Modeling the Intra-class Variability for Liver Lesion Detection using a Multi-class Patch-based CNN

Automatic detection of liver lesions in CT images poses a great challenge for researchers. In this work we present a deep learning approach that models explicitly the variability within the non-lesion class, based on prior knowledge of the data, to support an automated lesion detection system. A multi-class convolutional neural network (CNN) is proposed to categorize input image patches into sub-categories of boundary and interior patches, the decisions of which are fused to reach a binary lesion vs non-lesion decision. For validation of our system, we use CT images of 132 livers and 498 lesions. Our approach shows highly improved detection results that outperform the state-of-the-art fully convolutional network. Automated computerized tools, as shown in this work, have the potential in the future to support the radiologists towards improved detection.Comment: To be presented at PatchMI: 3rd International Workshop on Patch-based Techniques in Medical Imaging, MICCAI 201

Systematic Anomalies in Rainfall Intensity Estimates Over the Continental U.S.

Rainfall intensities during extreme events over the continental U.S. are compared for several advanced radar products. These products include: 1) TRMM spaceborne radar (PR) near surface estimates; 2) NOAA Next-Generation Quantitative Precipitation Estimation (QPE) very high-resolution (1 km) radar-only national mosaics (Q2); 3) very high-resolution instantaneous gauge adjusted radar national mosaics, which we have developed by applying gauge correction on the Q2 instantaneous radar-only products; and 4) several independent C-band dual-polarimetric radar-estimated rainfall samples collected with the ARMOR radar in northern Alabama. Though accumulated rainfall amounts are often similar, we find the satellite and the ground radar rain rate pdfs to be quite different. PR pdfs are shifted towards lower rain rates, implying a much larger stratiform/convective rain ratio than do ground radar products. The shift becomes more evident during strong continental convective storms and much less during tropical storms. Resolving the continental/maritime regime behavior and other large discrepancies between the products presents an important challenge. A challenge to improve our understanding of the source of the discrepancies, to determine the uncertainties of the estimates, and to improve remote-sensing estimates of precipitation in general

Evaluation Of Satellite-Retrieved Extreme Precipitation Rates Across the Central United States

Water resources management, forecasting, and decision making require reliable estimates of precipitation. Extreme precipitation events are of particular importance because of their severe impact on the economy, the environment, and the society. In recent years, the emergence of various satellite-retrieved precipitation products with high spatial resolutions and global coverage have resulted in new sources of uninterrupted precipitation estimates. However, satellite-based estimates are not well integrated into operational and decision-making applications because of a lack of information regarding the associated uncertainties and reliability of these products. In this study, four satellite-derived precipitation products (CMORPH, PERSIANN, TMPA-RT, and TMPA-V6) are evaluated with respect to their performance in capturing precipitation extremes. The Stage IV (radar-based, gauge-adjusted) precipitation estimates are used as reference data. The results show that with respect to the probability of detecting extremes and the volume of correctly identified precipitation, CMORPH and PERSIANN data sets lead to better estimates. However, their false alarm ratio and volume are higher than those of TMPA-RT and TMPA-V6. Overall, no single precipitation product can be considered ideal for detecting extreme events. In fact, all precipitation products tend to miss a significant volume of rainfall. With respect to verification metrics used in this study, the performance of all satellite products tended to worsen as the choice of extreme precipitation threshold increased. The analyses suggest that extensive efforts are necessary to develop algorithms that can capture extremes more reliably

Synthetic Data Augmentation using GAN for Improved Liver Lesion Classification

In this paper, we present a data augmentation method that generates synthetic medical images using Generative Adversarial Networks (GANs). We propose a training scheme that first uses classical data augmentation to enlarge the training set and then further enlarges the data size and its diversity by applying GAN techniques for synthetic data augmentation. Our method is demonstrated on a limited dataset of computed tomography (CT) images of 182 liver lesions (53 cysts, 64 metastases and 65 hemangiomas). The classification performance using only classic data augmentation yielded 78.6% sensitivity and 88.4% specificity. By adding the synthetic data augmentation the results significantly increased to 85.7% sensitivity and 92.4% specificity.Comment: To be presented at IEEE International Symposium on Biomedical Imaging (ISBI), 201

Anatomical Data Augmentation For CNN based Pixel-wise Classification

In this work we propose a method for anatomical data augmentation that is based on using slices of computed tomography (CT) examinations that are adjacent to labeled slices as another resource of labeled data for training the network. The extended labeled data is used to train a U-net network for a pixel-wise classification into different hepatic lesions and normal liver tissues. Our dataset contains CT examinations from 140 patients with 333 CT images annotated by an expert radiologist. We tested our approach and compared it to the conventional training process. Results indicate superiority of our method. Using the anatomical data augmentation we achieved an improvement of 3% in the success rate, 5% in the classification accuracy, and 4% in Dice.Comment: To be presented at IEEE ISBI 201

Assessing Satellite-Based Rainfall Estimates In Semiarid Watersheds Using the Usda-Ars Walnut Gulch Gauge Network and Trmm Pr

The rain gauge network associated with the Walnut Gulch Experimental Watershed (WGEW) in southeastern Arizona provides a unique opportunity for direct comparisons of in situ measurements and satellite-based instantaneous rain rate estimates like those from the Tropical Rainfall Measuring Mission (TRMM) precipitation radar (PR). The WGEW network is the densest rain gauge network in the PR coverage area for watersheds greater than 10 km(2). It consists of 88 weighing rain gauges within a 149-km(2) area. On average, approximately 10 gauges can be found in each PR field of view (similar to 5-km diameter). All gauges are very well synchronized with 1-min reporting intervals. This allows generating very-high-temporal-resolution rain rate fields and obtaining accurate estimates of the area-average rain rate for the entire watershed and for a single PR field of view. In this study, instantaneous rain rate fields from the PR and the spatially interpolated gauge measurements (on a 100 m 100 m grid, updated every 1 min) are compared for all TRMM overpasses in which the PR recorded rain within the WGEW boundaries (25 overpasses during 1999-2010). The results indicate very good agreement between the fields with low bias values (\u3c10%) and high correlation coefficients, especially for the near-nadir cases (\u3e0.9). The correlation is high at overpass time but the peak occurs several minutes after the overpass, which can be explained by the fact that it takes several minutes for the raindrops to reach the gauge from the time they are observed by the PR. The correlation improves with the new version of the TRMM algorithm (V7). The study includes assessment of the accuracy of the reference products

Toward a Framework For Systematic Error Modeling Of Spaceborne Precipitation Radar With Noaa/Nssl Ground Radar Based National Mosaic Qpe

Characterization of the error associated with satellite rainfall estimates is a necessary component of deterministic and probabilistic frameworks involving spaceborne passive and active microwave measurements for applications ranging from water budget studies to forecasting natural hazards related to extreme rainfall events. The authors focus here on the error structure of NASA\u27s Tropical Rainfall Measurement Mission (TRMM) Precipitation Radar (PR) quantitative precipitation estimation (QPE) at ground. The problem is addressed by comparison of PR QPEs with reference values derived from ground-based measurements using NOAA/NSSL ground radar based National Mosaic and QPE system (NMQ/Q2). A preliminary investigation of this subject has been carried out at the PR estimation scale (instantaneous and 5 km) using a 3-month data sample in the southern part of the United States. The primary contribution of this study is the presentation of the detailed steps required to derive a trustworthy reference rainfall dataset from Q2 at the PR pixel resolution. It relies on a bias correction and a radar quality index, both of which provide a basis to filter out the less trustworthy Q2 values. Several aspects of PR errors are revealed and quantified including sensitivity to the processing steps with the reference rainfall, comparisons of rainfall delectability and rainfall-rate distributions, spatial representativeness of error, and separation of systematic biases and random errors. The methodology and framework developed herein applies more generally to rainfall-rate estimates from other sensors on board low-earth-orbiting satellites such as microwave imagers and dual-wavelength radars such as with the Global Precipitation Measurement (GPM) mission