Connectomic Analysis of Brain Networks: Novel Techniques and Future Directions

Panoptic Neuroanatomy: Digital Microscopy of Whole Brains and Brain-Wide Circuit Mapping

(2017) Partha P. Mitra et al.   BRAIN BEHAVIOR AND EVOLUTION

Extracting structural and functional features of widely distributed biological circuits with single cell resolution via tissue clearing and delivery vectors

(2016) Jennifer Brooke Treweek et al.   CURRENT OPINION IN BIOTECHNOLOGY

High-Throughput Mapping of Single-Neuron Projections by Sequencing of Barcoded RNA

(2016) Justus M. Kebschull et al.   NEURON

Strategies and Tools for Combinatorial Targeting of GABAergic Neurons in Mouse Cerebral Cortex

(2016) Miao He et al.   NEURON

Whole Brain Imaging with Serial Two-Photon Tomography

(2016) Stephen P. Amato et al.   Frontiers in Neuroanatomy

A Simple and Efficient In Vivo Non-viral RNA Transfection Method for Labeling the Whole Axonal Tree of Individual Adult Long-Range Projection Neurons

(2016) César Porrero et al.   Frontiers in Neuroanatomy

A platform for brain-wide imaging and reconstruction of individual neurons

(2016) Michael N Economo et al.   eLife

Reconstruction and Simulation of Neocortical Microcircuitry

(2015) Henry Markram et al.   CELL

Clarifying Tissue Clearing

(2015) Douglas S. Richardson et al.   CELL

Saturated Reconstruction of a Volume of Neocortex

(2015) Narayanan Kasthuri et al.   CELL

Dendritic and Axonal Architecture of Individual Pyramidal Neurons across Layers of Adult Human Neocortex

(2015) Hemanth Mohan et al.   CEREBRAL CORTEX

Feeding the human brain model

(2015) Paul Tiesinga et al.   CURRENT OPINION IN NEUROBIOLOGY

Directional Trans -Synaptic Labeling of Specific Neuronal Connections in Live Animals

(2015) Muriel Desbois et al.   GENETICS

High-resolution whole-brain staining for electron microscopic circuit reconstruction

(2015) Shawn Mikula et al.   NATURE METHODS

Correlated light and electron microscopy: ultrastructure lights up!

(2015) Pascal de Boer et al.   NATURE METHODS

Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping

(2015) Jennifer B Treweek et al.   Nature Protocols

The beginning of connectomics: a commentary on White et al. (1986) 'The structure of the nervous system of the nematode Caenorhabditis elegans'

(2015) S. W. Emmons   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Virtual rat brain fails to impress its critics

(2015) K. Kupferschmidt   SCIENCE

Visible rodent brain-wide networks at single-neuron resolution

(2015) Jing Yuan et al.   Frontiers in Neuroanatomy

FIB/SEM technology and high-throughput 3D reconstruction of dendritic spines and synapses in GFP-labeled adult-generated neurons

(2015) Carles Bosch et al.   Frontiers in Neuroanatomy

Neuroanatomy goes viral!

(2015) Jonathan J. Nassi et al.   Frontiers in Neuroanatomy

The anatomical problem posed by brain complexity and size: a potential solution

(2015) Javier DeFelipe   Frontiers in Neuroanatomy

Bayesian Estimation of Conditional Independence Graphs Improves Functional Connectivity Estimates

(2015) Max Hinne et al.   PLoS Computational Biology

Directional Trans -Synaptic Labeling of Specific Neuronal Connections in Live Animals

(2015) Muriel Desbois et al.   GENETICS

New developments in electron microscopy for serial image acquisition of neuronal profiles

(2015) Yoshiyuki Kubota   Microscopy

Fluorescent-Protein Stabilization and High-Resolution Imaging of Cleared, Intact Mouse Brains

(2015) Martin K. Schwarz et al.   PLoS One

Visualization of Sensory Neurons and Their Projections in an Upper Motor Neuron Reporter Line

(2015) Barış Genç et al.   PLoS One

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

(2014) Kunie Ando et al.   ACTA NEUROPATHOLOGICA

Improved application of the electrophoretic tissue clearing technology, CLARITY, to intact solid organs including brain, pancreas, liver, kidney, lung, and intestine

(2014) Hyunsu Lee et al.   BMC DEVELOPMENTAL BIOLOGY

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

(2014) Etsuo A. Susaki et al.   CELL

Single-Cell Phenotyping within Transparent Intact Tissue through Whole-Body Clearing

(2014) Bin Yang et al.   CELL

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

(2014) Nicolas Renier et al.   CELL

Neural Networks of the Mouse Neocortex

(2014) Brian Zingg et al.   CELL

Investigating CNS synaptogenesis at single-synapse resolution by combining reverse genetics with correlative light and electron microscopy

(2014) O. Urwyler et al.   DEVELOPMENT

Structural basis for serotonergic regulation of neural circuits in the mouse olfactory bulb

(2014) Yoshinori Suzuki et al.   JOURNAL OF COMPARATIVE NEUROLOGY

Systematic comparison of adeno-associated virus and biotinylated dextran amine reveals equivalent sensitivity between tracers and novel projection targets in the mouse brain

(2014) Quanxin Wang et al.   JOURNAL OF COMPARATIVE NEUROLOGY

A fourth generation of neuroanatomical tracing techniques: Exploiting the offspring of genetic engineering

(2014) Floris G. Wouterlood et al.   JOURNAL OF NEUROSCIENCE METHODS

Space–time wiring specificity supports direction selectivity in the retina

(2014) Jinseop S. Kim et al.   NATURE

A mesoscale connectome of the mouse brain

(2014) Seung Wook Oh et al.   NATURE

A comprehensive thalamocortical projection map at the mesoscopic level

(2014) Barbara J Hunnicutt et al.   NATURE NEUROSCIENCE

A genetically specified connectomics approach applied to long-range feeding regulatory circuits

(2014) Deniz Atasoy et al.   NATURE NEUROSCIENCE

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

(2014) Raju Tomer et al.   Nature Protocols

Bringing CLARITY to gray matter atrophy

(2014) Rory D. Spence et al.   NEUROIMAGE

Cell-type-Specific Labeling of Synapses In Vivo through Synaptic Tagging with Recombination

(2014) Yi Chen et al.   NEURON

Structured Synaptic Connectivity between Hippocampal Regions

(2014) Shaul Druckmann et al.   NEURON

Computational Psychiatry

(2014) Xiao-Jing Wang et al.   NEURON

Great Expectations: Using Whole-Brain Computational Connectomics for Understanding Neuropsychiatric Disorders

(2014) Gustavo Deco et al.   NEURON

Molecular neuroanatomy: a generation of progress

(2014) Jonathan D. Pollock et al.   TRENDS IN NEUROSCIENCES

Imaging Cleared Intact Biological Systems at a Cellular Level by 3DISCO

(2014) Ali Ertürk et al.   Jove-Journal of Visualized Experiments

Mission (im)possible – mapping the brain becomes a reality

(2014) Anna Lena Eberle et al.   Microscopy

Connectomics: comprehensive approaches for whole-brain mapping

(2014) Shinsuke Shibata et al.   Microscopy

Genetic Approaches to Neural Circuits in the Mouse

(2013) Z. Josh Huang et al.   Annual Review of Neuroscience

Mapping mammalian synaptic connectivity

(2013) Chaehyun Yook et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

ClearT: a detergent- and solvent-free clearing method for neuronal and non-neuronal tissue

(2013) T. Kuwajima et al.   DEVELOPMENT

Structural and molecular interrogation of intact biological systems

(2013) Kwanghun Chung et al.   NATURE

Mapping brain circuitry with a light microscope

(2013) Pavel Osten et al.   NATURE METHODS

From the connectome to brain function

(2013) Cornelia I Bargmann et al.   NATURE METHODS

Cellular-resolution connectomics: challenges of dense neural circuit reconstruction

(2013) Moritz Helmstaedter   NATURE METHODS

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

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

New insights into the classification and nomenclature of cortical GABAergic interneurons

(2013) Javier DeFelipe et al.   NATURE REVIEWS NEUROSCIENCE

The human connectome: Origins and challenges

(2013) Olaf Sporns   NEUROIMAGE

Sparse reconstruction of brain circuits: Or, how to survive without a microscopic connectome

(2013) Nuno Maçarico da Costa et al.   NEUROIMAGE

Continuously tracing brain-wide long-distance axonal projections in mice at a one-micron voxel resolution

(2013) Hui Gong et al.   NEUROIMAGE

Structurally-informed Bayesian functional connectivity analysis

(2013) Max Hinne et al.   NEUROIMAGE

Physiological temperature during brain slicing enhances the quality of acute slice preparations

(2013) Shiwei Huang et al.   Frontiers in Cellular Neuroscience

Revealing the secrets of neuronal circuits with recombinant rabies virus technology

(2013) Melanie Ginger et al.   Frontiers in Neural Circuits

Improved synapse detection for mGRASP-assisted brain connectivity mapping

(2012) L. Feng et al.   BIOINFORMATICS

High-resolution imaging of entire organs by 3-dimensional imaging of solvent cleared organs (3DISCO)

(2012) Ali Ertürk et al.   EXPERIMENTAL NEUROLOGY

Serial two-photon tomography for automated ex vivo mouse brain imaging

(2012) Timothy Ragan et al.   NATURE METHODS

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

(2012) Ali Ertürk et al.   Nature Protocols

Deep molecular diversity of mammalian synapses: why it matters and how to measure it

(2012) Nancy A. O'Rourke et al.   NATURE REVIEWS NEUROSCIENCE

Statistical connectivity provides a sufficient foundation for specific functional connectivity in neocortical neural microcircuits

(2012) S. L. Hill et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Connectome of a Decision-Making Neural Network

(2012) T. A. Jarrell et al.   SCIENCE

Sequencing the Connectome

(2012) Anthony M. Zador et al.   PLOS BIOLOGY

A half century of experimental neuroanatomical tracing

(2011) José L. Lanciego et al.   JOURNAL OF CHEMICAL NEUROANATOMY

mGRASP enables mapping mammalian synaptic connectivity with light microscopy

(2011) Jinhyun Kim et al.   NATURE METHODS

Near-infrared branding efficiently correlates light and electron microscopy

(2011) Derron Bishop et al.   NATURE METHODS

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

(2011) Hiroshi Hama et al.   NATURE NEUROSCIENCE

A Cre-Dependent, Anterograde Transsynaptic Viral Tracer for Mapping Output Pathways of Genetically Marked Neurons

(2011) Liching Lo et al.   NEURON

Anterograde or retrograde transsynaptic labeling of CNS neurons with vesicular stomatitis virus vectors

(2011) K. T. Beier et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multiple new site-specific recombinases for use in manipulating animal genomes

(2011) A. Nern et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Breaking the Diffraction Barrier: Super-Resolution Imaging of Cells

(2010) Bo Huang et al.   CELL

Ultrastructural Analysis of Hippocampal Neuropil from the Connectomics Perspective

(2010) Yuriy Mishchenko et al.   NEURON

Targeting Single Neuronal Networks for Gene Expression and Cell Labeling In Vivo

(2010) James H. Marshel et al.   NEURON

Monosynaptic circuit tracing in vivo through Cre-dependent targeting and complementation of modified rabies virus

(2010) N. R. Wall et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

From the Connectome to the Synaptome: An Epic Love Story

(2010) J. DeFelipe   SCIENCE

Micro-Optical Sectioning Tomography to Obtain a High-Resolution Atlas of the Mouse Brain

(2010) A. Li et al.   SCIENCE

Animal transgenesis: an overview

(2009) Miguel A. Gama Sosa et al.   Brain Structure & Function

Two Types of Thalamocortical Projections from the Motor Thalamic Nuclei of the Rat: A Single Neuron-Tracing Study Using Viral Vectors

(2009) Eriko Kuramoto et al.   CEREBRAL CORTEX

3D structural imaging of the brain with photons and electrons

(2009) Moritz Helmstaedter et al.   CURRENT OPINION IN NEUROBIOLOGY

The W cell pathway to cat primary visual cortex

(2009) John C. Anderson et al.   JOURNAL OF COMPARATIVE NEUROLOGY

GFP Reconstitution Across Synaptic Partners (GRASP) Defines Cell Contacts and Synapses in Living Nervous Systems

(2008) Evan H. Feinberg et al.   NEURON