bioRxiv

Showing 3841 to 3850 of 5001 articles

On the Utility of Virtual Staining for Downstream Applications as it relates to Task Network Capacity

bioRxiv Jan 1, 2025
Virtual staining, or in-silico-labeling, has been proposed to computationally generate synthetic fluorescence images from label-free images by use of deep learning-based image-to-image translation networks. In most reported studies, virtually stained...
View on bioRxiv DOI

Divergent Excitability of GABAergic Neurons Derived from Bipolar Disorder Patients Shapes Energy Shifts of Network Dynamics, possibly mimicking mania and depression

bioRxiv Jan 1, 2025
Bipolar disorder (BD) is characterized by fluctuating mood states, yet the cellular and circuit-level mechanisms distinguishing lithium-responsive (LR) from non-responsive (NR) patients remain elusive. We derived dentate gyrus granule neurons and GAB...
View on bioRxiv DOI

A modular pipeline for evidence-integrated genome annotation across species: a case study on Schmidtea mediterranea

bioRxiv Jan 1, 2025
Despite advancements in genome annotation tools, challenges persist for non-classical model organisms with limited genomic resources, such as Schmidtea mediterranea. To address these challenges, we developed a flexible and scalable genome annotation ...
View on bioRxiv DOI

Astrocyte-Guided Maturation of Neural Constructs in a Modular Biosynthetic Hydrogel for Biohybrid Neurotechnologies

bioRxiv Jan 1, 2025
Bionic implants are increasingly used to restore neural function yet achieving a chronically stable neural interface remains challenging. Biohybrid neurotechnologies aim to overcome this limitation by integrating living tissue components that can pro...
View on bioRxiv DOI

Toehold-VISTA: A machine learning approach to decipher programmable RNA sensor-target interactions

bioRxiv Jan 1, 2025
RNA-based biosensors have emerged as essential tools in synthetic biology and diagnostics, enabling precise and programmable responses to diverse RNA inputs. However, the time to design, produce, and screen high-performance RNA sensors remains a crit...
View on bioRxiv DOI

Atom-level generative foundation model for molecular interaction with pockets

bioRxiv Jan 1, 2025
Understanding molecular interactions is essential to structural biology and drug discovery. Despite the progress of AI models in revealing and exploiting the interaction mechanisms for various applications, they are predominantly tailored to specific...
View on bioRxiv DOI

Simulation-Guided Exploration of PAINT Parameter Space for Accurate Molecular Quantification

bioRxiv Jan 1, 2025
Molecular quantification using Point Accumulation for Imaging in Nanoscale Topography (PAINT) depends critically on probe kinetics, imaging conditions, and surface molecular properties. This study presents a simulation-guided framework to systematica...
View on bioRxiv DOI

rbio1 - training scientific reasoning LLMs with biological world models as soft verifiers

bioRxiv Jan 1, 2025
Reasoning Models are typically trained against verification mechanisms in formally specified systems such as code or symbolic math. However, in open domains like biology, we do not generally have access to exact rules facilitating formal verification...
View on bioRxiv DOI

Extracellular Vesicle Gene Expression Enables Sensitive Detection of Colorectal Neoplasia

bioRxiv Jan 1, 2025
Extracellular vesicles (EVs), including exosomes, are emerging as promising carriers of disease-specific biomarkers due to their molecular cargo reflective of cellular origin. While cell-free DNA (cfDNA) methylation assays have recently been develope...
View on bioRxiv DOI

Decoding Helicobacter pylori Resistance: Machine Learning–Enhanced Prediction of Antibiotic Susceptibility using Whole-Genome Sequencing

bioRxiv Jan 1, 2025
Helicobacter pylori is a significant risk factor for gastric cancer, peptic ulcers, and MALT lymphoma. Rising antibiotic resistance rates complicate treatment strategies. While nucleotide sequence based assays are reliable in predicting clarithromyci...
View on bioRxiv DOI
Popular Topics
Popular Journals