Tissue Clearing and Expansion Methods for Imaging Brain Pathology in Neurodegeneration: From Circuits to Synapses and Beyond

Cellular and Molecular Probing of Intact Human Organs

(2020) Shan Zhao et al.   CELL

Clearing techniques for visualizing the nervous system in development, injury, and disease

(2020) Demisha D.L. Porter et al.   JOURNAL OF NEUROSCIENCE METHODS

MINFLUX nanoscopy delivers 3D multicolor nanometer resolution in cells

(2020) Klaus C. Gwosch et al.   NATURE METHODS

Tissue clearing and its applications in neuroscience

(2020) Hiroki R. Ueda et al.   NATURE REVIEWS NEUROSCIENCE

Nucleocytoplasmic Proteomic Analysis Uncovers eRF1 and Nonsense-Mediated Decay as Modifiers of ALS/FTD C9orf72 Toxicity

(2020) Juan A. Ortega et al.   NEURON

Nanoscale imaging of clinical specimens using conventional and rapid-expansion pathology

(2020) Octavian Bucur et al.   Nature Protocols

Super-resolution microscopy reveals majorly mono- and dimeric presenilin1/γ-secretase at the cell surface

(2020) Abril Angélica Escamilla-Ayala et al.   eLife

Modernization of Golgi staining techniques for high-resolution, 3-dimensional imaging of individual neurons

(2019) Katlijn Vints et al.   Scientific Reports

Applications of Light-Sheet Microscopy in Microdevices

(2019) Ignacio Albert-Smet et al.   Frontiers in Neuroanatomy

A practical guide to optimization in X10 expansion microscopy

(2019) Sven Truckenbrodt et al.   Nature Protocols

Multi-sensory Gamma Stimulation Ameliorates Alzheimer’s-Associated Pathology and Improves Cognition

(2019) Anthony J. Martorell et al.   CELL

Neuropathy-causing mutations in HSPB1 impair autophagy by disturbing the formation of SQSTM1/p62 bodies

(2019) Mansour Haidar et al.   Autophagy

Cellular and regional vulnerability in frontotemporal tauopathies

(2019) Shelley L. Forrest et al.   ACTA NEUROPATHOLOGICA

Light-Sheet Microscopy in Neuroscience

(2019) Elizabeth M.C. Hillman et al.   Annual Review of Neuroscience

The mesoSPIM initiative: open-source light-sheet microscopes for imaging cleared tissue

(2019) Fabian F. Voigt et al.   NATURE METHODS

Expansion Microscopy: Scalable and Convenient Super-Resolution Microscopy

(2019) Paul W. Tillberg et al.   Annual Review of Cell and Developmental Biology

Light-sheet microscopy of cleared tissues with isotropic, subcellular resolution

(2019) Tonmoy Chakraborty et al.   NATURE METHODS

Deep Learning Reveals Cancer Metastasis and Therapeutic Antibody Targeting in the Entire Body

(2019) Chenchen Pan et al.   CELL

Advances in cryo-electron tomography for biology and medicine

(2018) Roman I. Koning et al.   ANNALS OF ANATOMY-ANATOMISCHER ANZEIGER

Hydrogel-Tissue Chemistry: Principles and Applications

(2018) Viviana Gradinaru et al.   Annual Review of Biophysics

X10 expansion microscopy enables 25‐nm resolution on conventional microscopes

(2018) Sven Truckenbrodt et al.   EMBO REPORTS

A three-dimensional single-cell-resolution whole-brain atlas using CUBIC-X expansion microscopy and tissue clearing

(2018) Tatsuya C. Murakami et al.   NATURE NEUROSCIENCE

Synaptic nanomodules underlie the organization and plasticity of spine synapses

(2018) Martin Hruska et al.   NATURE NEUROSCIENCE

ALS Genes in the Genomic Era and their Implications for FTD

(2018) Hung Phuoc Nguyen et al.   TRENDS IN GENETICS

Selective vulnerability in neurodegenerative diseases

(2018) Hongjun Fu et al.   NATURE NEUROSCIENCE

Chemical Landscape for Tissue Clearing Based on Hydrophilic Reagents

(2018) Kazuki Tainaka et al.   Cell Reports

Protection of tissue physicochemical properties using polyfunctional crosslinkers

(2018) Young-Gyun Park et al.   NATURE BIOTECHNOLOGY

Super-resolution microscopy demystified

(2018) Lothar Schermelleh et al.   NATURE CELL BIOLOGY

Expansion microscopy: principles and uses in biological research

(2018) Asmamaw T. Wassie et al.   NATURE METHODS

Panoptic imaging of transparent mice reveals whole-body neuronal projections and skull–meninges connections

(2018) Ruiyao Cai et al.   NATURE NEUROSCIENCE

Voxel-Based Statistical Analysis of 3D Immunostained Tissue Imaging

(2018) Michel E. Vandenberghe et al.   Frontiers in Neuroscience

Subcellular reorganization and altered phosphorylation of the astrocytic gap junction protein connexin43 in human and experimental temporal lobe epilepsy

(2017) Tushar Deshpande et al.   GLIA

Nanoscale imaging of clinical specimens using pathology-optimized expansion microscopy

(2017) Yongxin Zhao et al.   NATURE BIOTECHNOLOGY

Iterative expansion microscopy

(2017) Jae-Byum Chang et al.   NATURE METHODS

Physico-Pathologic Mechanisms Involved in Neurodegeneration: Misfolded Protein-Plasma Membrane Interactions

(2017) Amulya Nidhi Shrivastava et al.   NEURON

Chemical Principles in Tissue Clearing and Staining Protocols for Whole-Body Cell Profiling

(2016) Kazuki Tainaka et al.   Annual Review of Cell and Developmental Biology

Multiplexed Intact-Tissue Transcriptional Analysis at Cellular Resolution

(2016) Emily Lauren Sylwestrak et al.   CELL

Mapping of Brain Activity by Automated Volume Analysis of Immediate Early Genes

(2016) Nicolas Renier et al.   CELL

Lamin Dysfunction Mediates Neurodegeneration in Tauopathies

(2016) Bess Frost et al.   CURRENT BIOLOGY

STED imaging of tau filaments in Alzheimer’s disease cortical grey matter

(2016) Aleš Benda et al.   JOURNAL OF STRUCTURAL BIOLOGY

Advanced imaging of tau pathology in Alzheimer Disease: New perspectives from super resolution microscopy and label-free nanoscopy

(2016) Gabriele S. Kaminski Schierle et al.   MICROSCOPY RESEARCH AND TECHNIQUE

Protein-retention expansion microscopy of cells and tissues labeled using standard fluorescent proteins and antibodies

(2016) Paul W Tillberg et al.   NATURE BIOTECHNOLOGY

Multiplexed and scalable super-resolution imaging of three-dimensional protein localization in size-adjustable tissues

(2016) Taeyun Ku et al.   NATURE BIOTECHNOLOGY

Shrinkage-mediated imaging of entire organs and organisms using uDISCO

(2016) Chenchen Pan et al.   NATURE METHODS

Striosome–dendron bouquets highlight a unique striatonigral circuit targeting dopamine-containing neurons

(2016) Jill R. Crittenden et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Three-Dimensional Study of Alzheimer’s Disease Hallmarks Using the iDISCO Clearing Method

(2016) Thomas Liebmann et al.   Cell Reports

Super-Resolution Mapping of Neuronal Circuitry With an Index-Optimized Clearing Agent

(2016) Meng-Tsen Ke et al.   Cell Reports

Real-time imaging of Huntingtin aggregates diverting target search and gene transcription

(2016) Li Li et al.   eLife

Super-resolution microscopy reveals γ-secretase at both sides of the neuronal synapse

(2016) Sophia Schedin-Weiss et al.   Acta Neuropathologica Communications

3D Visualization of the Temporal and Spatial Spread of Tau Pathology Reveals Extensive Sites of Tau Accumulation Associated with Neuronal Loss and Recognition Memory Deficit in Aged Tau Transgenic Mice

(2016) Hongjun Fu et al.   PLoS One

Simple, Scalable Proteomic Imaging for High-Dimensional Profiling of Intact Systems

(2015) Evan Murray et al.   CELL

Clarifying Tissue Clearing

(2015) Douglas S. Richardson et al.   CELL

ScaleS: an optical clearing palette for biological imaging

(2015) Hiroshi Hama et al.   NATURE NEUROSCIENCE

Spreading of pathology in neurodegenerative diseases: a focus on human studies

(2015) Johannes Brettschneider et al.   NATURE REVIEWS NEUROSCIENCE

Progressive nigrostriatal terminal dysfunction and degeneration in the engrailed1 heterozygous mouse model of Parkinson's disease

(2015) Ulrika Nordström et al.   NEUROBIOLOGY OF DISEASE

Bringing CLARITY to the human brain: visualization of Lewy pathology in three dimensions

(2015) A. K. L. Liu et al.   NEUROPATHOLOGY AND APPLIED NEUROBIOLOGY

Delayed emergence of subdiffraction-sized mutant huntingtin fibrils following inclusion body formation

(2015) Steffen J. Sahl et al.   QUARTERLY REVIEWS OF BIOPHYSICS

Expansion microscopy

(2015) F. Chen et al.   SCIENCE

Loss of GPR3 reduces the amyloid plaque burden and improves memory in Alzheimer’s disease mouse models

(2015) Yunhong Huang et al.   Science Translational Medicine

Super-Resolution Fluorescence of Huntingtin Reveals Growth of Globular Species into Short Fibers and Coexistence of Distinct Aggregates

(2014) Whitney C. Duim et al.   ACS Chemical Biology

Inside Alzheimer brain with CLARITY: senile plaques, neurofibrillary tangles and axons in 3-D

(2014) Kunie Ando et al.   ACTA NEUROPATHOLOGICA

Whole-Brain Imaging with Single-Cell Resolution Using Chemical Cocktails and Computational Analysis

(2014) Etsuo A. Susaki et al.   CELL

iDISCO: A Simple, Rapid Method to Immunolabel Large Tissue Samples for Volume Imaging

(2014) Nicolas Renier et al.   CELL

Advanced CLARITY for rapid and high-resolution imaging of intact tissues

(2014) Raju Tomer et al.   Nature Protocols

Structural and molecular interrogation of intact biological systems

(2013) Kwanghun Chung et al.   NATURE

SeeDB: a simple and morphology-preserving optical clearing agent for neuronal circuit reconstruction

(2013) Meng-Tsen Ke et al.   NATURE NEUROSCIENCE

Superresolution imaging for neuroscience

(2012) Jan Tønnesen et al.   EXPERIMENTAL NEUROLOGY

Three-dimensional imaging of solvent-cleared organs using 3DISCO

(2012) Ali Ertürk et al.   Nature Protocols

Synapses and Alzheimer's Disease

(2012) M. Sheng et al.   Cold Spring Harbor Perspectives in Biology

Long-term memory deficits in Huntington's disease are associated with reduced CBP histone acetylase activity

(2011) A. Giralt et al.   HUMAN MOLECULAR GENETICS

Three-dimensional imaging of the unsectioned adult spinal cord to assess axon regeneration and glial responses after injury

(2011) Ali Ertürk et al.   NATURE MEDICINE

Scale: a chemical approach for fluorescence imaging and reconstruction of transparent mouse brain

(2011) Hiroshi Hama et al.   NATURE NEUROSCIENCE

Dendritic spine pathology in neuropsychiatric disorders

(2011) Peter Penzes et al.   NATURE NEUROSCIENCE

The Big and the Small: Challenges of Imaging the Brain's Circuits

(2011) J. W. Lichtman et al.   SCIENCE