bioRxiv

Showing 4011 to 4020 of 5016 articles

scAgeClock: a single-cell transcriptome based human aging clock model using gated multi-head attention neural networks

bioRxiv Jan 1, 2025
Aging Clock models have emerged as a crucial tool for measuring biological age, with significant implications for anti-aging interventions and disease risk assessment. However, human aging clock models that offer single-cell resolution and account fo...
View on bioRxiv DOI

RareFold: Structure prediction and design of proteins with noncanonical amino acids

bioRxiv Jan 1, 2025
Protein structure prediction and design have traditionally been limited to the 20 canonical amino acids. Expanding this space to include noncanonical amino acids (NCAAs) offers new opportunities for probing novel interactions and engineering proteins...
View on bioRxiv DOI

A systematic comparison of predictive models on the retina

bioRxiv Jan 1, 2025
Understanding the nonlinear encoding mechanisms of retinal ganglion cells (RGCs) in response to various visual stimuli presents a central challenge in neuroscience, driving the development of increasingly complex predictive models. Here, we systemati...
View on bioRxiv DOI

Revive-Flow: A Foundation Model for Blood DNAm Aging

bioRxiv Jan 1, 2025
Epigenetic clocks can predict biological age but cannot prescribe the interventions needed to reverse it. Here, we introduce REjuVenatIon Via Epigenetic Flow (Revive-Flow), a flow-matching model trained on a broad compendium of epigenetic blood studi...
View on bioRxiv DOI

Disease-specific tau polymorphs define unique protein interaction networks across proteinopathies

bioRxiv Jan 1, 2025
Tau protein aggregates exhibit distinct conformations across tauopathies, but their disease-specific protein interactions remain poorly understood. Here, we demonstrate that disease-specific tau conformations determine unique protein interaction land...
View on bioRxiv DOI

Context-Aware Synthetic Promoter Design Using Neural Networks Enables Rewiring of Eukaryotic Transcriptional Networks

bioRxiv Jan 1, 2025
Gene regulation through promoter engineering is a cornerstone of synthetic biology, enabling precise control over transcriptional networks. However, experimental approaches remain labor-intensive. While artificial neural networks (ANNs) have improved...
View on bioRxiv DOI

Scalable and universal prediction of cellular phenotypes enables in silico experiments

bioRxiv Jan 1, 2025
Biological systems can be interrogated by perturbing individual components and observing the consequences across molecular, cellular, and phenotypic levels. The vast combinatorial space of possible perturbations and responses makes exhaustive experim...
View on bioRxiv DOI

Separable neural population representations are constructed from mixed single neuron selectivity in the mouse early visual system

bioRxiv Jan 1, 2025
Both sensory and non-sensory brain regions receive mixed inputs from single neurons which require decomposition and integration before proceeding through a processing hierarchy. Whether mixed input signals are used in biological neural networks to de...
View on bioRxiv DOI

rpcFold: Residual Parallel Convolutional neural network to decipher RNA folding from RNA sequence

bioRxiv Jan 1, 2025
Precise secondary structure information offers deeper insights into the functionality of many RNA molecules. Earlier approaches, which primarily relied on the free-energy minimization, proved inadequate, as RNA often adopts complex folds, especially ...
View on bioRxiv DOI

Imaging cellular activity simultaneously across all organs of a vertebrate reveals body-wide circuits

bioRxiv Jan 1, 2025
All cells in an animal collectively ensure, moment-to-moment, the survival of the whole organism in the face of environmental stressors1,2. Physiology seeks to elucidate the intricate network of interactions that sustain life, which often span multip...
View on bioRxiv DOI
Popular Topics
Popular Journals