multiome

IFN gamma-induced IRF1 synergizes with TLR7 signals to tune the IRF4-IRF8 axis and drive pathogenic effector B cell fate

The paper shows IRF1 regulates B cell fate by modulating the IRF4-IRF8 axis, promoting pathogenic effector B cells in SLE.

Cooperative Architecture of Mitochondrial Proteome Homeostasis

The paper investigates mitochondrial proteome homeostasis through multiomic analyses of gene perturbations, revealing post-transcriptional regulation and new protein functions.

Single Platform Solution for Identity and Quantification of Influenza Hemagglutinin (HA) mRNA Constructs and Resulting Expressed Proteins for Application to Influenza mRNA Vaccines

The paper presents two assays for analyzing influenza mRNA vaccines: a DNA microarray for mRNA identity and quantity, and a multiplexed immunoassay for protein expression.

Primed responses to damage signals mediate mycorrhiza-induced resistance in tomato plants

This study shows mycorrhizal tomato plants are more sensitive to damage signals, leading to primed defense responses and increased resistance to Botrytis cinerea.

Single-Cell Multiomics Reveals Regulatory Mechanisms of CAR T Cell Persistence and Dysfunction in Multiple Myeloma

This study uses single-cell multiomics to analyze CAR T cell dynamics in multiple myeloma, identifying regulatory mechanisms affecting persistence and dysfunction.

Reversible RNA Acylating Reagents with Nitro Reduction Strategy

This study develops reversible RNA acylating reagents using a nitro reduction strategy and demonstrates their ability to modulate RNA function and translational activity in vitro and in cells.

Selective targeting of type II tRNAs underlies SLFN14-mediated translational repression and its dysregulation by thrombocytopenia-linked mutations

This study identifies SLFN14 as a ribosome-associated endoribonuclease that represses translation by selectively cleaving type II tRNAs, and shows how mutations linked to thrombocytopenia disrupt this mechanism.

Multi-omics dissection of Parkinson's patient subgroups associated with motor and cognitive severity

The paper uses multi-omics data to identify molecular factors associated with motor and cognitive severity in Parkinson's disease and stratifies patients into subgroups with distinct severity profiles.

Targeted Delivery of Nucleic Acid and Protein Cargos into Primary Human Hematopoietic Stem Cells Using Bacteriophage T4

This paper develops a bacteriophage T4-based nanoparticle vector to deliver mRNA and protein payloads into primary human hematopoietic stem cells with up to 20% efficiency.

High-throughput in vivo screening using barcoded mRNA identifies lipid nanoparticles with extrahepatic tropism for cancer immunotherapy

Mechanism of ATXN8OS CTA/CTG repeat-associated non-AUG translation revealed by approaches ranging from cell-free translation to live-cell imaging.

This study identifies the mechanism of ATXN8OS CTA/CTG repeat-associated non-AUG translation through cell-free systems and live-cell imaging, revealing frameshifting and stress response involvement.

Hierarchical Analysis of RNA Secondary Structures with Pseudoknots Based on Sections

This paper introduces a hierarchical method for predicting RNA pseudoknots by analyzing local energy gains between sections of unpaired bases, showing high accuracy and computational efficiency.

Pan-genome and multi-omics analyses reveal the genomic basis of symbiotic evolution in the mycoheterotrophic medicinal orchid Gastrodia elata

This study uses pan-genome and multi-omics analyses to investigate the genomic basis of mycoheterotrophy in Gastrodia elata, revealing gene loss, regulatory co-option, and specialized nutrient acquisition mechanisms.

Polymer-lipid hybrid nanoparticle enhances mRNA delivery and T cell-mediated immunity

This study develops a polymer-lipid hybrid nanoparticle (PLNP) to enhance mRNA delivery and T cell immunity, showing improved antigen-specific T cell responses and protection against viral variants and cancer.

Standardized brain and plasma EV enrichment pipeline validated for Single sample multi-Omic and fatty acids applications in Mouse and Human

The paper presents a standardized workflow for multi-omic profiling of brain and plasma-derived EVs from minimal human and mouse material, revealing tissue-specific and species-specific molecular signatures.

X-intNMF: A Cross- and Intra-Omics Regularized NMF Framework for Multi-Omics Integration

X-intNMF improves multi-omics integration by modeling both cross-omics and intra-omics interactions, outperforming existing methods in cancer phenotype prediction and survival analysis.

Resting-state and task-related neurometabolite levels differentially relate to cortical excitability in the sensorimotor and prefrontal cortex

The paper examines how neurometabolite levels relate to cortical excitability in sensorimotor and prefrontal cortex using TMS-EEG and MRS, finding task-related GABA levels predict TEPs in sensorimotor cortex while resting-state levels predict DLPFC responses.

BCLAF1 links RNA splicing to ATF4-dependent metabolic adaptation in acute myeloid leukemia

This study identifies BCLAF1 as a regulator linking RNA splicing to ATF4-dependent metabolic adaptation in AML, showing its role in sustaining leukemic cell survival and sensitivity to venetoclax.

Signal space beamforming for gain- and geometry-independent interference suppression in wearable MEG

This paper introduces signal space beamforming (SSB) to suppress interference in wearable MEG data without requiring precise sensor gain or geometry calibration, validated on epileptic and neurodevelopmental datasets.

AURKB-driven dissolution of CIZ1-RNA assemblies from the inactive X chromosome in mitosis

This paper shows that AURKB drives the dissolution of CIZ1-RNA assemblies from the inactive X chromosome during mitosis by phosphorylating CIZ1's C-terminal extensions, disrupting its RNA interactions.

Fast Adversarial Generation of Molecular Dynamics Trajectories with Kinetic Fidelity

This paper introduces a GAN-based method to generate molecular dynamics trajectories with kinetic fidelity, enabling efficient sampling of rare events in complex systems.

Prostaglandin E2 is a Negative Regulator of Fibroadipogenic Progenitor Differentiation in Traumatically Denervated Skeletal Muscle

This study shows that prostaglandin E2 inhibits fibroadipogenic progenitor differentiation in denervated skeletal muscle, offering potential therapeutic strategies for muscle regeneration.

BiOmics: A Foundational Agent for Grounded and Autonomous Multi-omics Interpretation

BiOmics introduces an AI agent that improves multi-omics interpretation by combining reasoning and embedding spaces, outperforming existing methods in variant discovery, cell annotation, and drug repurposing.

Biochemical principles of miRNA targeting in flies

The paper identifies and characterizes miRNA binding sites in Drosophila using RNA Bind-n-Seq, revealing differences in binding site diversity and affinity compared to mammals.

Modular mRNA LNP design integrates RNA, lipid, and antigen engineering for protective vaccination

This paper designs an mRNA-LNP vaccine by integrating RNA, lipid, and antigen engineering to achieve 90% protection in a murine model.

Identification of an epigenetically and phenotypically distinct peritumoral glioblastoma cell population linked to inferior patient outcome

The paper identifies a distinct peritumoral glioblastoma cell population with unique epigenetic and phenotypic features associated with poor patient outcomes.

Grape Expectations: Disentangling Environmental Drivers of Microbiome Establishment in Winegrowing Ecosystems

This study investigates environmental drivers of microbial communities in Swiss vineyards using multi-omics data and machine learning to link microbiome composition to wine characteristics.

Elevated levels of intracellular RNA lariats suppress the antiviral response

The paper shows that accumulation of intracellular RNA lariats in DBR1-null cells reduces antiviral response by desensitizing dsRNA sensors.

System-wide extraction of cis-regulatory rules from sequence-to-function models in human neural development

The paper extracts cis-regulatory rules from sequence-to-function models in human neural development using new single-cell multiome data and a computational tool called TF-MINDI.

Tau-induced ribosomal collisions impair memory through the activation of the integrated stress response

This study shows that tau mutations slow ribosomal elongation, causing collisions that activate the integrated stress response, impairing memory and contributing to neurodegeneration.