spatial domain detection

Decoder-FFPE-seq improves sensitivity and resolution for spatial transcriptomics in FFPE tissues, enabling analysis of rare genes and tumor microenvironments.

This study develops LiFEx to correlate live-cell imaging with expansion microscopy, revealing membrane changes linked to bacterial dissemination.

The paper shows that SST neurons become selectively coordinated with behaviorally relevant excitatory populations during motor skill learning.

This paper introduces FLEXOM, a microfluidic platform for continuous 3D topographic profiling of tissue monolayers, revealing distinct vertical thickness profiles and anisotropic remodeling responses.

This study estimates eye torsion during walking using head-mounted technology and shows its role in altering retinal flow for self-motion parameter extraction.

The paper shows two architectural gradients in human visual cortex that correlate with structural, functional, and behavioral traits across the lifespan.

This study examines how physical exercise affects osteocyte lacunar morphology and orientation around bioresorbable implants in rats, showing increased lacunar size and altered orientation with exercise.

The paper introduces FICTURE2, a statistical model that infers transcriptional programs from individual RNA molecules in spatial transcriptomics data, revealing spatial organization and cellular identity without segmentation.

This study identifies the olfactory organ in bobtail squid as a site for detecting and retaining symbiotic bacteria through cilia-driven vortices, distinct from the light organ.

This study examines early transcriptomic responses to Toxoplasma gondii infection in pregnant sheep, identifying tissue-specific immune and stress pathways linked to fetal loss.

This study reveals synchronized temporal dynamics in the mouse gut microbiome using high-resolution sampling and analysis methods, showing phase-coherent groups linked to host circadian cycles.

The paper compares five algorithms for deriving structural covariance networks in the thalamocortical system and finds they emphasize different neurobiological aspects based on their mathematical properties.

This study investigates age-related changes in visual short-term memory using fMRI decoding, finding that visual cortex representations weaken with age and load, while frontoparietal regions compensate by strengthening during memory maintenance.

The paper examines the localization of tRNA-splicing ligase complex proteins in SCA4 pontine neurons, finding their accumulation in neuronal intranuclear inclusions.

This study develops a model linking nuclear hydration to chromatin phase organization and mechanics, showing how osmotic and mechanical cues influence chromatin structure through water content and histone dynamics.

The paper shows that visual attention samples space in a hexagonal pattern guided by theta rhythms, similar to spatial navigation mechanisms.

This study develops auxin reporters for oilseed rape to visualize and quantify auxin distribution and signaling during development and stress.

This study compares transcriptional differences between pre- and post-involution PA-TNBC tissues using spatial transcriptomics, identifying distinct inflammatory and chromatin remodeling patterns in post-involution tumors.

This study uses in utero MRI and computational models to show that radial glial fibers influence fetal cortical folding through biomechanical modulation.

This paper uses HiP-CT to image the human spine at high resolution, revealing multiscale anatomy and microstructural features without exogenous contrast.

This study identifies three splicing regulation patterns mediated by UAP56 and URH49 and their association with mRNA export pathways.

This study uses functional ultrasound imaging to map brain and spinal cord activity during micturition in rats, revealing region-specific hemodynamic responses and decoding bladder pressure dynamics.

Spatialsnake provides a flexible workflow for spatial transcriptomics analysis across multiple platforms, enabling analysis of selected populations and tissue regions with adjustable parameters.

This study identifies metabolic and transcriptional changes in soybean during soybean cyst nematode infection, revealing immune system remodeling and co-option of symbiotic processes.

This study examines how marine prokaryotes respond transcriptionally to Fe-rich colloids from glacial and non-glacial sources, revealing contrasting growth and metabolic responses.

This study investigates how gene context influences the spatial organization and transcriptional behavior of extrachromosomal DNA in cancer cells using a new imaging method called FLAGx.

The paper maps m6A modifications and polyadenylation events in Plasmodium falciparum mRNAs, identifying stage-specific m6A sites and their potential role in 3' end processing.

The paper uses multi-region recordings in mice to show that gamma communication between hippocampal CA3 and amygdala collapses abruptly at seizure onset.

The paper identifies a novel neural code in the mouse medial frontal cortex that supports spatial generalization through extrapolation of coordinates across regions.