spatial domain detection

An implantable sensor network for large-scale cellular force mapping in living embryos

The paper introduces FORCENET, an implantable sensor network that maps intercellular forces in living embryos, revealing coordinated mechanical patterns regulated by developmental signaling.

Amygdala Persistence in Aging: Replication and Extension of Puccetti et al. (2021)

This paper replicates and extends Puccetti et al. (2021) by examining age-related differences in affect and amygdala connectivity using fMRI and diary data.

Enabling Spatially Resolved Gene Expression Analysis in a Multilayer Paper-Based In Vitro Tumor Model

The paper develops a workflow for spatially resolved gene expression analysis in a multilayer paper-based 3D tumor model, showing distinct spatial patterns and pharmacological responses.

APLNR regulates directed migration to spatially pattern mesoderm in human gastruloids

This study identifies APLNR as a regulator of directed mesoderm migration in human gastruloids, showing chemotactic guidance through an epithelial ligand field.

Spatial Patterns of White Matter Hyperintensities and Cognitive Function in Older Adults: A Community-Based Study

This study identifies spatial patterns of white matter hyperintensities (WMH) associated with cognitive decline in older adults using a community-based cohort.

Super-resolution imaging flow cytometry

This paper introduces super-resolution imaging flow cytometry (SR-IFC) to quantify organelle architecture heterogeneity at population scale, achieving sub-diffraction resolution in microbiology and immunology applications.

Gestational reorganization of cellular niches and communication revealed by a spatially resolved transcriptional atlas of the macaque maternal-fetal interface

This paper constructs a spatial transcriptomic atlas of the macaque maternal-fetal interface across gestation, revealing shifts in cellular composition and signaling pathways.

Spatial transcriptomics maps region and isoform specific brain alterations in mdx and mdx4cv models of Duchenne muscular dystrophy

This study uses spatial transcriptomics to compare gene expression changes in brain regions of mdx and mdx4cv DMD mouse models, revealing distinct patterns linked to dystrophin isoform loss.

Indigenous generalist pollinators shape plant-insect interaction networks across a land-use gradient on an oceanic island

The paper examines how plant-pollinator networks reorganize across a land-use gradient on Terceira Island, finding that plant species turnover drives network reshuffling and that indigenous generalist pollinators maintain network resilience.

Spatio-temporal modeling of an insect vector distribution

This study estimates the spatiotemporal distribution of the Monochamus galloprovincialis insect vector in France using Bayesian models and environmental data to improve pinewood nematode surveillance.

MHC-I downregulation is associated with immune-evasion in breast cancers with heterogeneous activation of epithelial-mesenchymal plasticity

The paper shows that in mixed E-qM breast tumors, qM cancer cells create immunosuppressive niches leading to MHC-I downregulation and immune evasion.

Spatially resolved host-fungal transcriptomics profiling by fungal-DBiT

This study introduces fungal-DBiT, a spatial transcriptomic platform that maps host and fungal RNAs in tissue sections, revealing spatial heterogeneity in fungal localization and host responses during infection and under physiological conditions.

Alpha-range neural oscillations are associated with multiple dynamic brain networks

The paper shows that alpha-range EEG oscillations are linked to dynamic BOLD brain networks, with low-alpha periods associated with unique configurations and both low- and high-alpha periods linked to overlapping networks.

Pyruvate partitioning defines an immunosuppressive metabolic niche in colorectal cancer

The paper defines a Pyruvate Partitioning Index (PPI) to analyze pyruvate metabolism across cell types and tissue space in colorectal cancer, finding it correlates with immune programs and survival.

Spatial working memory enhances gamma oscillations in rodent olfactory bulb and medial prefrontal cortex

This study shows that spatial working memory enhances low gamma oscillations in the olfactory bulb and medial prefrontal cortex of rodents, correlating with behavioral performance.

Active sensing explains cortical variability and improves visual information

The paper shows fixational eye movements in marmosets significantly contribute to neuronal variability and enhance spatial information in visual cortex.

Temporal modulation of cortical parvalbumin and somatostatin neurons shapes network activation and adaptation during microstimulation

This study investigates how PV and SOM interneurons respond to different microstimulation patterns and how their activation dynamics influence cortical network activity and adaptation.

Three-dimensional object-based quantification of nicotinic acetylcholine receptor subunit colocalization using Imaris

The paper introduces a 3D object-based workflow to quantify nicotinic acetylcholine receptor subunit colocalization using Imaris and Airyscan microscopy.

The SWAN atlas: an open multimodal resource combining neuroimaging and high-resolution histology of the human brain in stereotactic space

The paper presents the SWAN atlas, a multimodal resource combining neuroimaging and high-resolution histology of the human brain in stereotactic space to improve localization accuracy for clinical applications.

New whole slide image analysis method for detection and quantification of hepatocellular vacuolization in European flounder (Platichthys flesus) in multipollutant exposure context

The paper develops a new whole slide image analysis method to detect and quantify hepatocellular vacuolization in European flounder exposed to multiple pollutants, showing significant differences between polluted and control sites.

Spatiotemporal transcriptomic dynamic across the auditory pathway from young to old age in 5xFAD Alzheimer disease mice

The paper analyzes bulk RNA-seq data from multiple auditory regions in 5xFAD mice across ages to identify spatiotemporal gene expression changes associated with AD progression.

Adolescent prodromal phenotypes of psychiatric disorders: insights from a novel DISC1-perturbed monkey model

This paper presents a novel monkey model with impaired DISC1 gene to study adolescent prodromal phenotypes of psychiatric disorders, finding altered social behavior and disrupted brain connectivity.

Molecular anatomy of the glomerular filtration barrier reveals topology-encoded albumin sieving

The paper uses cryo-ET and transport modeling to show that the glomerular basement membrane's void-network topology restricts albumin passage, explaining selectivity in the filtration barrier.

Hierarchical distribution matching enables comprehensive characterization of common and condition-specific cell niches in spatial omics data

This paper introduces Harmonics, a framework for identifying common and condition-specific cell niches in spatial omics data, demonstrating its effectiveness across diverse datasets and diseases.

A simple platform for in situ DNA-PAINT optimization enables improved multiplexed super-resolution imaging in Gram-negative bacteria

The paper develops a platform for optimizing DNA-PAINT in Gram-negative bacteria, enabling high-quality 3D imaging of multiple targets in E. coli and Yersinia enterocolitica.

Expression of TRPMPZQ in excitable cells and sensory structures throughout the Schistosoma mansoni lifecycle

This study uses immunolocalization and single-cell RNAseq to show TRPMPZQ expression in excitable cells and sensory structures across Schistosoma mansoni life stages, with reduced expression in PZQ-resistant strains.

A miniaturized Arabidopsis thaliana - Botrytis cinerea seedling pathosystem and the GreenDayz workflow for longitudinal image-based phenotyping

Serotonergic psychedelics delay resting state neurovascular coupling dynamics

This study shows serotonergic psychedelics like LSD and DMT delay resting state neurovascular coupling, affecting hemodynamic delays and functional connectivity in brain regions with serotonin receptors.

The modular nature of long-association pathways in the human brain

Diffusion MRI tractography below 750 µm resolves the dorsal superior longitudinal fasciculus into layered fiber systems of varying length, matching macaque tracing; 1.5 mm tractography misses this.

Signatures of brain-wide functional maturation in larval zebrafish

This study characterizes brain maturation in larval zebrafish using brain-wide imaging, revealing changes in functional connectivity, network organization, and cellular activity patterns.