Colistin (CST) is a critical last-line antibiotic for treating multidrug-resistant Pseudomonas aeruginosa infections, especially in chronic respiratory disease. Despite its clinical importance, the P. aeruginosa CST resistome remains incompletely characterised, with most studies focusing on the PAO1 prototypic strain....
Kellie R. Strickland, Miriana L. Littlejohn, Erin P. Price et al.· bioRxiv (Cold Spring Harbor...· 0 citations
In this study, we developed a library of mRNA lipid nanoparticles (LNPs) containing clinically used ionizable lipids. We surface-modified these nanoparticles with heparosan polysaccharides and systematically compared their performance with conventional poly(ethylene glycol) (PEG)-modified formulations. Our heparosan (H...
Yu-Xin He, Lin Wang, Abigael P. Williams et al.· ACS Nano· 0 citations
Multidomain proteins may populate transient misfolded states that compete with productive folding, but the molecular determinants of these intermediates remain poorly understood. Using the tandem PDZ domains of the scaffolding protein whirlin, in which a misfolded intermediate accumulates only when both domains are den...
Valeria Pennacchietti, Mariana Di Felice, Julian Toso et al.· International Journal of Mol...· 0 citations
Understanding the molecular mechanisms underlying fruit color variation is crucial for citrus breeding. The variegated ‘Gonggan’ mandarin (
Citrus reticulata
Blanco) exhibits distinct phenotypic differences compared to the normal cultivar. However, the physiological and genetic basis for this variation remains...
Cong-Yi Zhu, Ping-Zhi Wu, Yi-Bo Hu et al.· Frontiers in Plant Science· 0 citations
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Accurate prediction of ligand-bound protein complexes and ranking them by affinity are central problems in drug discovery. While deep learning co-folding methods can help address these challenges, their evaluation has been hampered by the difficulties in assessing independence from training data and insufficiently larg...
Jongbin Kim, G.J. Correy, Brendan W. Hall et al.· 0 citations
This dataset provides the source-data files underlying the figures and the reagent inventories of the study "Aqueous Hellenia speciosa rhizome extract attenuates hepatic injury in high-fat diet/streptozotocin-induced diabetic rats" (Filfilan & Elbeeh). Included: (1) Figure 6 per-field morphometric source values (steato...
Code, dataset, trained model weights, and evaluation results for BioAnchorFormer — a CNN–Transformer hybrid for chicken MHC-I (BF2*21:01) peptide binding prediction. Includes protein-aware negative sampling pipeline, 5-fold protein-grouped evaluation, and outer-fold weights for C6-BAF-Ultimate (proposed model), C4-BAF-...
Sarathkumar Devaraj, Shouyi Wang, Hung‐Yueh Yeh et al.· Zenodo (CERN European Organi...· 0 citations
Accurate prediction of ligand-bound protein complexes and ranking them by affinity are central problems in drug discovery. While deep learning co-folding methods can help address these challenges, their evaluation has been hampered by the difficulties in assessing independence from training data and insufficiently larg...
Jongbin Kim, G.J. Correy, Brendan W. Hall et al.· 0 citations
Golgins are widely described as long coiled-coil proteins that contribute to the structural organisation and trafficking functions of the Golgi apparatus. Although experimental structures have been determined for a limited number of golgin regions, atomic-level information on their extended coiled-coil segments remains...
Marilia D. O. Silva, R. V. R. Dias, Igor S. Pedriz et al.· bioRxiv· 0 citations
Final reproducibility package aligned with the train-fold-only PCA development analysis, within-benchmark antifungal confirmation, external TAPE remote-homology validation, Supplementary Tables S1-S6 and current Figure 1-3 source data.
Xingye Ren· Zenodo (CERN European Organi...· 0 citations
Reproducibility package aligned with the train-fold-only PCA development analysis, within-benchmark antifungal confirmation, external TAPE remote-homology validation, Supplementary Tables S1-S6 and current Figure 1-3 source data.
Xingye Ren· Zenodo (CERN European Organi...· 0 citations
Final reproducibility package aligned with the train-fold-only PCA development analysis, within-benchmark antifungal confirmation, external TAPE remote-homology validation, Supplementary Tables S1-S6 and current Figure 1-3 source data.
Xingye Ren· Zenodo (CERN European Organi...· 0 citations
A new machine-learning framework aims to improve the success rate of computational protein design while moving away from results that reproduce sequences found in nature.
