Although many real-time neural decoding algorithms have been proposed for brain-machine interface (BMI) applications over the years, an optimal, consensual approach remains elusive. Recent advances in deep learning algorithms provide new opportunities for improving the design of BMI decoders, including the use of recurrent artificial neural networks to decode neuronal ensemble activity in real time. Here, we developed a long-short term memory (LSTM) decoder for extracting movement kinematics from the activity of large ( = 134-402) populations of neurons, sampled simultaneously from multiple cortical areas, in rhesus monkeys performing motor tasks. Recorded regions included primary motor, dorsal premotor, supplementary motor, and primary somatosensory cortical areas. The LSTM's capacity to retain information for extended periods of time enabled accurate decoding for tasks that required both movements and periods of immobility. Our LSTM algorithm significantly outperformed the state-of-the-art unscented Kalman filter when applied to three tasks: center-out arm reaching, bimanual reaching, and bipedal walking on a treadmill. Notably, LSTM units exhibited a variety of well-known physiological features of cortical neuronal activity, such as directional tuning and neuronal dynamics across task epochs. LSTM modeled several key physiological attributes of cortical circuits involved in motor tasks. These findings suggest that LSTM-based approaches could yield a better algorithm strategy for neuroprostheses that employ BMIs to restore movement in severely disabled patients.
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http://dx.doi.org/10.1162/neco_a_01189 | DOI Listing |
FEBS J
January 2025
Department of Biosciences and Bioengineering, IIT Bombay, Mumbai, India.
Cellulases are an ensemble of enzymes that hydrolyze cellulose chains into fermentable glucose and hence are widely used in bioethanol production. The last enzyme of the cellulose degradation pathway, β-glucosidase, is inhibited by its product, glucose. The product inhibition by glucose hinders cellulose hydrolysis limiting the saccharification during bioethanol production.
View Article and Find Full Text PDFThe growing body of experimental and computational studies suggested that the cross-neutralization antibody activity against Omicron variants may be driven by balance and tradeoff of multiple energetic factors and interaction contributions of the evolving escape hotspots involved in antigenic drift and convergent evolution. However, the dynamic and energetic details quantifying the balance and contribution of these factors, particularly the balancing nature of specific interactions formed by antibodies with the epitope residues remain scarcely characterized. In this study, we performed molecular dynamics simulations, ensemble-based deep mutational scanning of SARS-CoV-2 spike residues and binding free energy computations for two distinct groups of broadly neutralizing antibodies : E1 group (BD55-3152, BD55-3546 and BD5-5840) and F3 group (BD55-3372, BD55-4637 and BD55-5514).
View Article and Find Full Text PDFHuman Interleukin-6 (hIL-6) is a pro inflammatory cytokine that binds to its receptor, IL-6Rα followed by binding to gp130 and subsequent dimerization to form a hexamer signaling complex. A critical inflammation mediator, hIL-6 is associated with a diverse range of diseases and monoclonal antibodies are in clinical use that either target IL-6Rα or hIL-6 to inhibit signaling. Here, we perform high throughput structure-based computational screening using ensemble docking for small molecule antagonists for which the target conformations were taken from 600 ns long molecular dynamics simulations of the apo protein.
View Article and Find Full Text PDFDominance hierarchies are key to social organization in group-living species, requiring individuals to recognize their own and others' ranks. This is particularly complex for intermediate-ranking animals, who navigate interactions with higher- and lower-ranking individuals. Using in situ hybridization, we examined how the brains of intermediate-ranked mice in hierarchies respond to dominant and subordinate stimuli by labeling activity-induced immediate early genes and neuronal markers.
View Article and Find Full Text PDFAnal Chem
January 2025
Nanobiotechnology Department of the Institute of Biotechnology, Brandenburg University of Technology Cottbus-Senftenberg, Universitaetsplatz 1, Senftenberg 01968, Brandenburg, Germany.
Single nanoparticle (NP) cyclic voltarefractometry (CVR), realized as wide-field surface plasmon resonance microscopy (SPRM) in combination with potential cycling, has been proposed and applied to the in situ study of TiO NPs. Electrochemical activity of TiO is mainly observed outside the electrochemical stability window of water. Therefore, the response of individual anatase (a-TiO) and rutile (r-TiO) NPs adsorbed on a gold layer was studied in 0.
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