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Deep learning (DL) models for medical image segmentation are highly influenced by intensity variations of input images and lack generalization due to primarily utilizing pixels' intensity information for inference. Acquiring sufficient training data is another challenge limiting models' applications. We proposed to leverage the consistency of organs' anatomical shape and position information in medical images. We introduced a framework leveraging recurring anatomical patterns through global binary masks for organ segmentation. Two scenarios were studied.1) Global binary masks were the only model's (i.e. U-Net) input, forcing exclusively encoding organs' position and shape information for segmentation/localization.2) Global binary masks were incorporated as an additional channel functioning as position/shape clues to mitigate training data scarcity. Two datasets of the brain and heart CT images with their ground-truth were split into (26:10:10) and (12:3:5) for training, validation, and test respectively. Training exclusively on global binary masks led to Dice scores of 0.77(0.06) and 0.85(0.04), with the average Euclidian distance of 3.12(1.43)mm and 2.5(0.93)mm relative to the center of mass of the ground truth for the brain and heart structures respectively. The outcomes indicate that a surprising degree of position and shape information is encoded through global binary masks. Incorporating global binary masks led to significantly higher accuracy relative to the model trained on only CT images in small subsets of training data; the performance improved by 4.3-125.3% and 1.3-48.1% for 1-8 training cases of the brain and heart datasets respectively. The findings imply the advantages of utilizing global binary masks for building generalizable models and to compensate for training data scarcity.

Breast ultrasound (US) is an effective imaging modality for breast cancer detec-tion and diagnosis. The structural characteristics of breast lesion play an im-portant role in Computer-Aided Diagnosis (CAD). In this paper, a novel struc-ture-aware triplet path networks (SATPN) was designed to integrate classifica-tion and two image reconstruction tasks to achieve accurate diagnosis on US im-ages with small training dataset. Specifically, we enhance clinically-approved breast lesion structure characteristics though converting original breast US imag-es to BIRADS-oriented feature maps (BFMs) with a distance-transformation coupled Gaussian filter. Then, the converted BFMs were used as the inputs of SATPN, which performed lesion classification task and two unsupervised stacked convolutional Auto-Encoder (SCAE) networks for benign and malignant image reconstruction tasks, independently. We trained the SATPN with an alter-native learning strategy by balancing image reconstruction error and classification label prediction error. At the test stage, the lesion label was determined by the weighted voting with reconstruction error and label prediction error. We com-pared the performance of the SATPN with TPN using original image as input and our previous developed semi-supervised deep learning methods using BFMs as inputs. Experimental results on two breast US datasets showed that SATPN ranked the best among the three networks, with classification accuracy around 93.5%. These findings indicated that SATPN is promising for effective breast US lesion CAD using small datasets., Comment: arXiv admin note: substantial text overlap with arXiv:1904.01076

The Counterfactual package implements the estimation and inference methods of Chernozhukov et al. (2013) for counterfactual analysis. The counterfactual distributions considered are the result of changing either the marginal distribution of covariates related to the outcome variable of interest, or the conditional distribution of the outcome given the covariates. They can be applied to estimate quantile treatment effects and wage decompositions. This paper serves as an introduction to the package and displays basic functionality of the commands contained within.

Data cleaning consumes about 80% of the time spent on data analysis for clinical research projects. This is a much bigger problem in the era of big data and machine learning in the field of medicine where large volumes of data are being generated. We report an initial effort towards automated patient data cleaning using deep learning: the standardization of organ labeling in radiation therapy. Organs are often labeled inconsistently at different institutions (sometimes even within the same institution) and at different time periods, which poses a problem for clinical research, especially for multi-institutional collaborative clinical research where the acquired patient data is not being used effectively. We developed a convolutional neural network (CNN) to automatically identify each organ in the CT image and then label it with the standardized nomenclature presented at AAPM Task Group 263. We tested this model on the CT images of 54 patients with prostate and 100 patients with head and neck cancer who previously received radiation therapy. The model achieved 100% accuracy in detecting organs and assigning standardized labels for the patients tested. This work shows the feasibility of using deep learning in patient data cleaning that enables standardized datasets to be generated for effective intra- and interinstitutional collaborative clinical research., Comment: 17 pages, 7 figures, 3 tables, 39 references

I propose a fixed effects expectation-maximization (EM) estimator that can be applied to a class of nonlinear panel data models with unobserved heterogeneity, which is modelled as individual effects and/or time effects. Of particular interest is the case of interactive effects, i.e. when the unobserved heterogeneity is modelled as a factor analytical structure. The estimator is obtained through a computationally simple, iterative two-step procedure, where the two steps have closed form solutions. I show that estimator is consistent in large panels and derive the asymptotic distribution for the case of the probit with interactive effects. I develop analytical bias corrections to deal with the incidental parameter problem. Monte Carlo experiments demonstrate that the proposed estimator has good finite-sample properties.

We propose Quantile Graphical Models (QGMs) to characterize predictive and conditional independence relationships within a set of random variables of interest. This framework is intended to quantify the dependence in non-Gaussian settings which are ubiquitous in many econometric applications. We consider two distinct QGMs. First, Condition Independence QGMs characterize conditional independence at each quantile index revealing the distributional dependence structure. Second, Predictive QGMs characterize the best linear predictor under asymmetric loss functions. Under Gaussianity these notions essentially coincide but non-Gaussian settings lead us to different models as prediction and conditional independence are fundamentally different properties. Combined the models complement the methods based on normal and nonparanormal distributions that study mean predictability and use covariance and precision matrices for conditional independence. We also propose estimators for each QGMs. The estimators are based on high-dimension techniques including (a continuum of) ℓ1-penalized quantile regressions and low biased equations, which allows us to handle the potentially large number of variables. We build upon recent results to obtain valid choice of the penalty parameters and rates of convergence. These results are derived without any assumptions on the separation from zero and are uniformly valid across a wide-range of models. With the additional assumptions that the coefficients are well-separated from zero, we can consistently estimate the graph associated with the dependence structure by hard thresholding the proposed estimators. Further we show how QGM can be used to represent the tail interdependence of the variables which plays an important role in application concern with extreme events in opposition to average behavior. We show that the associated tail risk network can be used for measuring systemic risk contributions. We also apply the framework to study financial co

陳明麗., "2013年8月"., "2013 nian 8 yue"., Thesis (Ph.D.)--Chinese University of Hong Kong, 2013., Includes bibliographical references (leaves 196-220)., Electronic reproduction. Hong Kong : Chinese University of Hong Kong, [2012] System requirements: Adobe Acrobat Reader. Available via World Wide Web., in Chinese and English., Chen Mingli., http://library.cuhk.edu.hk/record=b5884252, Use of this resource is governed by the terms and conditions of the Creative Commons “Attribution-NonCommercial-NoDerivatives 4.0 International” License (http://creativecommons.org/licenses/by-nc-nd/4.0/)