AIMC Journal:
bioRxiv

Showing 3061 to 3070 of 4993 articles

Individual differences in learning and decision-making: the role of COMT Val158Met polymorphism in transitive inference

bioRxiv Jan 1, 2025
Understanding the ordinal relationships between items requires constructing a rank order supporting decision-making between options. This process depends on the ability to learn reciprocal relationships and to select the best option available when ma...
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DrugPT: A Flexible Framework for Integrating Gene and Chemical Representations in Perturbation Modeling

bioRxiv Jan 1, 2025
Accurately modeling the transcriptional response of cells to drug perturbations is critical for drug discovery and precision medicine. Here, we propose DrugPT, a novel Transformer-based framework for predicting gene expression changes upon drug treat...
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New Synapse Detection in the Whole-Brain Connectome of Drosophila

bioRxiv Jan 1, 2025
The FlyWire Drosophila brain connectome1 is a graph of roughly 140K neurons and >50 million synaptic connections2,3 reconstructed from the FAFB EM dataset4. Challenges in synapse detection were identified for neurons with features such as dark cytoso...
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Screening and machine-learning assisted prediction of translation-enhancing peptides reducing ribosomal stalling in Escherichia coli

bioRxiv Jan 1, 2025
We previously reported that the nascent SKIK peptide enhances translation and alleviates ribosomal stalling caused by arrest peptides (APs) such as SecM and polyproline when positioned immediately upstream of the APs in both Escherichia coli in vivo ...
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AbAgym: a well-curated dataset for the mutational analysis of antibody-antigen complexes

bioRxiv Jan 1, 2025
With monoclonal antibodies becoming one of the largest classes of biopharmaceuticals, it is important to have curated data to train computational models that can accelerate their design. Despite the massive amount of mutagenesis data generated on ant...
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LeGO-Teknik reveals that the neurogenesis pathway is a clone-specific hallmark of brain metastasis in breast cancer

bioRxiv Jan 1, 2025
Breast cancer exhibits substantial inter- and intra-patient heterogeneity. Yet the molecular features underlying this diversity and their roles in tumour progression are not yet fully elucidated. Within a primary tumour, certain clones possess a uniq...
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An Evaluation of Biomolecular Energetics Learned by AlphaFold

bioRxiv Jan 1, 2025
Deep learning has revolutionized protein structural prediction, with function prediction on the horizon. Because biomolecular properties emerge from atomic-level interactions and their energetics, models that learn physical principles can deliver acc...
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ABC for high-dimensional modular models via MCMC samples

bioRxiv Jan 1, 2025
Many complex systems are modelled using modular models, where individual sub-models are estimated separately and then combined. While this simplifies inference, it fails to account for interactions between components. A natural solution is to estimat...
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pyRootHair: Machine Learning Accelerated Software for High-Throughput Phenotyping of Plant Root Hair Traits

bioRxiv Jan 1, 2025
Root hairs play a key role in plant nutrient and water uptake. Historically, root hair traits have been largely quantified manually. As such, this process has been laborious and low-throughput. However, given their importance for plant health and dev...
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dFCExpert: Learning Dynamic Functional Connectivity Patterns with Modularity and State Experts

bioRxiv Jan 1, 2025
Characterizing brain dynamic functional connectivity (dFC) patterns from functional Magnetic Resonance Imaging (fMRI) data is of paramount importance in imaging neuroscience and medicine. Recently, many graph neural network (GNN) models, combined wit...
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