9,394 research outputs found
Parcellation of Visual Cortex on high-resolution histological Brain Sections using Convolutional Neural Networks
Microscopic analysis of histological sections is considered the "gold
standard" to verify structural parcellations in the human brain. Its high
resolution allows the study of laminar and columnar patterns of cell
distributions, which build an important basis for the simulation of cortical
areas and networks. However, such cytoarchitectonic mapping is a semiautomatic,
time consuming process that does not scale with high throughput imaging. We
present an automatic approach for parcellating histological sections at 2um
resolution. It is based on a convolutional neural network that combines
topological information from probabilistic atlases with the texture features
learned from high-resolution cell-body stained images. The model is applied to
visual areas and trained on a sparse set of partial annotations. We show how
predictions are transferable to new brains and spatially consistent across
sections.Comment: Accepted for oral presentation at International Symposium of
Biomedical Imaging (ISBI) 201
Data-Driven Shape Analysis and Processing
Data-driven methods play an increasingly important role in discovering
geometric, structural, and semantic relationships between 3D shapes in
collections, and applying this analysis to support intelligent modeling,
editing, and visualization of geometric data. In contrast to traditional
approaches, a key feature of data-driven approaches is that they aggregate
information from a collection of shapes to improve the analysis and processing
of individual shapes. In addition, they are able to learn models that reason
about properties and relationships of shapes without relying on hard-coded
rules or explicitly programmed instructions. We provide an overview of the main
concepts and components of these techniques, and discuss their application to
shape classification, segmentation, matching, reconstruction, modeling and
exploration, as well as scene analysis and synthesis, through reviewing the
literature and relating the existing works with both qualitative and numerical
comparisons. We conclude our report with ideas that can inspire future research
in data-driven shape analysis and processing.Comment: 10 pages, 19 figure
Visual and Contextual Modeling for the Detection of Repeated Mild Traumatic Brain Injury.
Currently, there is a lack of computational methods for the evaluation of mild traumatic brain injury (mTBI) from magnetic resonance imaging (MRI). Further, the development of automated analyses has been hindered by the subtle nature of mTBI abnormalities, which appear as low contrast MR regions. This paper proposes an approach that is able to detect mTBI lesions by combining both the high-level context and low-level visual information. The contextual model estimates the progression of the disease using subject information, such as the time since injury and the knowledge about the location of mTBI. The visual model utilizes texture features in MRI along with a probabilistic support vector machine to maximize the discrimination in unimodal MR images. These two models are fused to obtain a final estimate of the locations of the mTBI lesion. The models are tested using a novel rodent model of repeated mTBI dataset. The experimental results demonstrate that the fusion of both contextual and visual textural features outperforms other state-of-the-art approaches. Clinically, our approach has the potential to benefit both clinicians by speeding diagnosis and patients by improving clinical care
Improving Unsupervised Defect Segmentation by Applying Structural Similarity to Autoencoders
Convolutional autoencoders have emerged as popular methods for unsupervised
defect segmentation on image data. Most commonly, this task is performed by
thresholding a pixel-wise reconstruction error based on an distance.
This procedure, however, leads to large residuals whenever the reconstruction
encompasses slight localization inaccuracies around edges. It also fails to
reveal defective regions that have been visually altered when intensity values
stay roughly consistent. We show that these problems prevent these approaches
from being applied to complex real-world scenarios and that it cannot be easily
avoided by employing more elaborate architectures such as variational or
feature matching autoencoders. We propose to use a perceptual loss function
based on structural similarity which examines inter-dependencies between local
image regions, taking into account luminance, contrast and structural
information, instead of simply comparing single pixel values. It achieves
significant performance gains on a challenging real-world dataset of
nanofibrous materials and a novel dataset of two woven fabrics over the state
of the art approaches for unsupervised defect segmentation that use pixel-wise
reconstruction error metrics
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