AIMC Journal:
bioRxiv

Showing 3031 to 3040 of 4993 articles

OmniCellAgent: Towards AI Co-Scientists for Scientific Discovery in Precision Medicine

bioRxiv Jan 1, 2025
The convergence of large language models (LLMs), AI agents, and large-scale omic datasets—such as single-cell omics, marks the arrival of a critical inflection point in biomedical research, via autonomous data mining and novel hypothesis generation. ...
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Deep generative modeling reveals maturation-linked pairing signatures in human antibodies

bioRxiv Jan 1, 2025
Understanding how antibody heavy and light chains pair is critical for decoding immune repertoire architecture and designing therapeutic antibodies. However, most antibody sequence databases lack paired chain information. To address this gap, we deve...
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Predicting Drug Response with Multi-Task Gradient-Boosted Trees in Epilepsy

bioRxiv Jan 1, 2025
Despite the availability of numerous anti-seizure medications (ASMs), drug resistance remains a major issue for people with epilepsy. The probability of achieving seizure freedom diminishes with each unsuccessful drug trial, and the impact of genetic...
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E2-Regulated Transcriptome Complexity Revealed by Long-Read Direct RNA Sequencing: From Isoform Discovery to Truncated Proteins

bioRxiv Jan 1, 2025
Estrogen receptor alpha (ERα)-positive (ER+) breast cancers are driven by 17β-estradiol (E2) binding to ERα, which transcriptionally regulates downstream target genes. Although microarrays and conventional RNA sequencing have identified E2 target gen...
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Mechanistically Informed Machine Learning Links Non-Canonical TCA Cycle Activity to Warburg Metabolism and Hallmarks of Malignancy

bioRxiv Jan 1, 2025
Cancer cells undergo extensive metabolic rewiring to support growth, survival, and phenotypic plasticity. A non-canonical variant of the tricarboxylic acid (TCA) cycle, characterized by mitochondrial-to-cytosolic citrate export, has emerged as critic...
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Pharmacological potentiation of Nav1.1 channels in interneurons mitigates tau depositions and neuronal death in a mouse model of neurodegenerative dementias

bioRxiv Jan 1, 2025
Epileptiform discharges and neuronal hyperexcitability are key pathophysiological features of Alzheimer’s disease and related tauopathies. We previously identified selective dynfuntion of parvalbumin-positive GABAergic interneurons (PV neurons), whic...
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Evaluating scientific theories as predictive models in language neuroscience

bioRxiv Jan 1, 2025
Modern data-driven encoding models are highly effective at predicting brain responses to language stimuli. However, these models struggle to explain the underlying phenomena, i.e. what features of the stimulus drive the response? We present Question ...
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OptiRanker: an Advanced Tool for Simulation and Comparative Analysis of Drug Prioritization Algorithms in in-Vivo Trials

bioRxiv Jan 1, 2025
A critical challenge in personalized medicine is identifying the optimal drug treatment for individual patients based on their unique biological profiles. While recent advancements have led to a surge in drug prioritization algorithms utilizing patie...
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Generalized cell phenotyping for spatial proteomics with language-informed vision models

bioRxiv Jan 1, 2025
We present DeepCell Types, a novel approach to cell phenotyping for spatial proteomics that addresses the challenge of generalization across diverse datasets with varying marker panels collected across different platforms. Our approach utilizes a tra...
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Deep Learning of Functional Perturbations from Condensate Morphology

bioRxiv Jan 1, 2025
Biomolecular condensates compartmentalize the interior of living cells to spatiotemporally organize complex functions, yet linking molecular interactions within condensates to their mesoscale organization remains a major challenge. To bridge this gap...
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