bioRxiv

Showing 3671 to 3680 of 5001 articles

PymolFold: A PyMOL Plugin for API-driven Structure Prediction and Quality Assessment

bioRxiv Jan 1, 2025
Deep learning has transformed protein structure prediction, yet many experimental scientists face barriers in accessing state-of-the-art (SOTA) models due to technical complexity and hardware requirements. To address this, we present PymolFold, an op...
View on bioRxiv DOI

Pretrained protein language models choose between sequence novelty and structural completeness

bioRxiv Jan 1, 2025
Protein language models (PLMs) have gained increasing acceptance in tasks ranging from variant effect prediction in disease to optimization and de novo design of proteins with improved stability, target-binding affinity, and catalytic performance. De...
View on bioRxiv DOI

Mechanistic Genome Folding at Scale through the Differentiable Loop Extrusion Model

bioRxiv Jan 1, 2025
The spatial folding of the genome shapes gene regulation by controlling which loci interact, yet inferring the mechanisms behind these 3D structures from contact maps remains difficult. Cohesin-mediated loop extrusion is a key organizer of domains an...
View on bioRxiv DOI

Linear and categorical coding units in the mouse gustatory cortex drive population dynamics and behavior in taste decision-making

bioRxiv Jan 1, 2025
Cortical circuits produce time-varying patterns of population and single neuron activity that play a fundamental role in perceptual and behavioral processes. However, the functional contributions of individual neuron activity to population dynamics a...
View on bioRxiv DOI

Leveraging machine learning and accelerometry to classify animal behaviours with uncertainty

bioRxiv Jan 1, 2025
Animal-worn sensors have revolutionised the study of animal behaviour and ecology. Accelerometers, which measure changes in acceleration across planes of movement, are increasingly being used in conjunction with machine learning models to classify an...
View on bioRxiv DOI

Machine Learning Ensemble Reveals Age-Specific Responses of Murine Mammary Tissue to Spaceflight With Relevance to Breast Cancer: An Observational Study

bioRxiv Jan 1, 2025
Spaceflight presents unique environmental stressors, such as microgravity and radiation, that significantly affect biological systems at the molecular, cellular, and organismal levels. Astronauts face an increased risk of developing cancer due to exp...
View on bioRxiv DOI

An integrated multi-tissue atlas of epigenomic landscapes and regulatory elements in the bovine genome

bioRxiv Jan 1, 2025
Deciphering the regulatory syntax of the genome is essential to understand the genetic and molecular architecture of complex traits, as most trait-associated variants lie in non-coding regions. Yet, functional annotation of the bovine genome remains ...
View on bioRxiv DOI

Adaptive Multimodal Temporal Transformer for Bio Signal Driven Stroke Rehabilitation Prognosis

bioRxiv Jan 1, 2025
Stroke rehabilitation requires continuous, individualized assessment of recovery progress to optimize treatment planning. Existing prognosis models often rely on static, single-timepoint predictions and lack adaptive fusion of multi-modal bio-signals...
View on bioRxiv DOI

Histology-guided 3D virtual staining of microCT-imaged lung tissue via deep learning

bioRxiv Jan 1, 2025
Histologically stained tissue sections are considered the gold standard for studying microscopic anatomy and diagnosing disease in clinical practice. However, the processes of sectioning and staining are laborious, and the overall method relies on tw...
View on bioRxiv DOI

Fast and Memory-Efficient Dynamic Programming Approach for Large-Scale EHH-Based Selection Scans

bioRxiv Jan 1, 2025
Haplotype-based statistics are widely used for finding genomic regions under positive selection. At the heart of many such statistics is the computation of extended haplotype homozygosity (EHH), which captures the decay of homozygosity away from a fo...
View on bioRxiv DOI
Popular Topics
Popular Journals