Author
Khan M. Iftekharuddin
Other affiliations: University of South Alabama, University of Dayton, Timken Company ...read more
Bio: Khan M. Iftekharuddin is an academic researcher from Old Dominion University. The author has contributed to research in topics: Feature extraction & Image segmentation. The author has an hindex of 26, co-authored 227 publications receiving 6564 citations. Previous affiliations of Khan M. Iftekharuddin include University of South Alabama & University of Dayton.
Papers published on a yearly basis
Papers
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Technische Universität München1, ETH Zurich2, University of Bern3, Harvard University4, National Institutes of Health5, University of Debrecen6, University Hospital Heidelberg7, McGill University8, University of Pennsylvania9, French Institute for Research in Computer Science and Automation10, University at Buffalo11, Microsoft12, University of Cambridge13, Stanford University14, University of Virginia15, Imperial College London16, Massachusetts Institute of Technology17, Columbia University18, Sabancı University19, Old Dominion University20, RMIT University21, Purdue University22, General Electric23
TL;DR: The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS) as mentioned in this paper was organized in conjunction with the MICCAI 2012 and 2013 conferences, and twenty state-of-the-art tumor segmentation algorithms were applied to a set of 65 multi-contrast MR scans of low and high grade glioma patients.
Abstract: In this paper we report the set-up and results of the Multimodal Brain Tumor Image Segmentation Benchmark (BRATS) organized in conjunction with the MICCAI 2012 and 2013 conferences Twenty state-of-the-art tumor segmentation algorithms were applied to a set of 65 multi-contrast MR scans of low- and high-grade glioma patients—manually annotated by up to four raters—and to 65 comparable scans generated using tumor image simulation software Quantitative evaluations revealed considerable disagreement between the human raters in segmenting various tumor sub-regions (Dice scores in the range 74%–85%), illustrating the difficulty of this task We found that different algorithms worked best for different sub-regions (reaching performance comparable to human inter-rater variability), but that no single algorithm ranked in the top for all sub-regions simultaneously Fusing several good algorithms using a hierarchical majority vote yielded segmentations that consistently ranked above all individual algorithms, indicating remaining opportunities for further methodological improvements The BRATS image data and manual annotations continue to be publicly available through an online evaluation system as an ongoing benchmarking resource
3,699 citations
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TL;DR: This study assesses the state-of-the-art machine learning methods used for brain tumor image analysis in mpMRI scans, during the last seven instances of the International Brain Tumor Segmentation (BraTS) challenge, i.e., 2012-2018, and investigates the challenge of identifying the best ML algorithms for each of these tasks.
Abstract: Gliomas are the most common primary brain malignancies, with different degrees of aggressiveness, variable prognosis and various heterogeneous histologic sub-regions, i.e., peritumoral edematous/invaded tissue, necrotic core, active and non-enhancing core. This intrinsic heterogeneity is also portrayed in their radio-phenotype, as their sub-regions are depicted by varying intensity profiles disseminated across multi-parametric magnetic resonance imaging (mpMRI) scans, reflecting varying biological properties. Their heterogeneous shape, extent, and location are some of the factors that make these tumors difficult to resect, and in some cases inoperable. The amount of resected tumoris a factor also considered in longitudinal scans, when evaluating the apparent tumor for potential diagnosis of progression. Furthermore, there is mounting evidence that accurate segmentation of the various tumor sub-regions can offer the basis for quantitative image analysis towards prediction of patient overall survival. This study assesses thestate-of-the-art machine learning (ML) methods used for brain tumor image analysis in mpMRI scans, during the last seven instances of the International Brain Tumor Segmentation (BraTS) challenge, i.e., 2012-2018. Specifically, we focus on i) evaluating segmentations of the various glioma sub-regions in pre-operative mpMRI scans, ii) assessing potential tumor progression by virtue of longitudinal growth of tumor sub-regions, beyond use of the RECIST/RANO criteria, and iii) predicting the overall survival from pre-operative mpMRI scans of patients that underwent gross tota lresection. Finally, we investigate the challenge of identifying the best ML algorithms for each of these tasks, considering that apart from being diverse on each instance of the challenge, the multi-institutional mpMRI BraTS dataset has also been a continuously evolving/growing dataset.
1,165 citations
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University of Lübeck1, Technische Universität München2, University of Bern3, Pakistan Institute of Nuclear Science and Technology4, Imperial College London5, Katholieke Universiteit Leuven6, Université de Sherbrooke7, University Medical Center Freiburg8, Northeastern University (China)9, German Cancer Research Center10, University of Helsinki11, Aalto University12, Old Dominion University13, National Taiwan University of Science and Technology14, Chalmers University of Technology15, Johns Hopkins University16, École Polytechnique de Montréal17
TL;DR: This paper proposes a common evaluation framework for automatic stroke lesion segmentation from MRIP, describes the publicly available datasets, and presents the results of the two sub‐challenges: Sub‐Acute Stroke Lesion Segmentation (SISS) and Stroke Perfusion Estimation (SPES).
417 citations
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Erasmus University Rotterdam1, VU University Medical Center2, University of Porto3, University of Freiburg4, National University of Colombia5, Old Dominion University6, Aarhus University7, Centre national de la recherche scientifique8, Montreal Neurological Institute and Hospital9, Imperial College London10, Tampere University of Technology11, University of Paris12, Magna Græcia University13, University of Reading14, University of Copenhagen15
TL;DR: A grand challenge to objectively compare algorithms based on a clinically representative multi-center data set of three diagnostic groups, finding the best performances were achieved using feature extraction based on voxel-based morphometry or a combination of features that included volume, cortical thickness, shape and intensity.
290 citations
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University of Illinois at Chicago1, Case Western Reserve University2, Indian Institute of Technology Bombay3, The Chinese University of Hong Kong4, Beijing University of Posts and Telecommunications5, Peking University6, University of Oklahoma7, University of Warwick8, Shanghai Jiao Tong University9, University of North Carolina at Chapel Hill10, Zhejiang University11, Sun Yat-sen University12, University of Hong Kong13, Medical University of Vienna14, Loughborough University15, Royal Institute of Technology16, Carnegie Mellon University17, University of Illinois at Urbana–Champaign18, Vietnam National University, Ho Chi Minh City19, Sejong University20, Indian Institute of Technology Madras21, University of California, Berkeley22, Hong Kong University of Science and Technology23, Islamic Azad University24, RWTH Aachen University25, University of Science and Technology of China26, University of Lübeck27, Agilent Technologies28, Shenzhen University29, Nanjing University of Science and Technology30, Tata Consultancy Services31, Korea University32, Polytechnic University of Valencia33, Old Dominion University34, Jadavpur University35, University of Castilla–La Mancha36, Cognizant37, Xiamen University38, Tongji University39
TL;DR: Several of the top techniques compared favorably to an individual human annotator and can be used with confidence for nuclear morphometrics as well as heavy data augmentation in the MoNuSeg 2018 challenge.
Abstract: Generalized nucleus segmentation techniques can contribute greatly to reducing the time to develop and validate visual biomarkers for new digital pathology datasets. We summarize the results of MoNuSeg 2018 Challenge whose objective was to develop generalizable nuclei segmentation techniques in digital pathology. The challenge was an official satellite event of the MICCAI 2018 conference in which 32 teams with more than 80 participants from geographically diverse institutes participated. Contestants were given a training set with 30 images from seven organs with annotations of 21,623 individual nuclei. A test dataset with 14 images taken from seven organs, including two organs that did not appear in the training set was released without annotations. Entries were evaluated based on average aggregated Jaccard index (AJI) on the test set to prioritize accurate instance segmentation as opposed to mere semantic segmentation. More than half the teams that completed the challenge outperformed a previous baseline. Among the trends observed that contributed to increased accuracy were the use of color normalization as well as heavy data augmentation. Additionally, fully convolutional networks inspired by variants of U-Net, FCN, and Mask-RCNN were popularly used, typically based on ResNet or VGG base architectures. Watershed segmentation on predicted semantic segmentation maps was a popular post-processing strategy. Several of the top techniques compared favorably to an individual human annotator and can be used with confidence for nuclear morphometrics.
251 citations
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TL;DR: Two specific computer-aided detection problems, namely thoraco-abdominal lymph node (LN) detection and interstitial lung disease (ILD) classification are studied, achieving the state-of-the-art performance on the mediastinal LN detection, and the first five-fold cross-validation classification results are reported.
Abstract: Remarkable progress has been made in image recognition, primarily due to the availability of large-scale annotated datasets and deep convolutional neural networks (CNNs). CNNs enable learning data-driven, highly representative, hierarchical image features from sufficient training data. However, obtaining datasets as comprehensively annotated as ImageNet in the medical imaging domain remains a challenge. There are currently three major techniques that successfully employ CNNs to medical image classification: training the CNN from scratch, using off-the-shelf pre-trained CNN features, and conducting unsupervised CNN pre-training with supervised fine-tuning. Another effective method is transfer learning, i.e., fine-tuning CNN models pre-trained from natural image dataset to medical image tasks. In this paper, we exploit three important, but previously understudied factors of employing deep convolutional neural networks to computer-aided detection problems. We first explore and evaluate different CNN architectures. The studied models contain 5 thousand to 160 million parameters, and vary in numbers of layers. We then evaluate the influence of dataset scale and spatial image context on performance. Finally, we examine when and why transfer learning from pre-trained ImageNet (via fine-tuning) can be useful. We study two specific computer-aided detection (CADe) problems, namely thoraco-abdominal lymph node (LN) detection and interstitial lung disease (ILD) classification. We achieve the state-of-the-art performance on the mediastinal LN detection, and report the first five-fold cross-validation classification results on predicting axial CT slices with ILD categories. Our extensive empirical evaluation, CNN model analysis and valuable insights can be extended to the design of high performance CAD systems for other medical imaging tasks.
4,249 citations
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3,940 citations
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Technische Universität München1, ETH Zurich2, University of Bern3, Harvard University4, National Institutes of Health5, University of Debrecen6, University Hospital Heidelberg7, McGill University8, University of Pennsylvania9, French Institute for Research in Computer Science and Automation10, University at Buffalo11, Microsoft12, University of Cambridge13, Stanford University14, University of Virginia15, Imperial College London16, Massachusetts Institute of Technology17, Columbia University18, Sabancı University19, Old Dominion University20, RMIT University21, Purdue University22, General Electric23
TL;DR: The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS) as mentioned in this paper was organized in conjunction with the MICCAI 2012 and 2013 conferences, and twenty state-of-the-art tumor segmentation algorithms were applied to a set of 65 multi-contrast MR scans of low and high grade glioma patients.
Abstract: In this paper we report the set-up and results of the Multimodal Brain Tumor Image Segmentation Benchmark (BRATS) organized in conjunction with the MICCAI 2012 and 2013 conferences Twenty state-of-the-art tumor segmentation algorithms were applied to a set of 65 multi-contrast MR scans of low- and high-grade glioma patients—manually annotated by up to four raters—and to 65 comparable scans generated using tumor image simulation software Quantitative evaluations revealed considerable disagreement between the human raters in segmenting various tumor sub-regions (Dice scores in the range 74%–85%), illustrating the difficulty of this task We found that different algorithms worked best for different sub-regions (reaching performance comparable to human inter-rater variability), but that no single algorithm ranked in the top for all sub-regions simultaneously Fusing several good algorithms using a hierarchical majority vote yielded segmentations that consistently ranked above all individual algorithms, indicating remaining opportunities for further methodological improvements The BRATS image data and manual annotations continue to be publicly available through an online evaluation system as an ongoing benchmarking resource
3,699 citations
01 Jan 2004
TL;DR: Comprehensive and up-to-date, this book includes essential topics that either reflect practical significance or are of theoretical importance and describes numerous important application areas such as image based rendering and digital libraries.
Abstract: From the Publisher:
The accessible presentation of this book gives both a general view of the entire computer vision enterprise and also offers sufficient detail to be able to build useful applications. Users learn techniques that have proven to be useful by first-hand experience and a wide range of mathematical methods. A CD-ROM with every copy of the text contains source code for programming practice, color images, and illustrative movies. Comprehensive and up-to-date, this book includes essential topics that either reflect practical significance or are of theoretical importance. Topics are discussed in substantial and increasing depth. Application surveys describe numerous important application areas such as image based rendering and digital libraries. Many important algorithms broken down and illustrated in pseudo code. Appropriate for use by engineers as a comprehensive reference to the computer vision enterprise.
3,627 citations
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TL;DR: An efficient and effective dense training scheme which joins the processing of adjacent image patches into one pass through the network while automatically adapting to the inherent class imbalance present in the data, and improves on the state-of-the‐art for all three applications.
2,842 citations