The science of the total environment

What has happened in machine learning lately, and what does it mean for the future of medical image analysis? Machine learning has witnessed a tremendous amount of attention over the last few years. The current boom started around 2009 when so-called deep artificial neural networks began outperforming other established models on a number of important benchmarks. Deep neural networks are now the state-of-the-art machine learning models across a variety of areas, from image analysis to natural language processing, and widely deployed in academia and industry. These developments have a huge potential for medical imaging technology, medical data analysis, medical diagnostics and healthcare in general, slowly being realized. We provide a short overview of recent advances and some associated challenges in machine learning applied to medical image processing and image analysis. As this has become a very broad and fast expanding field we will not survey the entire landscape of applications, but put particular focus on deep learning in MRI. 
Our aim is threefold: (i) give a brief introduction to deep learning with pointers to core references; (ii) indicate how deep learning has been applied to the entire MRI processing chain, from acquisition to image retrieval, from segmentation to disease prediction; (iii) provide a starting point for people interested in experimenting and perhaps contributing to the field of machine learning for medical imaging by pointing out good educational resources, state-of-the-art open-source code, and interesting sources of data and problems related medical imaging.

An overview of deep learning in medical imaging focusing on MRI

For more information on the USGS—the Federal source for science about the Earth, its natural and living resources, natural hazards, and the environment, visit http://www.usgs.gov or call 1–888–ASK–USGS. For an overview of USGS information products, including maps, imagery, and publications, Any use of trade, product, or firm names is for descriptive purposes only and does not imply endorsement by the U.S. Government. Although this report is in the public domain, permission must be secured from the individual copyright owners to reproduce any copyrighted materials contained within this report. 10. Diagram showing the GMTED2010 layer extents (minimum and maximum latitude and longitude) are a result of the coordinate system inherited from the 1-arc-second SRTM

Global Multi-resolution Terrain Elevation Data 2010 (GMTED2010)

What has happened in machine learning lately, and what does it mean for the future of medical image analysis? Machine learning has witnessed a tremendous amount of attention over the last few years. The current boom started around 2009 when so-called deep artificial neural networks began outperforming other established models on a number of important benchmarks. Deep neural networks are now the state-of-the-art machine learning models across a variety of areas, from image analysis to natural language processing, and widely deployed in academia and industry. These developments have a huge potential for medical imaging technology, medical data analysis, medical diagnostics and healthcare in general, slowly being realized. We provide a short overview of recent advances and some associated challenges in machine learning applied to medical image processing and image analysis. As this has become a very broad and fast expanding field we will not survey the entire landscape of applications, but put particular focus on deep learning in MRI. Our aim is threefold: (i) give a brief introduction to deep learning with pointers to core references; (ii) indicate how deep learning has been applied to the entire MRI processing chain, from acquisition to image retrieval, from segmentation to disease prediction; (iii) provide a starting point for people interested in experimenting and perhaps contributing to the field of deep learning for medical imaging by pointing out good educational resources, state-of-the-art open-source code, and interesting sources of data and problems related medical imaging.

[1] Changes in regional groundwater storage in North China were estimated from the Gravity Recovery and Climate Experiment (GRACE) satellites data and ground-based measurements collected from 2003 to 2010. The study area (∼370,000 km2) included the Beijing and Tianjin municipality, the Hebei and Shanxi province, which is one of the largest irrigation areas in the world and is subjected to intensive groundwater-based irrigation. Groundwater depletion in North China was estimated by removing the simulated soil moisture changes from the GRACE-derived terrestrial water storage changes. The rate of groundwater depletion in North China based on GRACE was 2.2 ± 0.3 cm/yr from 2003 to 2010, which is equivalent to a volume of 8.3 ± 1.1 km3/yr. The groundwater depletion rate estimated from monitoring well stations during the same time period was between 2.0 and 2.8 cm/yr, which is consistent with the GRACE-based result. However, the estimated groundwater depletion rate in shallow plain aquifers according to the Groundwater Bulletin of China Northern Plains (GBCNP) for the same time period was only approximately 2.5 km3/yr. The difference in groundwater depletion rates estimated from GRACE and GBCNP data indicates the important contribution of groundwater depletion from deep aquifers in the plain and piedmont regions of North China.

Evaluation of groundwater depletion in North China using the Gravity Recovery and Climate Experiment (GRACE) data and ground-based measurements (EI)

Image super-resolution

The relationships between PM2.5 and aerosol optical depth (AOD) in mainland China: About and behind the spatio-temporal variations.

The absence of a high-quality seamless global digital elevation model (DEM) dataset has been a challenge for the Earth-related research fields. Recently, the 1-arc-second Shuttle Radar Topography Mission (SRTM-1) data have been released globally, covering over 80% of the Earth’s land surface (60°N–56°S). However, voids and anomalies still exist in some tiles, which has prevented the SRTM-1 dataset from being directly used without further processing. In this paper, we propose a method to generate a seamless DEM dataset blending SRTM-1, ASTER GDEM v2, and ICESat laser altimetry data. The ASTER GDEM v2 data are used as the elevation source for the SRTM void filling. To get a reliable filling source, ICESat GLAS points are incorporated to enhance the accuracy of the ASTER data within the void regions, using an artificial neural network (ANN) model. After correction, the voids in the SRTM-1 data are filled with the corrected ASTER GDEM values. The triangular irregular network based delta surface fill (DSF) method is then employed to eliminate the vertical bias between them. Finally, an adaptive outlier filter is applied to all the data tiles. The final result is a seamless global DEM dataset. ICESat points collected from 2003 to 2009 were used to validate the effectiveness of the proposed method, and to assess the vertical accuracy of the global DEM products in China. Furthermore, channel networks in the Yangtze River Basin were also extracted for the data assessment.

High-quality seamless DEM generation blending SRTM-1, ASTER GDEM v2 and ICESat/GLAS observations

In the commonly employed regularization models of image restoration and super-resolution (SR), the norm determination is often challenging. This paper proposes a method to adaptively determine the optimal norms for both fidelity term and regularization term in the (SR) restoration model. Inspired by a generalized likelihood ratio test, a piecewise function is proposed to solve the norm of the fidelity term. This function can find the stable norm value in a certain number of iterations, regardless of whether the noise type is Gaussian, impulse, or mixed. For the regularization norm, the main advantage of the proposed method is that it is locally adaptive. Specifically, it assigns different norms for different pixel locations, according to the local activity measured by a structure tensor metric. The proposed method was tested using different types of images. The experimental results and error analyses verify the efficacy of the method.

Linwei Yue

Papers

Image super-resolution

The relationships between PM2.5 and aerosol optical depth (AOD) in mainland China: About and behind the spatio-temporal variations.

High-quality seamless DEM generation blending SRTM-1, ASTER GDEM v2 and ICESat/GLAS observations

Adaptive Norm Selection for Regularized Image Restoration and Super-Resolution

A locally adaptive L1−L2 norm for multi-frame super-resolution of images with mixed noise and outliers