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Yusuf Hamied Department of Chemistry

 

Recent Publications from the Biological Research Interest Group

Discovery of potent inhibitors of α-synuclein aggregation using structure-based iterative learning.
RI Horne, EA Andrzejewska, P Alam, ZF Brotzakis, A Srivastava, A Aubert, M Nowinska, RC Gregory, R Staats, A Possenti, S Chia, P Sormanni, B Ghetti, B Caughey, TPJ Knowles, M Vendruscolo
– Nature Chemical Biology
(2024)
1
(DOI: 10.1038/s41589-024-01580-x)
Pharmacological inhibition of α-synuclein aggregation within liquid condensates
ST Dada, Z Toprakcioglu, MP Cali, A Rӧntgen, MC Hardenberg, OM Morris, LK Mrugalla, TPJ Knowles, M Vendruscolo
– Nature Communications
(2024)
(DOI: 10.1038/s41467-024-47585-x)
RASP: Optimal Single Puncta Detection in Complex Cellular Backgrounds
B Fu, E Brock, R Andrews, J Breiter, R Tian, C Toomey, J Lachica, T Lashley, M Ryten, N Wood, M Vendruscolo, S Gandhi, L Weiss, J Beckwith, S Lee
– The Journal of Physical Chemistry B
(2024)
128,
3585
(DOI: 10.1021/acs.jpcb.4c00174)
Understanding Biology in the Age of Artificial Intelligence
E Lawrence, A El-Shazly, S Seal, CK Joshi, P Liò, S Singh, A Bender, P Sormanni, M Greenig
(2024)
An upstream G-quadruplex DNA structure can stimulate gene transcription
Y Chen, A Simeone, L Melidis, SM Cuesta, D Tannahill, S Balasubramanian
– ACS Chemical Biology
(2024)
19,
736
(DOI: 10.1021/acschembio.3c00775)
A Relationship between the Structures and Neurotoxic Effects of Aβ Oligomers Stabilized by Different Metal Ions.
S Chia, RL Cataldi, FS Ruggeri, R Limbocker, I Condado-Morales, K Pisani, A Possenti, S Linse, TPJ Knowles, J Habchi, B Mannini, M Vendruscolo
– ACS Chemical Neuroscience
(2024)
15,
1125
(DOI: 10.1021/acschemneuro.3c00718)
Targeted protein editing with an antibody-based system
M Vendruscolo, O Rimon, J Konc, M Ali, VR Chowdhury, P Sormanni, G Bernardes
(2024)
(DOI: 10.21203/rs.3.rs-3947849/v1)
Misfolded protein oligomers: mechanisms of formation, cytotoxic effects, and pharmacological approaches against protein misfolding diseases
DJ Rinauro, F Chiti, M Vendruscolo, R Limbocker
– Molecular Neurodegeneration
(2024)
19,
20
(DOI: 10.1186/s13024-023-00651-2)
Large-scale visualisation of α-synuclein oligomers in Parkinson's disease brain tissue
R Andrews, B Fu, CE Toomey, JC Breiter, J Lachica, R Tian, JS Beckwith, L-M Needham, GJ Chant, C Loiseau, A Deconfin, K Baspin, PJ Magill, Z Jaunmuktane, OJ Freeman, BJM Taylor, J Hardy, T Lashley, M Ryten, M Vendruscolo, NW Wood, LE Weiss, S Gandhi, SF Lee
(2024)
(DOI: 10.1101/2024.02.17.580698)
Cathepsin B Processing is Required for the in vivo Efficacy of Albumin-Drug Conjugates
B Bernardim, J Conde, T Hakala, JB Becher, M Canzano, AV Vasco, TPJ Knowles, J Cameron, GJL Bernardes
– Bioconjug Chem
(2024)
35,
132
(DOI: 10.1021/acs.bioconjchem.3c00478)
Modulation of α-synuclein in vitro aggregation kinetics by its alternative splice isoforms
A Röntgen, Z Toprakcioglu, JE Tomkins, M Vendruscolo
– Proceedings of the National Academy of Sciences
(2024)
121,
e2313465121
(DOI: 10.1073/pnas.2313465121)
Maturation-dependent changes in the size, structure and seeding capacity of Aβ42 amyloid fibrils
A Miller, S Chia, E Klimont, TPJ Knowles, M Vendruscolo, FS Ruggeri
– Commun Biol
(2024)
7,
153
(DOI: 10.1038/s42003-024-05858-7)
G-quadruplex DNA structure is a positive regulator of MYC transcription.
I Esain-Garcia, A Kirchner, L Melidis, RDCA Tavares, S Dhir, A Simeone, Z Yu, SK Madden, R Hermann, D Tannahill, S Balasubramanian
– Proceedings of the National Academy of Sciences of the United States of America
(2024)
121,
e2320240121
(DOI: 10.1073/pnas.2320240121)
Sequence-Based Drug Design Using Transformers
M Vendruscolo, S Zhang, D Huo, R Horne, Y Qi, SP Ojeda, A Yan
(2024)
(DOI: 10.21203/rs.3.rs-3682847/v1)
Imaging Aβ aggregation by liquid-phase transmission electron microscopy
G Ing, S Acosta-Gutiérrez, M Vendruscolo, G Battaglia, L Ruiz-Pérez
(2024)
(DOI: 10.1101/2024.01.29.577710)
Transient interactions between the fuzzy coat and the cross-β core of brain-derived Aβ42 filaments
M Vendruscolo, M Milanesi, F Brotzakis
(2024)
(DOI: 10.21203/rs.3.rs-3847495/v1)
Improving Antibody Humanness Prediction using Patent Data
T Ucar, A Ramon, D Oglic, R Croasdale-Wood, T Diethe, P Sormanni
(2024)
Establishing a synthetic orthogonal replication system enables accelerated evolution in E. coli.
R Tian, FBH Rehm, D Czernecki, Y Gu, JF Zürcher, KC Liu, JW Chin
– Science
(2024)
383,
421
(DOI: 10.1126/science.adk1281)
Using Generative Modeling to Endow with Potency Initially Inert Compounds with Good Bioavailability and Low Toxicity.
RI Horne, J Wilson-Godber, A González Díaz, ZF Brotzakis, S Seal, RC Gregory, A Possenti, S Chia, M Vendruscolo
– J Chem Inf Model
(2024)
64,
590
(DOI: 10.1021/acs.jcim.3c01777)
Assessing antibody and nanobody nativeness for hit selection and humanization with AbNatiV
A Ramon, M Ali, M Atkinson, A Saturnino, K Didi, C Visentin, S Ricagno, X Xu, M Greenig, P Sormanni
– Nature Machine Intelligence
(2024)
6,
74
(DOI: 10.1038/s42256-023-00778-3)

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