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Graham Knott

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Publications associées (101)

Learning Context Cues for Synapse Segmentation

Pascal Fua, Graham Knott, Karim Ali, Carlos Joaquin Becker

We present a new approach for the automated segmentation of synapses in image stacks acquired by Electron Microscopy (EM) that relies on image features specifically designed to take spatial context into account. These features are used to train a classifie ...

Institute of Electrical and Electronics Engineers2013

Correlative in vivo 2 photon and focused ion beam scanning electron microscopy of cortical neurons

Marco Cantoni, Graham Knott, Bohumil Maco

Correlating in vivo imaging of neurons and their synaptic connections with electron microscopy combines dynamic and ultrastructural information. Here we describe a semi-automated technique whereby volumes of brain tissue containing axons and dendrites, pre ...

Public Library of Science2013

Is EM dead?

Graham Knott

Since electron microscopy (EM) first appeared in the 1930s, it has held centre stage as the primary tool for the exploration of biological structure. Yet, with the recent developments of light microscopy techniques that overcome the limitations imposed by ...

Company Of Biologists Ltd2013

Efficient Scanning for EM Based Target Localization

Pascal Fua, Graham Knott, Raphael Sznitman, Aurélien Lucchi, Natasa Pjescic-Emedi

For biologists studying the morphology of cells, Electron Microscopy (EM) is the method of choice with its {\it nm} resolution, across increasingly larger volumes. However, the time necessary to acquire such image series is long and often limits the amount ...

2012

Analysis of centriole elimination during C. elegans oogenesis

Graham Knott, Pierre Gönczy, Tamara Mikeladze-Dvali, Petr Strnad, Lukas von Tobel

Centrosomes are the principal microtubule organizing centers (MTOCs) of animal cells and comprise a pair of centrioles surrounded by pericentriolar material (PCM). Centriole number must be carefully regulated, notably to ensure bipolar spindle formation an ...

2012

Supervoxel-Based Segmentation of Mitochondria in EM Image Stacks with Learned Shape Features

Pascal Fua, Graham Knott, Kevin Smith, Radhakrishna Achanta, Aurélien Lucchi

It is becoming increasingly clear that mitochondria play an important role in neural function. Recent studies show mitochondrial morphology to be crucial to cellular physiology and synaptic function and a link between mitochondrial defects and neuro-degene ...

Institute of Electrical and Electronics Engineers2012

GABA Signaling Promotes Synapse Elimination and Axon Pruning in Developing Cortical Inhibitory Interneurons

Graham Knott, Yu Fu

Accumulating evidence indicates that GABA acts beyond inhibitory synaptic transmission and regulates the development of inhibitory synapses in the vertebrate brain, but the underlying cellular mechanism is not well understood. We have combined live imaging ...

2012

3D ultrastructural study of tissues by serial block-face scanning electron microscopy

Graham Knott

Wiley-Blackwell2012

Learning Context Cues for Synapse Segmentation in EM Volumes

Pascal Fua, Graham Knott, Karim Ali, Carlos Joaquin Becker

We present a new approach for the automated segmentation of excitatory synapses in image stacks acquired by electron microscopy. We rely on a large set of image features specifically designed to take spatial context into account and train a classifier that ...

2012

Nigrostriatal overabundance of alpha-synuclein leads to decreased vesicle density and deficits in dopamine release that correlate with reduced motor activity

Patrick Aebischer, Marco Cantoni, Jean-Charles Bensadoun, Graham Knott, Safa Mohanna, Ralf Schneggenburger, Özgür Genç, Wojciech Janusz Bobela

alpha-Synuclein (alpha-syn) is a presynaptic protein present at most nerve terminals, but its function remains largely unknown. The familial forms of Parkinson's disease associated with multiplications of the alpha-syn gene locus indicate that overabundanc ...

Springer-Verlag2012

Focused Ion Beam Nano-Tomography Using Different Detectors

Marco Cantoni, Graham Knott, Pierre Burdet, Cécile Hébert

Cambridge, Cambridge University Press2011

Automated Detection and Segmentation of Synaptic Contacts in Nearly Isotropic Serial Electron Microscopy Images

Marco Cantoni, Graham Knott

We describe a protocol for fully automated detection and segmentation of asymmetric, presumed excitatory, synapses in serial electron microscopy images of the adult mammalian cerebral cortex, taken with the focused ion beam, scanning electron microscope (F ...

2011

FIB-SEM Nanotomography in Materials and Life Science at EPFL

Marco Cantoni, Graham Knott, Cécile Hébert

Cambridge, Cambridge University Press2010

Rapid Functional Maturation of Nascent Dendritic Spines

Graham Knott

Spine growth and retraction with synapse formation and elimination plays an important role in shaping brain circuits during development and in the adult brain, yet the temporal relationship between spine morphogenesis and the formation of functional synaps ...

2009

High-Throughput 3D Cellular Imaging

Graham Knott

Cambridge, Cambridge University Press2009

A protocol for preparing GFP-labeled neurons previously imaged in vivo and in slice preparations for light and electron microscopic analysis

Egbert Welker, Graham Knott

In vivo imaging of green fluorescent protein (GFP)-labeled neurons in the intact brain is being used increasingly to study neuronal plasticity. However, interpreting the observed changes as modifications in neuronal connectivity needs information about syn ...

2009

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Graham Knott

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Learning Context Cues for Synapse Segmentation

Correlative in vivo 2 photon and focused ion beam scanning electron microscopy of cortical neurons

Is EM dead?

Efficient Scanning for EM Based Target Localization

Analysis of centriole elimination during C. elegans oogenesis

Supervoxel-Based Segmentation of Mitochondria in EM Image Stacks with Learned Shape Features

GABA Signaling Promotes Synapse Elimination and Axon Pruning in Developing Cortical Inhibitory Interneurons

3D ultrastructural study of tissues by serial block-face scanning electron microscopy

Learning Context Cues for Synapse Segmentation in EM Volumes

Nigrostriatal overabundance of alpha-synuclein leads to decreased vesicle density and deficits in dopamine release that correlate with reduced motor activity

Focused Ion Beam Nano-Tomography Using Different Detectors

Automated Detection and Segmentation of Synaptic Contacts in Nearly Isotropic Serial Electron Microscopy Images

FIB-SEM Nanotomography in Materials and Life Science at EPFL

Rapid Functional Maturation of Nascent Dendritic Spines

High-Throughput 3D Cellular Imaging

A protocol for preparing GFP-labeled neurons previously imaged in vivo and in slice preparations for light and electron microscopic analysis

A Single Cell Approach for Safe Gene Therapy

Dendritic spine plasticity-Current understanding from in vivo studies

Serial section scanning electron microscopy of adult brain tissue using focused ion beam milling

Advances in automated 3D cortex image data acquisition