[HTML][HTML] The Allen mouse brain common coordinate framework: a 3D reference atlas
Recent large-scale collaborations are generating major surveys of cell types and
connections in the mouse brain, collecting large amounts of data across modalities, spatial …
connections in the mouse brain, collecting large amounts of data across modalities, spatial …
[HTML][HTML] D-LMBmap: a fully automated deep-learning pipeline for whole-brain profiling of neural circuitry
Z Li, Z Shang, J Liu, H Zhen, E Zhu, S Zhong… - Nature …, 2023 - nature.com
Recent proliferation and integration of tissue-clearing methods and light-sheet fluorescence
microscopy has created new opportunities to achieve mesoscale three-dimensional whole …
microscopy has created new opportunities to achieve mesoscale three-dimensional whole …
[HTML][HTML] 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 …
[HTML][HTML] Network neuroscience untethered: brain-wide immediate early gene expression for the analysis of functional connectivity in freely behaving animals
DJ Terstege, JR Epp - Biology, 2022 - mdpi.com
Simple Summary Understanding the relationships between sets of regions across the brain
is critical to understanding of cognitive function. The application of graph theoretical …
is critical to understanding of cognitive function. The application of graph theoretical …
[HTML][HTML] DeepSlice: rapid fully automatic registration of mouse brain imaging to a volumetric atlas
Registration of data to a common frame of reference is an essential step in the analysis and
integration of diverse neuroscientific data. To this end, volumetric brain atlases enable …
integration of diverse neuroscientific data. To this end, volumetric brain atlases enable …
[HTML][HTML] 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 …
SMDB: a spatial multimodal data browser
R Cao, Y Ling, J Meng, A Jiang, R Luo… - Nucleic Acids …, 2023 - academic.oup.com
Understanding the relationship between fine-scale spatial organization and biological
function necessitates a tool that effectively combines spatial positions, morphological …
function necessitates a tool that effectively combines spatial positions, morphological …
A diffusion MRI-based spatiotemporal continuum of the embryonic mouse brain for probing gene–neuroanatomy connections
The embryonic mouse brain undergoes drastic changes in establishing basic anatomical
compartments and laying out major axonal connections of the developing brain. Correlating …
compartments and laying out major axonal connections of the developing brain. Correlating …
Macroscopic structural and connectome mapping of the mouse brain using diffusion magnetic resonance imaging
Translational work in rodents elucidates basic mechanisms that drive complex behaviors
relevant to psychiatric and neurological conditions. Nonetheless, numerous promising …
relevant to psychiatric and neurological conditions. Nonetheless, numerous promising …
[HTML][HTML] Localization and Registration of 2D Histological Mouse Brain Images in 3D Atlas Space
M Sadeghi, A Ramos-Prats, P Neto, F Castaldi… - Neuroinformatics, 2023 - Springer
To accurately explore the anatomical organization of neural circuits in the brain, it is crucial
to map the experimental brain data onto a standardized system of coordinates. Studying 2D …
to map the experimental brain data onto a standardized system of coordinates. Studying 2D …