5,562 research outputs found
Mitosis Detection from Pathology Images
In the case of breast cancer, according to the Nottingham Grading System, counting mitotic cells is an important indicator of tumour diagnosis and grading. Pathologists usually manually count mitosis from histopathology images to determine the cancer grade. This is a challenging and time-consuming procedure. In most recent works, different deep neural networks have been designed to detect the suspicious cells initially and count the number of them afterwards. However, these detection approaches have certain limitations including complicated structures, the detection performance is still not satisfactory, and the need of a large number of labeled images to train a satisfied model. In this paper, we modify and improve a popular one-stage object-detection deep network to facilitate the mitotic cells detection task. Our novel improvements include using different loss functions for cells of different sizes, designing new data augmentation methods, generating prior anchor boxes with approximate sizes by using an improved clustering algorithm, and so on. We validate our deep learning model on two public benchmark datasets named Mitosis Detection in Breast Cancer Histological Images (MITOSIS). The experimental results indicate that our method achieves the competitive results on MITOSIS-2012 dataset and on the MITOSIS-2014 dataset with faster inference speed. More importantly, we design an interactive system with a correction and relearning pipeline so that our system can relearn from a small number of slides from a new lab and achieve satisfactory results. We design a web portal (http://ai4path.ca/#/) where this online pipeline can be easily utilized by pathologists in Western Hospital Pathology Group(WHPG) and hopefully in the future, by all pathologists in the world
Assessment of algorithms for mitosis detection in breast cancer histopathology images
The proliferative activity of breast tumors, which is routinely estimated by counting of mitotic figures in hematoxylin and eosin stained histology sections, is considered to be one of the most important prognostic markers. However, mitosis counting is laborious, subjective and may suffer from low inter-observer agreement. With the wider acceptance of whole slide images in pathology labs, automatic image analysis has been proposed as a potential solution for these issues.
In this paper, the results from the Assessment of Mitosis Detection Algorithms 2013 (AMIDA13) challenge are described. The challenge was based on a data set consisting of 12 training and 11 testing subjects, with more than one thousand annotated mitotic figures by multiple observers. Short descriptions and results from the evaluation of eleven methods are presented. The top performing method has an error rate that is comparable to the inter-observer agreement among pathologists
A Survey on Deep Learning in Medical Image Analysis
Deep learning algorithms, in particular convolutional networks, have rapidly
become a methodology of choice for analyzing medical images. This paper reviews
the major deep learning concepts pertinent to medical image analysis and
summarizes over 300 contributions to the field, most of which appeared in the
last year. We survey the use of deep learning for image classification, object
detection, segmentation, registration, and other tasks and provide concise
overviews of studies per application area. Open challenges and directions for
future research are discussed.Comment: Revised survey includes expanded discussion section and reworked
introductory section on common deep architectures. Added missed papers from
before Feb 1st 201
Machine learning methods for histopathological image analysis
Abundant accumulation of digital histopathological images has led to the
increased demand for their analysis, such as computer-aided diagnosis using
machine learning techniques. However, digital pathological images and related
tasks have some issues to be considered. In this mini-review, we introduce the
application of digital pathological image analysis using machine learning
algorithms, address some problems specific to such analysis, and propose
possible solutions.Comment: 23 pages, 4 figure
MILD-Net: Minimal Information Loss Dilated Network for Gland Instance Segmentation in Colon Histology Images
The analysis of glandular morphology within colon histopathology images is an
important step in determining the grade of colon cancer. Despite the importance
of this task, manual segmentation is laborious, time-consuming and can suffer
from subjectivity among pathologists. The rise of computational pathology has
led to the development of automated methods for gland segmentation that aim to
overcome the challenges of manual segmentation. However, this task is
non-trivial due to the large variability in glandular appearance and the
difficulty in differentiating between certain glandular and non-glandular
histological structures. Furthermore, a measure of uncertainty is essential for
diagnostic decision making. To address these challenges, we propose a fully
convolutional neural network that counters the loss of information caused by
max-pooling by re-introducing the original image at multiple points within the
network. We also use atrous spatial pyramid pooling with varying dilation rates
for preserving the resolution and multi-level aggregation. To incorporate
uncertainty, we introduce random transformations during test time for an
enhanced segmentation result that simultaneously generates an uncertainty map,
highlighting areas of ambiguity. We show that this map can be used to define a
metric for disregarding predictions with high uncertainty. The proposed network
achieves state-of-the-art performance on the GlaS challenge dataset and on a
second independent colorectal adenocarcinoma dataset. In addition, we perform
gland instance segmentation on whole-slide images from two further datasets to
highlight the generalisability of our method. As an extension, we introduce
MILD-Net+ for simultaneous gland and lumen segmentation, to increase the
diagnostic power of the network.Comment: Initial version published at Medical Imaging with Deep Learning
(MIDL) 201
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