Ilastik: interactive machine learning for (bio) image analysis
We present ilastik, an easy-to-use interactive tool that brings machine-learning-based (bio)
image analysis to end users without substantial computational expertise. It contains pre …
image analysis to end users without substantial computational expertise. It contains pre …
[HTML][HTML] Exploring the third dimension: volume electron microscopy comes of age
CJ Peddie, LM Collinson - Micron, 2014 - Elsevier
Groundbreaking advances in volume electron microscopy and specimen preparation are
enabling the 3-dimensional visualisation of specimens with unprecedented detail, and …
enabling the 3-dimensional visualisation of specimens with unprecedented detail, and …
Ultrastructural analysis of adult mouse neocortex comparing aldehyde perfusion with cryo fixation
Analysis of brain ultrastructure using electron microscopy typically relies on chemical
fixation. However, this is known to cause significant tissue distortion including a reduction in …
fixation. However, this is known to cause significant tissue distortion including a reduction in …
Cellular-resolution connectomics: challenges of dense neural circuit reconstruction
M Helmstaedter - Nature methods, 2013 - nature.com
Neuronal networks are high-dimensional graphs that are packed into three-dimensional
nervous tissue at extremely high density. Comprehensively map** these networks is …
nervous tissue at extremely high density. Comprehensively map** these networks is …
Along-axon diameter variation and axonal orientation dispersion revealed with 3D electron microscopy: implications for quantifying brain white matter microstructure …
Tissue microstructure modeling of diffusion MRI signal is an active research area striving to
bridge the gap between macroscopic MRI resolution and cellular-level tissue architecture …
bridge the gap between macroscopic MRI resolution and cellular-level tissue architecture …
Large-scale automatic reconstruction of neuronal processes from electron microscopy images
Automated sample preparation and electron microscopy enables acquisition of very large
image data sets. These technical advances are of special importance to the field of …
image data sets. These technical advances are of special importance to the field of …
The effects of aging on neuropil structure in mouse somatosensory cortex—A 3D electron microscopy analysis of layer 1
This study has used dense reconstructions from serial EM images to compare the neuropil
ultrastructure and connectivity of aged and adult mice. The analysis used models of axons …
ultrastructure and connectivity of aged and adult mice. The analysis used models of axons …
Norepinephrine stimulates glycogenolysis in astrocytes to fuel neurons with lactate
The mechanism of rapid energy supply to the brain, especially to accommodate the
heightened metabolic activity of excited states, is not well-understood. We explored the role …
heightened metabolic activity of excited states, is not well-understood. We explored the role …
Three‐dimensional immersive virtual reality for studying cellular compartments in 3D models from EM preparations of neural tissues
Advances in the application of electron microscopy (EM) to serial imaging are opening doors
to new ways of analyzing cellular structure. New and improved algorithms and workflows for …
to new ways of analyzing cellular structure. New and improved algorithms and workflows for …
Globally optimal closed-surface segmentation for connectomics
We address the problem of partitioning a volume image into a previously unknown number
of segments, based on a likelihood of merging adjacent supervoxels. Towards this goal, we …
of segments, based on a likelihood of merging adjacent supervoxels. Towards this goal, we …