scholarly journals Accurate cytogenetic biodosimetry through automated dicentric chromosome curation and metaphase cell selection

F1000Research ◽  
2017 ◽  
Vol 6 ◽  
pp. 1396 ◽  
Author(s):  
Jin Liu ◽  
Yanxin Li ◽  
Ruth Wilkins ◽  
Farrah Flegal ◽  
Joan H.M. Knoll ◽  
...  
Keyword(s):  
Image Segmentation ◽  
Estimation Error ◽  
Chromosome Morphology ◽  
Average Dose ◽  
High Quality ◽  
Metaphase Cell ◽  
Three Samples ◽  
Cellular Debris ◽  
Segmentation Methods ◽  
Chromosome Fragments

Accurate digital image analysis of abnormal microscopic structures relies on high quality images and on minimizing the rates of false positive (FP) and negative objects in images. Cytogenetic biodosimetry detects dicentric chromosomes (DCs) that arise from exposure to ionizing radiation, and determines radiation dose received based on DC frequency. Improvements in automated DC recognition increase the accuracy of dose estimates by reclassifying FP DCs as monocentric chromosomes or chromosome fragments. We also present image segmentation methods to rank high quality digital metaphase images and eliminate suboptimal metaphase cells. A set of chromosome morphology segmentation methods selectively filtered out FP DCs arising primarily from sister chromatid separation, chromosome fragmentation, and cellular debris. This reduced FPs by an average of 55% and was highly specific to these abnormal structures (≥97.7%) in three samples. Additional filters selectively removed images with incomplete, highly overlapped, or missing metaphase cells, or with poor overall chromosome morphologies that increased FP rates. Image selection is optimized and FP DCs are minimized by combining multiple feature based segmentation filters and a novel image sorting procedure based on the known distribution of chromosome lengths. Applying the same image segmentation filtering procedures to both calibration and test samples reduced the average dose estimation error from 0.4 Gy to <0.2 Gy, obviating the need to first manually review these images. This reliable and scalable solution enables batch processing for multiple samples of unknown dose, and meets current requirements for triage radiation biodosimetry of high quality metaphase cell preparations.

scholarly journals Accurate cytogenetic biodosimetry through automation of dicentric chromosome curation and metaphase cell selection

2017 ◽  
Author(s):  
Jin Liu ◽  
Yanxin Li ◽  
Ruth Wilkins ◽  
Farrah Flegal ◽  
Joan H. Knoll ◽  
...  
Keyword(s):  
False Positive ◽  
Estimation Error ◽  
Digital Pathology ◽  
Image Data ◽  
Test Sample ◽  
Chromosome Morphology ◽  
Average Dose ◽  
High Quality ◽  
Metaphase Cell ◽  
Segmentation Methods

ABSTRACTSoftware to automate digital pathology relies on image quality and the rates of false positive and negative objects in these images. Cytogenetic biodosimetry detects dicentric chromosomes (DCs) that arise from exposure to ionizing radiation, and determines radiation dose received from the frequency of DCs. We present image segmentation methods to rank high quality cytogenetic images and eliminate suboptimal metaphase cell data based on novel quality measures. Improvements in DC recognition increase the accuracy of dose estimates, by reducing false positive (FP) DC detection. A set of chromosome morphology segmentation methods selectively filtered out false DCs, arising primarily from extended prometaphase chromosomes, sister chromatid separation and chromosome fragmentation. This reduced FPs by 55% and was highly specific to the abnormal structures (≥97.7%). Additional procedures were then developed to fully automate image review, resulting in 6 image-level filters that, when combined, selectively remove images with consistently unparsable or incorrectly segmented chromosome morphologies. Overall, these filters can eliminate half of the FPs detected by manual image review. Optimal image selection and FP DCs are minimized by combining multiple feature based segmentation filters and a novel image sorting procedure based on the known distribution of chromosome lengths. Applying the same segmentation filtering procedures to both calibration and test sample image data reduced the average dose estimation error from 0.4Gy to <0.2Gy, obviating the need to first manually review these images. This reliable and scalable solution enables batch processing multiple samples of unknown dose, and meets current requirements for triage radiation biodosimetry of high quality metaphase cell preparations.

scholarly journals PyConvU-Net: a lightweight and multiscale network for biomedical image segmentation

2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Changyong Li ◽  
Yongxian Fan ◽  
Xiaodong Cai
Keyword(s):  
Image Segmentation ◽  
Deep Learning ◽  
State Of The Art ◽  
Experimental Results ◽  
Actual Situation ◽  
Controlled Experiments ◽  
Biomedical Image ◽  
Segmentation Methods ◽  
Art Performance

Abstract Background With the development of deep learning (DL), more and more methods based on deep learning are proposed and achieve state-of-the-art performance in biomedical image segmentation. However, these methods are usually complex and require the support of powerful computing resources. According to the actual situation, it is impractical that we use huge computing resources in clinical situations. Thus, it is significant to develop accurate DL based biomedical image segmentation methods which depend on resources-constraint computing. Results A lightweight and multiscale network called PyConvU-Net is proposed to potentially work with low-resources computing. Through strictly controlled experiments, PyConvU-Net predictions have a good performance on three biomedical image segmentation tasks with the fewest parameters. Conclusions Our experimental results preliminarily demonstrate the potential of proposed PyConvU-Net in biomedical image segmentation with resources-constraint computing.

scholarly journals A NOVEL IMAGE SEGMENTATION APPROACH BASED ON NEUTROSOPHIC SET AND IMPROVED FUZZY C-MEANS ALGORITHM

2011 ◽  
Vol 07 (01) ◽  
pp. 155-171 ◽  
Author(s):  
H. D. CHENG ◽  
YANHUI GUO ◽  
YINGTAO ZHANG
Keyword(s):  
Image Segmentation ◽  
Point Of View ◽  
Neutrosophic Set ◽  
Convergence Criterion ◽  
Complex Objects ◽  
Fuzzy C Means ◽  
Segmentation Methods ◽  
Segmentation Algorithms ◽  
Segmentation Approach ◽  
Fuzzy C Means Algorithm

Image segmentation is an important component in image processing, pattern recognition and computer vision. Many segmentation algorithms have been proposed. However, segmentation methods for both noisy and noise-free images have not been studied in much detail. Neutrosophic set (NS), a part of neutrosophy theory, studies the origin, nature, and scope of neutralities, as well as their interaction with different ideational spectra. However, neutrosophic set needs to be specified and clarified from a technical point of view for a given application or field to demonstrate its usefulness. In this paper, we apply neutrosophic set and define some operations. Neutrosphic set is integrated with an improved fuzzy c-means method and employed for image segmentation. A new operation, α-mean operation, is proposed to reduce the set indeterminacy. An improved fuzzy c-means (IFCM) is proposed based on neutrosophic set. The computation of membership and the convergence criterion of clustering are redefined accordingly. We have conducted experiments on a variety of images. The experimental results demonstrate that the proposed approach can segment images accurately and effectively. Especially, it can segment the clean images and the images having different gray levels and complex objects, which is the most difficult task for image segmentation.

A Survey on Solar Image Segmentation Techniques

2014 ◽  
Vol 945-949 ◽  
pp. 1899-1902
Author(s):  
Yuan Yuan Fan ◽  
Wei Jiang Li ◽  
Feng Wang
Keyword(s):  
Image Processing ◽  
Pattern Recognition ◽  
Image Analysis ◽  
Image Segmentation ◽  
Image Retrieval ◽  
Fundamental Issue ◽  
Solar Image ◽  
Segmentation Methods

Image segmentation is one of the basic problems of image processing, also is the first essential and fundamental issue in the solar image analysis and pattern recognition. This paper summarizes systematically on the image segmentation techniques in the solar image retrieval and the recent applications of image segmentation. Then the merits and demerits of each method are discussed in this paper, in this way we can combine some methods for image segmentation to reach the better effects in astronomy. Finally, according to the characteristics of the solar image itself, the more appropriate image segmentation methods are summed up, and some remarks on the prospects and development of image segmentation are presented.

Optimal Scale of Hierarchical Image Segmentation with Scribbles Guidance for Weakly Supervised Semantic Segmentation

2021 ◽  
pp. 2154026
Author(s):  
Zaid Al-Huda ◽  
Donghai Zhai ◽  
Yan Yang ◽  
Riyadh Nazar Ali Algburi
Keyword(s):  
Image Segmentation ◽  
Graphical Model ◽  
Semantic Segmentation ◽  
Saliency Map ◽  
Training Data ◽  
Deep Convolutional Neural Networks ◽  
High Quality ◽  
Optimal Scale ◽  
Supervised Segmentation ◽  
Weakly Supervised

Deep convolutional neural networks (DCNNs) trained on the pixel-level annotated images have achieved improvements in semantic segmentation. Due to the high cost of labeling training data, their applications may have great limitation. However, weakly supervised segmentation approaches can significantly reduce human labeling efforts. In this paper, we introduce a new framework to generate high-quality initial pixel-level annotations. By using a hierarchical image segmentation algorithm to predict the boundary map, we select the optimal scale of high-quality hierarchies. In the initialization step, scribble annotations and the saliency map are combined to construct a graphic model over the optimal scale segmentation. By solving the minimal cut problem, it can spread information from scribbles to unmarked regions. In the training process, the segmentation network is trained by using the initial pixel-level annotations. To iteratively optimize the segmentation, we use a graphical model to refine segmentation masks and retrain the segmentation network to get more precise pixel-level annotations. The experimental results on Pascal VOC 2012 dataset demonstrate that the proposed framework outperforms most of weakly supervised semantic segmentation methods and achieves the state-of-the-art performance, which is [Formula: see text] mIoU.

Image Segmentation Using Rough Set Theory

2014 ◽  
Vol 1 (2) ◽  
pp. 62-74 ◽  
Author(s):  
Payel Roy ◽  
Srijan Goswami ◽  
Sayan Chakraborty ◽  
Ahmad Taher Azar ◽  
Nilanjan Dey
Keyword(s):  
Image Processing ◽  
Image Segmentation ◽  
Set Theory ◽  
Rough Set ◽  
Rough Set Theory ◽  
Gray Level ◽  
Rule Generation ◽  
Local Minima ◽  
Fuzzy Correlation ◽  
Segmentation Methods

In the domain of image processing, image segmentation has become one of the key application that is involved in most of the image based operations. Image segmentation refers to the process of breaking or partitioning any image. Although, like several image processing operations, image segmentation also faces some problems and issues when segmenting process becomes much more complicated. Previously lot of work has proved that Rough-set theory can be a useful method to overcome such complications during image segmentation. The Rough-set theory helps in very fast convergence and in avoiding local minima problem, thereby enhancing the performance of the EM, better result can be achieved. During rough-set-theoretic rule generation, each band is individualized by using the fuzzy-correlation-based gray-level thresholding. Therefore, use of Rough-set in image segmentation can be very useful. In this paper, a summary of all previous Rough-set based image segmentation methods are described in detail and also categorized accordingly. Rough-set based image segmentation provides a stable and better framework for image segmentation.

Interactive Medical Image Segmentation Method with only Positive Label Examples

2014 ◽  
Vol 989-994 ◽  
pp. 1088-1092
Author(s):  
Chen Guang Zhang ◽  
Yan Zhang ◽  
Xia Huan Zhang
Keyword(s):  
Image Segmentation ◽  
Medical Image ◽  
Medical Image Segmentation ◽  
Segmentation Method ◽  
High Quality ◽  
Neighbor Graph ◽  
Foreground Region ◽  
Training Examples ◽  
Positive Label ◽  
Negative Training

In this paper, a novel interactive medical image segmentation method called SMOPL is proposed. This method only needs marking some pixels on foreground region for segmentation. To do this, SMOPL characterize the inherent correlations among foreground and background pixels as Hilbert-Schmidt independence. By maximizing the independence and minimizing the smoothness of labels on instance neighbor graph simultaneously, SMOPL gets the sufficiently smooth confidences of both positive and negative classes in absence of negative training examples. Then a image segmentation can be obtained by assigning each pixel to the label for which the greatest confidence is calculated. Experiments on real-world medical images show that SMOPL is robust to get a high-quality segmentation with only positive label examples.

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