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Tourassi, Georgia

Publications and source records attributed to Tourassi, Georgia.

65 records · Page 4

Multi-Task Convolutional Neural Networks for Natural Text Classification

Information extraction and coding of free-text pathology reports is an important activity for cancer registries to support national cancer surveillance. Cancer registrars must process high volumes of pathology reports on an annual basis. We investigated an automated approach using a convolutional neural networks (CNNs) for extracting the primary site, laterality, histology, behavior, and histological grade from unstructured cancer pathology text reports. Our multi-task learning (MTL) with hard parameter sharing approach is used to train a multi-task MT-CNN model for all the tasks. The performance of our proposed approach was compared against a state of-the-art CNN and the commonly used SVM classifier. We observed that the proposed model consistently outperformed the baseline models, especially for the less prevalent classes. Also, the results demonstrate the potential of the proposed method for handling class imbalance within each task.

Yoon, HongJun↗

Investigating Sociodemographic Disparities in Cancer Risk Using Web-Based Informatics

Cancer health disparities due to demographic and socioeconomic factors are an area of great interest in the epidemiological community. Adjusting for such factors is important when developing cancer risk models. However, for digital epidemiology studies relying on online sources such information is not readily available. This paper presents a novel method for extracting demographic and socioeconomic information from openly available online obituaries. The method relies on tailored language processing rules and a probabilistic scheme to map subjects’ occupation history to the occupation classification codes and related earnings provided by the U.S. Census Bureau. Using this information, a case-control study is executed fully in silico to investigate how age, gender, parity, and income level impact breast and lung cancer risk. Based on 48,368 online obituaries (4,643 for breast cancer, 6,274 for lung cancer, and 37,451 cancer-free) collected automatically and a generalized cancer risk model, our study shows strong association between age, parity, and socioeconomic status and cancer risk. Although for breast cancer the observed trends are very consistent with traditional epidemiological studies, some inconsistency is observed for lung cancer with respect to socioeconomic status.

60 APPLIED LIFE SCIENCES↗

Deep Gaze Velocity Analysis During Mammographic Reading for Biometric Identification of Radiologists

Several studies have confirmed that the gaze velocity of the human eye can be utilized as a behavioral biometric or personalized biomarker. In this study, we leverage the local feature representation capacity of convolutional neural networks (CNNs) for eye gaze velocity analysis as the basis for biometric identification of radiologists performing breast cancer screening. Using gaze data collected from 10 radiologists reading 100 mammograms of various diagnoses, we compared the performance of a CNN-based classification algorithm with two deep learning classifiers, deep neural network and deep belief network, and a previously presented hidden Markov model classifier. The study showed that the CNN classifier is superior compared to alternative classification methods based on macro F1-scores derived from 10-fold cross-validation experiments. Our results further support the efficacy of eye gaze velocity as a biometric identifier of medical imaging experts.

59 BASIC BIOLOGICAL SCIENCES↗

Energy Efficient Stochastic-Based Deep Spiking Neural Networks for Sparse Datasets

With large deep neural networks (DNNs) neces- sary to solve complex and data-intensive problems, energy efficiency is a key bottleneck for effectively deploying DL in the real world. Deep spiking NNs have gained much research at- tention recently due to the interest in building biological neural networks and the availability of neuromorphic platforms, which can be orders of magnitude more energy efficient compared to CPUs and GPUs. Although spiking NNs have proven to be an efficient technique for solving many machine learning and computer vision problems, to the best of our knowledge, this is the first attempt to adapt spiking NNs to sparse datasets. In this paper, we study the behaviour of spiking NNs in handling NLP datasets and the sparsity in their data representation. Then, we propose a novel framework for spiking NN using the concept of stochastic computing. Specifically, instead of generating spike trains with firing rates proportional to the intensity of each value in the feature set separately, the whole feature set is treated as a distribution function and a stochastic spiking train that follow this distribution is generated. This framework reduces the connectivity between NN layers from O(N) to O(logN). Also, it encodes input data differently and make suitable to handle sparse datasets. Finally, the framework achieves high energy efficiency since it uses Integrate and Fire neurons same as conventional spiking NNs. The results show that our proposed stochastic-based SNN achieves nearly the same accuracy as the original DNN on MNIST dataset, and it has better performance than state- of-the-art SNN. Besides that stochastic-based SNN is energy efficient, where the fully connected DNN, the conventional SNN, and the data normalized SNN consume 38.24, 1.83, and 1.85 -times more energy than the stochastic-based SNN, respectively. For sparse datasets, including IMDb and In-House clinical datasets, stochastic-based SNN achieves performance comparable to that of the conventional DNN. However, the conventional spiking NN has a significant decline in classification accuracy.

Alawad, Mohammed↗

Visualization for Classification in Deep Neural Networks

Recently, the techniques based on Deep Neural Networks (DNNs) have achieved a great performance in classification tasks in a wide range of applications, such as image recognition and natural language processing. However, DNN developers face a lot of trial and error during the development process and spend their efforts in debugging their network model through analyzing and understanding the classification results. As such, tools are needed that help the developers not only understand the results, but also suggest the ways to improve their model. In this paper, we propose a visual analytics tool for visualizing the classification results during the iterative development pipeline of a DNN model. Our tool enables exploring the classification results from any type of neural network models, identifying misclassified samples, examining the predicted score distributions of samples, and showing how the outcomes progressively change during the training process.

Chae, Junghoon↗

Geometry and Gesture-Based Features from Saccadic Eye-Movement as a Biometric in Radiology

In this study, we present a novel application of sketch gesture recognition on eye-movement for biometric identification and estimating task expertise.The study was performed for the task of mammographic screening with simultaneous viewing of four coordinated breast views as typically done in clinical practice. Eye-tracking data and diagnostic decisions collected for 100 mammographic cases (25 normal, 25 benign, 50 malignant) and 10 readers (three board certified radiologists and seven radiology residents), formed the corpus for this study.Sketch gesture recognition techniques were employed to extract geometric and gesture-based features from saccadic eye-movements.Our results show that saccadic eye-movement, characterized using sketch-based features, result in more accurate models for predicting individual identity and level of expertise than more traditional eye-tracking features.

Alamudun, Folami↗

Fractal Analysis of Visual Search Activity for Mass Detection During Mammographic Screening

Purpose: The objective of this study was to assess the complexity of human visual search activity during mammographic screening using fractal analysis and to investigate its relationship with case and reader characteristics. Methods: The study was performed for the task of mammographic screening with simultaneous viewing of four coordinated breast views as typically done in clinical practice. Eye-tracking data and diagnostic decisions collected for 100 mammographic cases (25 normal, 25 benign, 50 malignant) and 10 readers (three board certified radiologists and seven radiology residents), formed the corpus data for this study. The fractal dimension of the readers’ visual scanning patterns was computed with the Minkowski–Bouligand box-counting method and used as a measure of gaze complexity. Individual factor and group-based interaction ANOVA analysis was performed to study the association between fractal dimension, case pathology, breast density, and reader experience level. The consistency of the observed trends depending on gaze data representation was also examined. Results: Case pathology, breast density, reader experience level, and individual reader differences are all independent predictors of the visual scanning pattern complexity when screening for breast cancer. No higher order effects were found to be significant. Conclusions: Fractal characterization of visual search behavior during mammographic screening is dependent on case properties and image reader characteristics.

47 OTHER INSTRUMENTATION↗

Predicting Lung Cancer Incidence from Air Pollution Exposures Using Shapelet-based Time Series Analysis

In this paper we investigated whether the geographical variation of lung cancer incidence can be predicted through examining the spatiotemporal trend of particulate matter air pollution levels. Regional trends of air pollution levels were analyzed by a novel shapelet-based time series analysis technique. First, we identified U.S. counties with reportedly high and low lung cancer incidence between 2008 and 2012 via the State Cancer Profiles provided by the National Cancer Institute. Then, we collected particulate matter exposure levels (PM2.5 and PM10) of the counties for the previous decade (1998-2007) via the AirData dataset provided by the Environmental Protection Agency. Using shapelet-based time series pattern mining, regional environmental exposure profiles were examined to identify frequently occurring sequential exposure patterns. Finally, a binary classifier was designed to predict whether a U.S. region is expected to experience high lung cancer incidence based on the region’s PM2.5 and PM10 exposure the decade prior. The study confirmed the association between prolonged PM exposure and lung cancer risk. In addition, the study findings suggest that not only cumulative exposure levels but also the temporal variability of PM exposure influence lung cancer risk.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗