5. Green open access
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C

Caswell, Deborah R; Gui, Philippe; Mayekar, Manasi K; Law, Emily K; Pich, Oriol; Bailey, Chris; Boumelha, Jesse; ... Swanton, Charles; + view all (2023) The role of APOBEC3B in lung tumor evolution and targeted cancer therapy resistance. Nature Genetics 10.1038/s41588-023-01592-8. (In press). Green open access
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Charoonnart, Patai; Taunt, Henry Nicolas; Yang, Luyao; Webb, Conner; Robinson, Colin; Saksmerprome, Vanvimon; Purton, Saul; (2023) Transgenic Microalgae Expressing Double-Stranded RNA as Potential Feed Supplements for Controlling White Spot Syndrome in Shrimp Aquaculture. Microorganisms , 11 (8) , Article 1893. 10.3390/microorganisms11081893. Green open access
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Chaves-Arquero, Belén; Collins, Katherine M; Abis, Giancarlo; Kelly, Geoff; Christodoulou, Evangelos; Taylor, Ian A; Ramos, Andres; (2023) Affinity-enhanced RNA-binding domains as tools to understand RNA recognition. Cell Reports Methods , 3 (6) , Article 100508. 10.1016/j.crmeth.2023.100508. Green open access
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Clasen, Frederick; Nunes, Patrícia M; Bidkhori, Gholamreza; Bah, Nourdine; Boeing, Stefan; Shoaie, Saeed; Anastasiou, Dimitrios; (2023) Systematic diet composition swap in a mouse genome-scale metabolic model reveals determinants of obesogenic diet metabolism in liver cancer. iScience , 26 (2) , Article 106040. 10.1016/j.isci.2023.106040. Green open access
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Crescioli, Silvia; Correa, Isabel; Ng, Joseph; Willsmore, Zena N; Laddach, Roman; Chenoweth, Alicia; Chauhan, Jitesh; ... Karagiannis, Sophia N; + view all (2023) B cell profiles, antibody repertoire and reactivity reveal dysregulated responses with autoimmune features in melanoma. Nature Communications , 14 (1) , Article 3378. 10.1038/s41467-023-39042-y. Green open access
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D

D’Halluin, Alexandre; Polgar, Peter; Kipkorir, Terry; Patel, Zaynah; Cortes, Teresa; Arnvig, Kristine B; (2023) Premature termination of transcription is shaped by Rho and translated uORFS in Mycobacterium tuberculosis. iScience , 26 (4) , Article 106465. 10.1016/j.isci.2023.106465. Green open access
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Dawson, Charmian Nicole; (2023) Disease-causing mutations in the human metal ion transporter ZIP14 alter its structure, ion uptake function and trafficking. Doctoral thesis (Ph.D), UCL (University College London). Green open access
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Di Rocco, Giulia; Taunt, Henry N; Berto, Marcello; Jackson, Harry O; Piccinini, Daniele; Carletti, Alan; Scurani, Giulia; ... Purton, Saul; + view all (2023) A PETase enzyme synthesised in the chloroplast of the microalga Chlamydomonas reinhardtii is active against post-consumer plastics. Scientific Reports , 13 (1) , Article 10028. 10.1038/s41598-023-37227-5. Green open access
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E

Engrola, Filipa; Correia, Márcia AS; Watson, Cameron; Romão, Carlos C; Veiros, Luis F; Romão, Maria João; Santos-Silva, Teresa; (2023) Arsenite oxidase in complex with antimonite and arsenite oxyanions - insights into the catalytic mechanism. Journal of Biological Chemistry , Article 105036. 10.1016/j.jbc.2023.105036. (In press). Green open access
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Esteras, Noemí; Blacker, Thomas S; Zherebtsov, Evgeny A; Stelmashuk, Olga A; Zhang, Ying; Wigley, W Christian; Duchen, Michael R; ... Abramov, Andrey Y; + view all (2023) Nrf2 regulates glucose uptake and metabolism in neurons and astrocytes. Redox Biology , 62 , Article 102672. 10.1016/j.redox.2023.102672. Green open access
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F

Filonenko, V; Gout, I; (2023) Discovery and functional characterisation of protein CoAlation and the antioxidant function of coenzyme A. BBA Advances , 3 , Article 100075. 10.1016/j.bbadva.2023.100075. Green open access
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G

Gao, X; Thrush, JW; Gor, J; Naismith, JH; Owens, RJ; Perkins, SJ; (2023) The solution structure of the heavy chain–only C5-Fc nanobody reveals exposed variable regions that are optimal for COVID-19 antigen interactions. Journal of Biological Chemistry , 299 (11) , Article 105337. 10.1016/j.jbc.2023.105337. Green open access
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Gardner, S; Darrow, MC; Lukoyanova, N; Thalassinos, K; Saibil, HR; (2023) Structural basis of substrate progression through the bacterial chaperonin cycle. Proceedings of the National Academy of Sciences of the United States of America , 120 (50) , Article e2308933120. 10.1073/pnas.2308933120. Green open access
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Goldtzvik, Yonathan; Sen, Neeladri; Lam, Su Datt; Orengo, Christine; (2023) Protein diversification through post-translational modifications, alternative splicing, and gene duplication. Current Opinion in Structural Biology , 81 , Article 102640. 10.1016/j.sbi.2023.102640. Green open access
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Gong, Grace Q; Bilanges, Benoit; Allsop, Ben; Masson, Glenn R; Roberton, Victoria; Askwith, Trevor; Oxenford, Sally; ... Vanhaesebroeck, Bart; + view all (2023) A small-molecule PI3Kα activator for cardioprotection and neuroregeneration. Nature , 618 pp. 159-168. 10.1038/s41586-023-05972-2. Green open access
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H

Halpern, Aaron; Bartsch, Lilly R; Ibrahim, Kaan; Harrison, Stuart A; Ahn, Minkoo; Christodoulou, John; Lane, Nick; (2023) Biophysical Interactions Underpin the Emergence of Information in the Genetic Code. Life , 13 (5) , Article 1129. 10.3390/life13051129. Green open access
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Hassi, Niina K; Weston, Timir; Rinaldi, Giulia; Ng, Joseph C; Smahi, Asma; Twelves, Sophie; Davan-Wetton, Camilla; ... Capon, Francesca; + view all (2023) in-silico and in-vitro analysis of IL36RN mutations reveals critical residues for the function of the interleukin-36 receptor complex. Journal of Investigative Dermatology 10.1016/j.jid.2023.06.191. (In press). Green open access
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Hui, Gar Kay; Gao, Xin; Gor, Jayesh; Lu, Jinghua; Sun, Peter D; Perkins, Stephen J; (2023) The solution structure of the unbound IgG Fc receptor CD64 resembles its crystal structure: Implications for function. PloS One , 18 (9) , Article e0288351. 10.1371/journal.pone.0288351. Green open access
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I

Iqbal, Hina; Fung, Ka Wai; Gor, Jayesh; Bishop, Anthony C; Makhatadze, George I; Brodsky, Barbara; Perkins, Stephen J; (2023) A solution structure analysis reveals a bent collagen triple helix in the complement activation recognition molecule mannan-binding lectin. Journal of Biological Chemistry , 299 (2) , Article 102799. 10.1016/j.jbc.2022.102799. Green open access
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K

Khalil, Mahmoud I; Ismail, Heba M; Panasyuk, Ganna; Bdzhola, Anna; Filonenko, Valeriy; Gout, Ivan; Pardo, Olivier E; (2023) Asymmetric Dimethylation of Ribosomal S6 Kinase 2 Regulates Its Cellular Localisation and Pro-Survival Function. International Journal of Molecular Sciences , 24 (10) , Article 8806. 10.3390/ijms24108806. Green open access
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L

Levray, Yvette S; Bana, Bianca; Tarr, Sarah J; McLaughlin, Emilia J; Rossi-Smith, Peter; Waltho, Anita; Charlton, Georgina H; ... Osborne, Andrew R; + view all (2023) Formation of ER-lumenal intermediates during export of Plasmodium proteins containing transmembrane-like hydrophobic sequences. PLoS Pathogens , 19 (3) , Article e1011281. 10.1371/journal.ppat.1011281. Green open access
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M

Meir, Amit; Macé, Kévin; Vegunta, Yogesh; Williams, Sunanda M; Waksman, Gabriel; (2023) Substrate recruitment mechanism by gram-negative type III, IV, and VI bacterial injectisomes. Trends in Microbiology 10.1016/j.tim.2023.03.005. (In press). Green open access
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Morfopoulou, Sofia; Buddle, Sarah; Montaguth, Oscar Enrique Torres; Atkinson, Laura; Guerra-Assunção, José Afonso; Marjaneh, Mahdi Moradi; Chiozzi, Riccardo Zenezini; ... Breuer, Judith; + view all (2023) Genomic investigations of unexplained acute hepatitis in children. Nature 10.1038/s41586-023-06003-w. (In press). Green open access
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Mühleip, Alexander; Flygaard, Rasmus Kock; Baradaran, Rozbeh; Haapanen, Outi; Gruhl, Thomas; Tobiasson, Victor; Maréchal, Amandine; ... Amunts, Alexey; + view all (2023) Structural basis of mitochondrial membrane bending by the I-II-III2-IV2 supercomplex. Nature 10.1038/s41586-023-05817-y. (In press). Green open access
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N

Nallapareddy, Vamsi; Bordin, Nicola; Sillitoe, Ian; Heinzinger, Michael; Littmann, Maria; Waman, Vaishali P; Sen, Neeladri; ... Orengo, Christine; + view all (2023) CATHe: Detection of remote homologues for CATH superfamilies using embeddings from protein language models. Bioinformatics , 39 (1) , Article btad029. 10.1093/bioinformatics/btad029. Green open access
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Newton, MD; Losito, M; Smith, QM; Parnandi, N; Taylor, BJ; Akcakaya, P; Maresca, M; ... Rueda, DS; + view all (2023) Negative DNA supercoiling induces genome-wide Cas9 off-target activity. Molecular Cell , 83 (19) 3533-3545.e5. 10.1016/j.molcel.2023.09.008. Green open access
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Ng, Joseph CF; Montamat Garcia, Guillem; Stewart, Alexander T; Blair, Paul; Mauri, Claudia; Dunn-Walters, Deborah K; Fraternali, Franca; (2023) sciCSR infers B cell state transition and predicts class-switch recombination dynamics using single-cell transcriptomic data. Nature Methods 10.1038/s41592-023-02060-1. (In press). Green open access
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Nicastro, Giuseppe; Abis, Giancarlo; Klein, Pierre; Esteban-Serna, Sofia; Gallagher, Christopher; Chaves-Arquero, Belen; Cai, Yuyang; ... Ramos, Andres; + view all (2023) Direct m6A recognition by IMP1 underlays an alternative model of target selection for non-canonical methyl-readers. Nucleic Acids Research , Article gkad534. 10.1093/nar/gkad534. (In press). Green open access
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O

O'Sullivan, James DB; Blacker, Thomas S; Scott, Claire; Chang, Weise; Ahmed, Mohi; Yianni, Val; Mann, Zoe F; (2023) Gradients of glucose metabolism regulate morphogen signalling required for specifying tonotopic organisation in the chicken cochlea. Elife , 12 , Article e86233. 10.7554/eLife.86233. Green open access
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Ofer, Sapir; Blombach, Fabian; Erkelens, Amanda M; Barker, Declan; Soloviev, Zoja; Schwab, Samuel; Smollett, Katherine; ... Werner, Finn; + view all (2023) DNA-bridging by an archaeal histone variant via a unique tetramerisation interface. Communications Biology , 6 (1) , Article 968. 10.1038/s42003-023-05348-2. Green open access
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P

Pálmadóttir, Tinna; Waudby, Christopher A; Bernfur, Katja; Christodoulou, John; Linse, Sara; Malmendal, Anders; (2023) Morphology-Dependent Interactions between α-Synuclein Monomers and Fibrils. International Journal of Molecular Sciences , 24 (6) , Article 5191. 10.3390/ijms24065191. Green open access
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Paysan-Lafosse, Typhaine; Blum, Matthias; Chuguransky, Sara; Grego, Tiago; Pinto, Beatriz Lázaro; Salazar, Gustavo A; Bileschi, Maxwell L; ... Bateman, Alex; + view all (2023) InterPro in 2022. Nucleic Acids Research , 51 (D1) D418-D427. 10.1093/nar/gkac993. Green open access
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Pelliciari, Simone; Bodet-Lefevre, Salome; Fenyk, Stepan; Stevens, Daniel; Winterhalter, Charles; Schramm, Frederic D; Pintar, Sara; ... Murray, Heath; + view all (2023) The bacterial replication origin BUS promotes nucleobase capture. NATURE COMMUNICATIONS , 14 (1) , Article 8339. 10.1038/s41467-023-43823-w. Green open access
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Petrone, Olivia; Serafini, Steven; Yu, Bess Yi Kun; Filonenko, Valeriy; Gout, Ivan; O'Flaherty, Cristian; (2023) Changes of the Protein CoAlation Pattern in Response to Oxidative Stress and Capacitation in Human Spermatozoa. International Journal of Molecular Sciences , 24 (15) , Article 12526. 10.3390/ijms241512526. Green open access
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Phillips, Ian R; Veeravalli, Sunil; Khadayate, Sanjay; Shephard, Elizabeth A; (2023) Metabolomic and transcriptomic analyses of Fmo5-/- mice reveal roles for flavin-containing monooxygenase 5 (FMO5) in NRF2-mediated oxidative stress response, unfolded protein response, lipid homeostasis, and carbohydrate and one-carbon metabolism. PLOS ONE , 18 (6) , Article e0286692. 10.1371/journal.pone.0286692. Green open access
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Plessa, Eleni; (2023) Studies of protein folding and misfolding on the ribosome. Doctoral thesis (Ph.D), UCL (University College London).

Poddar, Nilakhi; Santini, Joanne M; Maher, Megan J; (2023) The structure of the complex between the arsenite oxidase from Pseudorhizobium banfieldiae sp. strain NT-26 and its native electron acceptor cytochrome c552. Acta Crystallographica Section D: Biological Crystallography , D79 (4) pp. 345-352. 10.1107/S2059798323002103. Green open access
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Prawiro, Christy; Bunney, Tom D; Kampyli, Charis; Yaguchi, Hiroko; Katan, Matilda; Bangham, Charles RM; (2023) A frequent PLCγ1 mutation in adult T-cell leukemia/lymphoma determines functional properties of the malignant cells. Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease , 1869 (2) , Article 166601. 10.1016/j.bbadis.2022.166601. Green open access
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R

Rodríguez-López, María; Bordin, Nicola; Lees, Jon; Scholes, Harry; Hassan, Shaimaa; Saintain, Quentin; Kamrad, Stephan; ... Bähler, Jürg; + view all (2023) Broad functional profiling of fission yeast proteins using phenomics and machine learning. eLife , 12 10.7554/elife.88229.3. Green open access
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S

Santini, Joanna M; (2023) Mechanisms of bioleaching: iron and sulfur oxidation by acidophilic microorganisms. Essays in Biochemistry , Article EBC20220257. 10.1042/EBC20220257. (In press). Green open access
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Shukla, Vaibhav Kumar; Heller, Gabriella T; Hansen, D Flemming; (2023) Biomolecular NMR spectroscopy in the era of artificial intelligence. Structure 10.1016/j.str.2023.09.011. (In press). Green open access
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Shukla, Vaibhav Kumar; Siemons, Lucas; Hansen, D Flemming; (2023) Intrinsic structural dynamics dictate enzymatic activity and inhibition. Proceedings of the National Academy of Sciences , 120 (41) , Article e2310910120. 10.1073/pnas.2310910120. Green open access
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Smith, Emily J; Beaumont, Ross E; McClellan, Alyce; Sze, Cheryl; Palomino Lago, Esther; Hazelgrove, Liberty; Dudhia, Jayesh; ... Guest, Deborah J; + view all (2023) Tumour necrosis factor alpha, interleukin 1 beta and interferon gamma have detrimental effects on equine tenocytes that cannot be rescued by IL-1RA or mesenchymal stromal cell–derived factors. Cell and Tissue Research , 391 (3) pp. 523-544. 10.1007/s00441-022-03726-6. Green open access
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Soelistyo, Christopher; Ulicna, Kristina; Lowe, Alan; (2023) Machine learning enhanced cell tracking. Frontiers in Bioinformatics , 3 , Article 1228989. 10.3389/fbinf.2023.1228989. Green open access
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Soelistyo, Christopher Joseph; (2023) Learning biophysical determinants of cell fate in cell competition using interpretable deep neural networks. Doctoral thesis (Ph.D), UCL (University College London). Green open access
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Soelistyo, CJ; Charras, G; Lowe, AR; (2023) Virtual perturbations to assess explainability of deep-learning based cell fate predictors. In: Proceedings of the 2023 IEEE/CVF International Conference on Computer Vision Workshops (ICCVW). (pp. pp. 3973-3982). IEEE: Paris, France. Green open access
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Stiens, Jennifer; Tan, Yen Yi; Joyce, Rosanna; Arnvig, Kristine B; Kendall, Sharon L; Nobeli, Irene; (2023) Using a whole genome co-expression network to inform the functional characterisation of predicted genomic elements from Mycobacterium tuberculosis transcriptomic data. Molecular Microbiology , 119 (4) pp. 381-400. 10.1111/mmi.15055. Green open access
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T

Taunt, Henry N; Jackson, Harry O; Gunnarsson, Ísarr N; Pervaiz, Rabbia; Purton, Saul; (2023) Accelerating Chloroplast Engineering: A New System for Rapid Generation of Marker-Free Transplastomic Lines of Chlamydomonas reinhardtii. Microorganisms , 11 (8) , Article 1967. 10.3390/microorganisms11081967. Green open access
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Tossounian, Maria-Armineh; Baczynska, Maria; Dalton, William; Peak-Chew, Sew Yeu; Undzenas, Kipras; Korza, George; Filonenko, Valeriy; ... Gout, Ivan; + view all (2023) Bacillus subtilis YtpP and Thioredoxin A Are New Players in the Coenzyme-A-Mediated Defense Mechanism against Cellular Stress. Antioxidants , 12 (4) , Article 938. 10.3390/antiox12040938. Green open access
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Tossounian, Maria-Armineh; Hristov, Stefan Denchev; Semelak, Jonathan Alexis; Yu, Bess Yi Kun; Baczynska, Maria; Zhao, Yuhan; Estrin, Dario Ariel; ... Gout, Ivan; + view all (2023) A Unique Mode of Coenzyme A Binding to the Nucleotide Binding Pocket of Human Metastasis Suppressor NME1. International Journal of Molecular Sciences , 24 (11) , Article 9359. 10.3390/ijms24119359. Green open access
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V

Vallat, B; Tauriello, G; Bienert, S; Haas, J; Webb, BM; Žídek, A; Zheng, W; ... Westbrook, JD; + view all (2023) ModelCIF: An Extension of PDBx/mmCIF Data Representation for Computed Structure Models. Journal of Molecular Biology , Article 168021. 10.1016/j.jmb.2023.168021. (In press). Green open access
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Van der Verren, Sander E; Zanetti, Giulia; (2023) The small GTPase Sar1, control centre of COPII trafficking. FEBS Letters , 597 (6) pp. 865-882. 10.1002/1873-3468.14595. Green open access
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Vancraenenbroeck, R; Hofmann, H; (2023) Electrostatics and hydrophobicity in the dynamics of intrinsically disordered proteins. European Physical Journal E , 46 (12) , Article 133. 10.1140/epje/s10189-023-00383-7. Green open access
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Vancraenenbroeck, Renée; Cain, Amanda; (2023) Year 3 research project student-led inquiry labs with productive failure. Presented at: Evolving Molecular Biosciences Education (Biochemical Society, FEBS, IUBMb), Manchester, UK. Green open access
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Varadi, M; Bordin, N; Orengo, C; Velankar, S; (2023) The opportunities and challenges posed by the new generation of deep learning-based protein structure predictors. Current Opinion in Structural Biology , 79 , Article 102543. 10.1016/j.sbi.2023.102543. (In press). Green open access
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Vickers, Sarah; Irving, James; Lomas, David A; Thalassinos, Konstantinos; (2023) Native and Ion Mobility Mass Spectrometry Characterization of Alpha 1 Antitrypsin Variants and Oligomers. In: Bristow, Cynthia L, (ed.) Alpha-1 Antitrypsin: Methods and Protocols. (pp. 41-55). Humana Press (Springer): New York, NY, USA.

Vilatte, Anaëlle; Spencer-Milnes, Xenia; Jackson, Harry Oliver; Purton, Saul; Parker, Brenda; (2023) Spray Drying Is a Viable Technology for the Preservation of Recombinant Proteins in Microalgae. Microorganisms , 11 (2) , Article 512. 10.3390/microorganisms11020512. Green open access
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Vujkovic Bukvin, Ivana; (2023) Structures and targeting of the nascent polypeptide folding pathway on the ribosome. Doctoral thesis (Ph.D), UCL (University College London).

W

Weston, TGR; Rees, M; Gautel, M; Fraternali, F; (2023) Walking with giants: The challenges of variant impact assessment in the giant sarcomeric protein titin. WIREs Mechanisms of Disease , Article e1638. 10.1002/wsbm.1638. (In press). Green open access
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Wikström, Mårten; Gennis, Robert B; Rich, Peter R; (2023) Structures of the intermediates in the catalytic cycle of mitochondrial cytochrome c oxidase. Biochimica et Biophysica Acta (BBA) - Bioenergetics , 1864 (2) , Article 148933. 10.1016/j.bbabio.2022.148933. Green open access
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X

Xu, Ziqian; Spencer, Holly J; Harris, Victoria A; Perkins, Stephen J; (2023) An updated interactive database for 1692 genetic variants in coagulation Factor IX provides detailed insights into haemophilia B. Journal of Thrombosis and Haemostasis , 21 (5) pp. 1164-1176. 10.1016/j.jtha.2023.02.005. Green open access
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This list was generated on Wed May 8 16:28:26 2024 BST.