multiome

Precision mRNA Nanomedicine for Targeted Vascular Therapies in ARDS and Atherosclerosis

This paper develops a modular nanoparticle platform for targeted mRNA delivery to inflamed endothelial cells, showing efficacy in treating ARDS and atherosclerosis by restoring disease-related gene pathways.

Characterizing microglial signaling dynamics during inflammation using single-cell mass cytometry

This study uses single-cell mass cytometry to analyze microglial signaling dynamics during inflammation, revealing distinct responses to LPS and Poly(I:C) and the modulating effect of astrocytes.

Chemical shift and relaxation regularisation improve the accuracy of 1H MR spectroscopy analysis

This study shows that regularisation improves the accuracy of 1H MR spectroscopy analysis by reducing parameter instability and enhancing agreement between different methods.

Molecular architecture of the altered cortical complexity in autism

This study integrates neuroimaging and transcriptomic data to identify genetic pathways linked to altered cortical complexity in autism.

Electronic Polarizability Tunes the Function of the Human Bestrophin 1 Cl- Channel

The paper shows that electronic polarization is essential for accurately simulating Cl- permeation through the hBest1 channel and resolving ion-like densities in cryo-EM structures.

Predicting Future Kinetic States of Physicochemical Systems Using Generative Pre-trained Transformer

This paper shows that a transformer model can predict future states of physicochemical systems faster than traditional simulations by learning from time-discretized molecular dynamics data.

Mapping the aggregate g-ratio of white matter tracts using multi-modal MRI

This paper introduces a novel method to map the aggregate g-ratio of white matter tracts using multi-modal MRI and compares it to conventional tractometry in healthy adults.

Towards Longitudinal Characterization of Multiple Sclerosis Atrophy Employing SynthSeg Framework and Normative Modeling

This study uses deep learning and normative modeling to analyze MRI data from MS patients and identify subcortical volume deviations that improve understanding of disease progression.

Body size interacts with the structure of the central nervous system: A multi-center in vivo neuroimaging study

This study shows body size parameters significantly correlate with brain and spinal cord MRI metrics and should be included in neuroimaging studies.

Normative trajectories of R1, R2* and magnetic susceptibility in basal ganglia on healthy ageing

This study establishes normative trajectories of R1, R2*, and magnetic susceptibility in the basal ganglia across healthy ageing using Gaussian Process Regression.

Velocity-selective arterial spin labelling bolus duration measurements: Implications for consensus recommendations

This paper measures bolus duration in VSASL MRI and shows that imaging after the trailing edge arrives can underestimate perfusion, suggesting adjustments to experimental design.

Linking microscopy to diffusion MRI with degenerate biophysical models: an application of the Bayesian EstimatioN of CHange (BENCH) framework

The paper applies the BENCH framework to link diffusion MRI signal changes to microstructural features in brain tissue using histology data.

RWRtoolkit: multi-omic network analysis using random walks on multiplex networks in any species

RWRtoolkit enables multi-omic network analysis using random walks on multiplex networks across any species, providing tools for topological analysis and statistical evaluation.

A generative framework for enhanced cell-type specificity in rationally designed mRNAs

This paper introduces PARADE, a generative AI framework for designing mRNA UTRs with cell-type specificity, showing improved therapeutic efficacy in preclinical models.

Finding Salient Multi-Omic Interactomes Relevant to Multiple Biomedical Outcomes using Graph Ensemble Neural Networks

This paper introduces GENN, a method for multi-omic interactome analysis that improves prediction of biomedical outcomes by learning salient associations in a low-dimensional space.

Physically Interpretable Performance Metrics for Clustering

The paper introduces two physically interpretable clustering metrics for evaluating MD simulation data, showing they align with physical intuition across different systems.

Multimodal foundation model predicts zero-shot functional perturbations and cell fate dynamics

PertFormer, a multimodal foundation model, predicts zero-shot functional perturbations and cell fate dynamics, outperforming existing methods and identifying novel tumor treatment targets.

Efficient mRNA Delivery In Vitro and In Vivo Using a Polycharged Biodegradable Nanomaterial

This study introduces a polycharged biodegradable nanomaterial, N1-501, that efficiently delivers mRNA in vitro and in vivo across multiple cell lines and mouse models.

DDO-adjuvanted influenza A virus nucleoprotein mRNA vaccine induces robust humoral and cellular type 1 immune responses and protects mice from challenge

This paper tests DDO268 as an adjuvant for an influenza A virus nucleoprotein mRNA vaccine in mice, showing enhanced immune responses and protection against viral challenge.

OPUS-GO: An interpretable protein/RNA sequence annotation framework based on biological language model

OPUS-GO provides sequence-level and residue-level annotations for proteins and RNA sequences using a biological language model and modified MIL strategy, improving accuracy and interpretability.

Investigating the Impacts of Sphingomyelinases on Extracellular Vesicle Cargo Sorting

This study investigates how inhibiting sphingomyelinases affects extracellular vesicle cargo sorting in human cells, revealing distinct impacts on RNA and protein content and cellular behavior.

The CALERIE™ Genomic Data Resource

The paper presents a genomic data resource from a caloric restriction trial, including SNP genotypes and multi-omic longitudinal data from multiple tissues.

Patient-Derived Xenograft-Guided Prediction of Chemotherapy Response in Triple-Negative Breast Cancer

This paper develops chemotherapy-specific predictors for triple-negative breast cancer using patient-derived xenografts and multi-omic data, achieving high AUROC scores for response prediction.

Lipid-based nanoparticles deliver mRNA to reverse the pathogenesis of lysosomal acid lipase deficiency in a preclinical model

Screening of a mRNA-LNPs library yielded a formulation with outmost potency and mitigated the progression of LAL deficiency in a preclinical model.

Unexpected Kif4a functions in adult regeneration encompass a dual role in neurons and in proliferative repair Schwann cells.

This paper identifies KIF4A as a dual regulator of axonal regeneration in adult nervous systems, functioning in neurons and proliferative Schwann cells during injury.

RNA-mediated MYC multimerization suppresses innate immune signaling

This study shows that MYC multimerization driven by RNA binding suppresses innate immune signaling by promoting exosome recruitment to R-loops and preventing immunogenic RNA accumulation.

High-Throughput Quantification of miRNA-3'-Untranslated-Region Regulatory Effects

The paper quantifies miRNA regulatory effects on 3' UTRs using a high-throughput reporter assay and develops a score to predict miRNA inhibition based on seed and seedless sites.

Robust data-driven segmentation of pulsatile cerebral vessels using functional magnetic resonance imaging

This study develops an automatic method to segment cerebral arteries and superior sagittal sinus from fMRI data, showing high reproducibility across age groups.

CXIP4 depletion causes early lethality and pre-mRNA missplicing in Arabidopsis

This study shows that CXIP4 depletion in Arabidopsis causes early lethality and pre-mRNA missplicing, suggesting its role in mRNA maturation and development.

Integrated Database of Force-Field Parameters, Experimental Measurements and Molecular Dynamics Simulations

The paper introduces IDA, a database for storing and integrating MD simulation data, force fields, and experimental measurements to enhance data reuse and FAIR compliance.