A survey of methods for 3D histology reconstruction
Histology permits the observation of otherwise invisible structures of the internal topography
of a specimen. Although it enables the investigation of tissues at a cellular level, it is invasive …
of a specimen. Although it enables the investigation of tissues at a cellular level, it is invasive …
Impairment of glycolysis-derived l-serine production in astrocytes contributes to cognitive deficits in Alzheimer's disease
Alteration of brain aerobic glycolysis is often observed early in the course of Alzheimer's
disease (AD). Whether and how such metabolic dysregulation contributes to both synaptic …
disease (AD). Whether and how such metabolic dysregulation contributes to both synaptic …
Scaling up cell-counting efforts in neuroscience through semi-automated methods
Quantifying how the cellular composition of brain regions vary across development, aging,
sex, and disease, is crucial in experimental neuroscience, and the accuracy of different …
sex, and disease, is crucial in experimental neuroscience, and the accuracy of different …
Waxholm Space atlas of the rat brain: A 3D atlas supporting data analysis and integration
Volumetric brain atlases are increasingly used to integrate and analyze diverse
experimental neuroscience data acquired from animal models, but until recently a publicly …
experimental neuroscience data acquired from animal models, but until recently a publicly …
Spatial registration of serial microscopic brain images to three-dimensional reference atlases with the QuickNII tool
Modern high throughput brain wide profiling techniques for cells and their morphology,
connectivity, and other properties, make the use of reference atlases with 3D coordinate …
connectivity, and other properties, make the use of reference atlases with 3D coordinate …
A tool for analyzing electrode tracks from slice histology
It is now possible to record from hundreds of neurons across multiple brain regions in a
single electrophysiology experiment. An essential step in the ensuing data analysis is to …
single electrophysiology experiment. An essential step in the ensuing data analysis is to …
QUINT: workflow for quantification and spatial analysis of features in histological images from rodent brain
Transgenic animal models are invaluable research tools for elucidating the pathways and
mechanisms involved in the development of neurodegenerative diseases. Mechanistic clues …
mechanisms involved in the development of neurodegenerative diseases. Mechanistic clues …
Nutil: a pre-and post-processing toolbox for histological rodent brain section images
With recent technological advances in microscopy and image acquisition of tissue sections,
further developments of tools are required for viewing, transforming, and analyzing the ever …
further developments of tools are required for viewing, transforming, and analyzing the ever …
AtOM, an ontology model to standardize use of brain atlases in tools, workflows, and data infrastructures
Brain atlases are important reference resources for accurate anatomical description of
neuroscience data. Open access, three-dimensional atlases serve as spatial frameworks for …
neuroscience data. Open access, three-dimensional atlases serve as spatial frameworks for …
A multimodal computational pipeline for 3D histology of the human brain
Ex vivo imaging enables analysis of the human brain at a level of detail that is not possible
in vivo with MRI. In particular, histology can be used to study brain tissue at the microscopic …
in vivo with MRI. In particular, histology can be used to study brain tissue at the microscopic …