Museum of spatial transcriptomics

L Moses, L Pachter - Nature methods, 2022 - nature.com
The function of many biological systems, such as embryos, liver lobules, intestinal villi, and
tumors, depends on the spatial organization of their cells. In the past decade, high …

From cell types to an integrated understanding of brain evolution: the case of the cerebral cortex

MA Tosches - Annual Review of Cell and Developmental …, 2021 - annualreviews.org
With the discovery of the incredible diversity of neurons, Cajal and coworkers laid the
foundation of modern neuroscience. Neuron types are not only structural units of nervous …

Visualizing anatomically registered data with brainrender

F Claudi, AL Tyson, L Petrucco, TW Margrie… - Elife, 2021 - elifesciences.org
Three-dimensional (3D) digital brain atlases and high-throughput brain-wide imaging
techniques generate large multidimensional datasets that can be registered to a common …

Candelabrum cells are ubiquitous cerebellar cortex interneurons with specialized circuit properties

T Osorno, S Rudolph, T Nguyen, V Kozareva… - Nature …, 2022 - nature.com
To understand how the cerebellar cortex transforms mossy fiber (MF) inputs into Purkinje
cell (PC) outputs, it is vital to delineate the elements of this circuit. Candelabrum cells (CCs) …

Common cell type nomenclature for the mammalian brain

JA Miller, NW Gouwens, B Tasic, F Collman… - Elife, 2020 - elifesciences.org
The advancement of single-cell RNA-sequencing technologies has led to an explosion of
cell type definitions across multiple organs and organisms. While standards for data and …

Dissociable roles of pallidal neuron subtypes in regulating motor patterns

Q Cui, A Pamukcu, S Cherian, IYM Chang… - Journal of …, 2021 - Soc Neuroscience
We have previously established that PV+ neurons and Npas1+ neurons are distinct neuron
classes in the external globus pallidus (GPe): they have different topographical …

Consistent cross-modal identification of cortical neurons with coupled autoencoders

R Gala, A Budzillo, F Baftizadeh, J Miller… - Nature computational …, 2021 - nature.com
Consistent identification of neurons in different experimental modalities is a key problem in
neuroscience. Although methods to perform multimodal measurements in the same set of …

Petabyte-scale multi-morphometry of single neurons for whole brains

S Jiang, Y Wang, L Liu, L Ding, Z Ruan, HW Dong… - Neuroinformatics, 2022 - Springer
Recent advances in brain imaging allow producing large amounts of 3-D volumetric data
from which morphometry data is reconstructed and measured. Fine detailed structural …

[HTML][HTML] Systems biology approaches to unravel the molecular and genetic architecture of Alzheimer's disease and related tauopathies

E Miyoshi, S Morabito, V Swarup - Neurobiology of disease, 2021 - Elsevier
Over the years, genetic studies have identified multiple genetic risk variants associated with
neurodegenerative disorders and helped reveal new biological pathways and genes of …

In situ electro-sequencing in three-dimensional tissues

Q Li, Z Lin, R Liu, X Tang, J Huang, Y He, H Zhou… - BioRxiv, 2021 - biorxiv.org
Pairwise map** of single-cell gene expression and electrophysiology in intact three-
dimensional (3D) tissues is crucial for studying electrogenic organs (eg, brain and heart) …