bioRxiv

Showing 4721 to 4730 of 5021 articles

Complete NMR assignment for 275 of the most common dipeptides in intrinsically disordered proteins

bioRxiv Jan 1, 2025
Accurate NMR chemical shift assignments are essential for atomic-resolution characterization of proteins. Especially for intrinsically disordered proteins (IDPs) and regions (IDRs), however, the assignment remains a labor-intensive task due to spectr...
View on bioRxiv DOI

Trial-by-trial inter-areal interactions in visual cortex in the presence or absence of visual stimulation

bioRxiv Jan 1, 2025
State-of-the-art computational models of vision largely focus on fitting trial-averaged spike counts to visual stimuli using overparameterized neural networks. However, a computational model of the visual cortex should predict the dynamic responses o...
View on bioRxiv DOI

MicroGenomer: A Foundation Model for Transferable Microbial Genome Representations Enabling Multi-scale Genomic Understanding and Ecophysiological Trait Prediction

bioRxiv Jan 1, 2025
Microorganisms underpin global biogeochemical cycles and represent a vast, underexplored reservoir for sustainable biotechnology and human health. Their diversity, arising from the interplay of numerous genes within holistic genomic contexts, dictate...
View on bioRxiv DOI

CancerSTFormer enables multi-scale analysis of spot-resolution spatial transcriptomes and dissects gene and immune regulatory responses to targeted therapies

bioRxiv Jan 1, 2025
The growing number of spot-resolution sequencing based spatial transcriptomic (ST) datasets provides an unprecedented opportunity to study multicellular spatial niches driving cancer transitions. However studying niche-level behavior of tumors remain...
View on bioRxiv DOI

A large-scale dataset of functional mouse ganglion cell layer responses

bioRxiv Jan 1, 2025
We present the All-GCL dataset, a large-scale resource of functional two-photon Ca2+-imaging recordings with rich meta-data information from more than 80,000 cells in the ganglion cell layer (GCL) of the ex vivo mouse retina. Collected over nine year...
View on bioRxiv DOI

ProteinDJ: a high-performance and modular protein design pipeline

bioRxiv Jan 1, 2025
Leveraging artificial intelligence and deep learning to generate proteins de novo (a.k.a. ‘synthetic proteins’) has unlocked new frontiers of protein design. Deep learning models trained on protein structures can generate novel protein designs that e...
View on bioRxiv DOI

Probabilistic Modelling of Prime Editing Variant Correction Efficiency

bioRxiv Jan 1, 2025
Prime editing has emerged as a versatile genome editing, technology capable of installing precise genetic modifications without requiring double-strand breaks or donor templates. However, designing pegRNAs with high editing efficiency remains a chall...
View on bioRxiv DOI

lncAPNet enables the deciphering of lncRNA–mRNA connections in patient transcriptomic data

bioRxiv Jan 1, 2025
Long non-coding RNAs (lncRNAs) regulate gene expression through chromatin remodeling, transcriptional control, and post-transcriptional modulation, influencing physiological cell homeostasis but also disease onset. Yet most transcriptomic and network...
View on bioRxiv DOI

Systematic comparison of color representations between humans and deep neural networks: towards predicting human color perception in a vast color space

bioRxiv Jan 1, 2025
The representational structure of human color perception, particularly within vast color spaces, remains incompletely understood. While representational structures for dozens of colors have been studied, exploring structures spanning hundreds or thou...
View on bioRxiv DOI

Pseudodynamics+: Reconstructing Population Dynamics from Time-Resolved Single Cell Landscapes with Physics Informed Neural Networks

bioRxiv Jan 1, 2025
Single-cell profiling provides snapshots of the heterogeneous states that characterise developmental processes, organ regeneration and progression towards disease in a complex landscape. The underlying trajectories are of pivotal interest, but existi...
View on bioRxiv DOI
Popular Topics
Popular Journals