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===System architecture===
===System architecture===
Apart from the structural design shown in Figure 1, the data provided by JPMAP are obtained from different websites via File Transfer Protocol (FTP), a standard used for transfer of computer files between servers and clients. In order to improve data accessibility for epidemiological studies, JPMAP not only collects these datasets, but it also pre-processes them before distribution. Searched results are displayed both graphically (time-series chart) and in text. Time-series and spatial processing are performed on the system interactively based on user queries so that the datasets can be accessed without need for additional processing by the user.
All the satellite-derived environmental information mentioned above is converted to the Network Common Data Form (NetCDF) format and stored on the JPMAP web server. In response to user queries, the system performs spatio-temporal processing of archived data and presents a time-series plot of the results asked for. Spatio-temporal data processing, [[Data visualization|visualization]] of searched results, and conversion of these data to the comma-separated values (CSV) format are executed in response to user queries at the website. However, user registration is required for downloading of CSV data. The website and the interactive processing is done using Hypertext Markup Language (HTML) and Python.
Spatial averages are calculated when users select rectangles or administrative boundaries for the geographic regions they are interested in. The spatial average of a specific land cover within the selected rectangle, or administrative boundary, is also calculated when users select a specific land cover as an extra option. JPMAP calculates this spatial average by averaging the pixels within, and intersecting with, the selected boundary. Temporal processing is performed when users select daily, half-monthly, or monthly data intervals to get representative values within the specific area chosen. Accumulation is calculated for rainfall, average for shortwave radiation, soil moisture, AOT, and LST, while the maximum value within the period is given for NDVI selections.
As ancillary data, the administrative boundary and land cover data are used to calculate the spatial average. The administrative boundary data (vector format data) were obtained from the Global Administrative Areas database<ref name="GADM18">{{cite web |url=https://gadm.org/ |title=GADM maps and data (version 3.6) |author=Global Administrative Areas team |date=2018}}</ref>, and land cover data with a spatial resolution of 300 m are obtained from ESA GlobCover.<ref name="BontempsGLOB11">{{cite web |url=https://epic.awi.de/id/eprint/31014/16/GLOBCOVER2009_Validation_Report_2-2.pdf |format=PDF |title=GLOBCOVER 2009: Products Description and Validation Report |author=Bontemps, S.; Defourny, P.; Van Bogaert, E. et al. |publisher=UCL & ESA |date=18 February 2011}}</ref>
===Graphical user interface===





Revision as of 16:45, 6 August 2019

Full article title Japan Aerospace Exploration Agency’s public-health monitoring and analysis platform: A satellite-derived
environmental information system supporting epidemiological study
Journal Geospatial Health
Author(s) Oyashi, Kei; Mizukami, Yosei; Kakuda, Ryosuke; Kobayashi, Yusuke; Kai, Hiroki; Tadono, Takeo
Author affiliation(s) Japan Aerospace Exploration Agency, Remote Sensing Technology Center of Japan
Primary contact Email: ohyoshi dot kei at jaxa dot jp
Year published 2019
Volume and issue 14(1)
Page(s) 717
DOI 10.4081/gh.2019.717
ISSN 1970-7096
Distribution license Creative Commons Attribution-NonCommercial 4.0 International
Website https://geospatialhealth.net/index.php/gh/article/view/717
Download https://geospatialhealth.net/index.php/gh/article/view/717/772 (PDF)

Abstract

Since the 1970s, Earth-observing satellites collect increasingly detailed environmental information on land cover, meteorological conditions, environmental variables, and air pollutants. This information spans the entire globe, and its acquisition plays an important role in epidemiological analysis when in situ data are unavailable or spatially and/or temporally sparse. In this paper, we present the development of the Japan Aerospace Exploration Agency’s (JAXA) Public-health Monitoring and Analysis Platform, a user-friendly, web-based system providing environmental data on shortwave radiation, rainfall, soil moisture, the normalized difference vegetation index, aerosol optical thickness, land surface temperature and altitude. This system has been designed so that users would be able to download and utilize data without the need for additional data processing. The website allows interactive exchange, and users can request data for a specific geographic location and time using the information gained for the purpose of epidemiological analysis.

Keywords: earth-observing satellites, infection diseases, environmental information; online database; geospatial data; JPMAP, JAXA

Introduction

Climate change affects human health in diverse ways, including direct impact from extreme weather such as heat, drought, and heavy rain, and indirect impact through natural systems such as vector-borne diseases, water-borne diseases, and air pollution. Climate change also works through human systems, exemplified by occupational strain, malnutrition, and mental stress.[1][2] These and other types of phenomena have emerged in various regions of the world to threaten human civilization. It follows that the development of an understanding of climate-disease interactions, monitoring of outcomes, and identification of opportunities for mitigating adverse effects are important public-health research issues.[3] The United Nations (U.N.) is well aware of such threats and has developed an agenda of Sustainable Development Goals (SDGs) tailored to meet these challenges. Among them, SDG No. 3 addresses infectious diseases and seeks to end epidemics caused by malaria, neglected tropical diseases, and water-borne infections by the year 2030, with the ultimate goal of ensuring healthy lives and promoting well-being for all at all ages.[4]

Infectious diseases occur as a consequence of close interaction between humans, animals, and the environment they live in. Adopting the One Health approach, a collaborative effort of multiple disciplines to work for health across these three domains is essential for the identification of opportunities for health improvement and optimizing mitigation of risk.[5] Although estimates of the health impacts based on this approach require extensive data collection, information on important environmental variables are often missing or sparse with respect to both time and space. Insufficient data on parameters such as temperature, rainfall, land use/land cover, atmospheric pollutants, forest fires, and topography prevent researchers and practitioners from conducting comprehensive investigations.

Earth-observing satellites (EOS) play a vital role in the collection of the above-mentioned environmental factors since they consistently observe the entire globe within rapidly repeated time periods. More than 30 years of archived data, used in epidemiological studies of infectious diseases, are currently available, including knowledge of air-pollution levels and extreme weather conditions related to communicable diseases, such as lung afflictions and heat stroke.[6][7][8][9][10] The Group on Earth Observations (GEO), the biggest community of this kind, uses satellite-generated in-situ observations to address areas of societal benefit, including public-health surveillance, aiming to provide alerts regarding air quality, weather extremes, water-related illness, vector-borne disease, and assessments regarding access to health facilities.

As many governmental space agencies or enterprises have launched EOSs, a wide variety of satellite-collected environmental data is currently available, and much of this knowledge is provided free of charge via the internet. Available websites include the Copernicus open-access hub maintained by the European Space Agency, the Land Processes Distributed Active Archive Center (LP DAAC) maintained by the United States (U.S.) National Aeronautics and Space Administration and Geological Survey (USGS), and the Globe Portal System (G-Portal) provided by the Japan Aerospace Exploration Agency. However, to make use of the data downloaded from these sites, additional data processing is generally needed for the desired epidemiological analyses to be carried out. For example, to acquire annual daily rainfall data for a specific area, 365 scenes must first be downloaded, then a subset of areal data must be generated and used to calculate the average rainfall. Further, to acquire surface temperature data in addition to rainfall data, a separate dataset must be downloaded, which may have a different data format since surface temperature and rainfall are retrieved from different sensors on-board different satellites. The risk of this problem not only increases when data are retrieved from different websites, but it can also prevent researchers from utilizing satellite-derived environmental information properly.

Satellite agencies have made significant efforts to develop satellite-based environmental information, including climatic factors, biophysical parameters, topographic data, etc. The values of these variables have been validated with ground-based measurements to ensure accuracy[11][12][13], and they may also have been subjected to inter-comparison of satellite-based measurements from different sensors to refine them.[14] In addition, satellite products are translated into input parameters, e.g., using the numerical crop model.[15] However, there are advantages and disadvantages with each product, and users have to select the products to meet their specific needs carefully, which would be similar to select reanalysis climate data provided by various agencies.[16] We have selected and integrated some validated environmental information distributed via different websites with different formats to construct a new web-based database. Our goal was to develop a user-friendly online system providing satellite-derived environmental information for the purposes of epidemiological analysis. The system presented here enables users to search, visualize, and download data that have been spatio-temporally pre-processed so that the data can be utilized immediately after download without additional processing.

Materials and methods

Overview

Figure 1 shows an overview of JAXA’s Public-health Monitor and Analysis Platform (JPMAP)[17], developed to provide satellite-derived environmental information, including shortwave radiation (solar radiation with wavelengths between 300 nm and 4 μm), rainfall, soil moisture, normalized difference vegetation index (NDVI), aerosol optical thickness (AOT), land surface temperature (LST), and altitude (Table 1), primarily to epidemiologists. The majority of this satellite-generated information comes from the JAXA Satellite Monitoring for Environmental Studies (JASMES)[18], which provides a wide variety of physical variables retrieved from NASA’s moderate resolution imaging spectroradiometer (MODIS) onboard the Terra and Aqua satellites. MODIS and the data it provides was used as the basis for the development of similar physical variables from the Second-Generation Land Imager (SEGLI) on-board the Global Change Observation Mission-Climate (GCOM-C) satellite launched by JAXA on December 23, 2017.[19] SGLI has a finer spatial resolution than MODIS in the visible to thermal infrared bands, with observations every two days[20], and it will eventually replace MODIS as the data source providing the GCOM-C products for JASMES.

All data are acquired at repeat times ranging from hourly to every other day, except the altitude information, which is displayed only when users select a point reference in the geographic region studied, as a spatial average of the altitude would be useless. The JPMAP archive currently covers the period from 2002 to 2016.

Fig1 Oyashi GeospatialHlth2019 14-1.png

Figure 1. Overview of the satellite-derived environmental information provision system (JPMAP). JPMAP users can send queries to the system via the JPMAP website user interface, which results in spatio temporal processing of archived data. Users can also generate time- series plots based on query results and download time-series data. JAXA, Japan Aerospace Exploration Agency; NASA/USGS, National Aeronautics and Space Administration/United States Geological Survey; GSMap, Global Satellite Mapping of Precipitation; JASMES, Satellite Monitoring for Environmental Studies; AW3D30, Advanced Land Observing Satellite World 3D-30; GADM, Global Administrative Areas database.

Table 1. Sources of environmental data used on Japan Aerospace Exploration Agency's Public-health Monitoring and Analysis Platform
Product Units Grid size Data interval Data source
Rainfall mm 10 km Hourly JAXA
Shortwave radiation W/m2 5 km Daily JAXA
LST °C 5 km Four times/day NASA/USGS
AOT (at 550 nm) Unit-less 5 km Daily JAXA
NDVI Unit-less 5 km Daily JAXA
Soil moisture content Volume% 25 km Every two days JAXA
Altitude m 30 m - JAXA

Available datasets

JPMAP utilizes JASMES products such as shortwave radiation[21][22] and NDVI, which indicates the amount of green leaf area or green leaf biomass whereby dense vegetation gives a high NDVI value[23] capable of capturing the vegetation phenology by time-series, and AOT acquired through the attenuation of light at the 550 nm wavelength between the ground and the top of the atmosphere, which is closely related to the amount of aerosols in the atmosphere.[24]

The LST data used in the JPMAP system comes from the MODIS LST product MOD11C1 Collection-6 algorithm, obtained from the NASA/USGS site and processed according to a method used by Wan.[11] Four daily LST values observed at 1:30, 10:30, 13:30, and 22:30 (local times) are available and JPMAP utilizes all four. The soil moisture content data were obtained from the G-Portal mentioned above. These data are generated by the Advanced Microwave Scanning Radiometer (AMSR-E) on-board the U.S. Aqua satellite and the AMSR2 on-board the Japanese GCOM-W satellite.[25] However, soil moisture content data from November 2011 to June 2012 are unavailable due to an operational gap between the AMSR-E and AMSR2 at this time.

The Global Satellite Mapping of Precipitation (GSMaP) product (Figure 2), obtained from JAXA[26], is used for the rainfall data. This represents hourly global rainfall data covering the area between the latitudes 60 South and 60 North retrieved from EOS data.[27] For altitude data, JPMAP uses the Advanced Land Observing Satellite World 3D-30 m (ALOS AW3D30).[28] The AW3D30 was developed using multi-angle (nadir, forward, and backward) observational data from the Panchromatic Remote-sensing Instrument for Stereo Mapping (PRISM) on-board ALOS, a satellite launched in January 2006, completing its mission in May 2011.[29] The AW3D30 was developed using the ALOS PRISM data acquired during this period.


Fig2 Oyashi GeospatialHlth2019 14-1.png

Figure 2. Satellite-derived monthly rainfall data (GSMaP) for June 2016

System architecture

Apart from the structural design shown in Figure 1, the data provided by JPMAP are obtained from different websites via File Transfer Protocol (FTP), a standard used for transfer of computer files between servers and clients. In order to improve data accessibility for epidemiological studies, JPMAP not only collects these datasets, but it also pre-processes them before distribution. Searched results are displayed both graphically (time-series chart) and in text. Time-series and spatial processing are performed on the system interactively based on user queries so that the datasets can be accessed without need for additional processing by the user.

All the satellite-derived environmental information mentioned above is converted to the Network Common Data Form (NetCDF) format and stored on the JPMAP web server. In response to user queries, the system performs spatio-temporal processing of archived data and presents a time-series plot of the results asked for. Spatio-temporal data processing, visualization of searched results, and conversion of these data to the comma-separated values (CSV) format are executed in response to user queries at the website. However, user registration is required for downloading of CSV data. The website and the interactive processing is done using Hypertext Markup Language (HTML) and Python.

Spatial averages are calculated when users select rectangles or administrative boundaries for the geographic regions they are interested in. The spatial average of a specific land cover within the selected rectangle, or administrative boundary, is also calculated when users select a specific land cover as an extra option. JPMAP calculates this spatial average by averaging the pixels within, and intersecting with, the selected boundary. Temporal processing is performed when users select daily, half-monthly, or monthly data intervals to get representative values within the specific area chosen. Accumulation is calculated for rainfall, average for shortwave radiation, soil moisture, AOT, and LST, while the maximum value within the period is given for NDVI selections.

As ancillary data, the administrative boundary and land cover data are used to calculate the spatial average. The administrative boundary data (vector format data) were obtained from the Global Administrative Areas database[30], and land cover data with a spatial resolution of 300 m are obtained from ESA GlobCover.[31]

Graphical user interface

Acknowledgements

THe GlobCover land cover map was obtained from the ESA GlobCover 2009 Project. The administrative boundary data (vector format data) were obtained from the GADM database. MOD11C1 Collection-6 data were obtained from NASA’s LandProcesses Distributed Active Archive Center located at the USGS EarthResources Observation and Science Center. Rainfall, shortwave radiation, soil moisture, NDVI, AOT, and altitude data were obtained from JAXA.

Contributions

KO wrote the draft of manuscript and designed the study; YM and TT reviewed the multiple versions of manuscript and contributed on study design; RK, YK, and HK contributed on coding and data processing.

Funding

None.

Conflict of interest

The authors declare no potential conflict of interest.

References

  1. Bowles, D.C.; Butler, C.D.; Friel, S. (2014). "Climate change and health in Earth's future". Earth's Future 2 (2): 60–67. doi:10.1002/2013EF000177. 
  2. Smith, K.R.; Woodward, A.; Campbell-Lendrum, D. et al. (2014). "Chapter 11: Human health: Impacts, adaptation, and co-benefits". In Field, C.B.; Barros, V.R.; Dokken, D.J. et al.. Cambridge University Press. pp. 709–54. ISBN 9781107641655. https://www.ipcc.ch/report/ar5/wg2/. 
  3. Altizer, S.; Ostfeld, R.S.; Johnson, P.T. et al. (2013). "Climate change and infectious diseases: From evidence to a predictive framework". Science 341 (6145): 514–9. doi:10.1126/science.1239401. PMID 23908230. 
  4. United Nations (2018). "Sustainable Development Goals". Sustainable Development Goals Knowledge Platform. https://sustainabledevelopment.un.org/?menu=1300. 
  5. Lebov, J.; Grieger, K.; Womack, D. et al. (2017). "A framework for One Health research". One Health 3: 44–50. doi:10.1016/j.onehlt.2017.03.004. 
  6. Laaidi, K.; Zeghnoun, A.; Dousset, B. et al. (2012). "The impact of heat islands on mortality in Paris during the August 2003 heat wave". Environmental Health Perspectives 120 (2): 254–9. doi:10.1289/ehp.1103532. PMC PMC3279432. PMID 21885383. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3279432. 
  7. Igarashi, T.; Kuze, A.; Sobue, S. et al. (2012). "Japan's efforts to promote global health using satellite remote sensing data from the Japan Aerospace Exploration Agency for prediction of infectious diseases and air quality". Geospatial Health 8 (3): S603–10. doi:10.4081/gh.2014.299. PMID 25599641. 
  8. Gebreslasie, M.T. (2015). "A review of spatial technologies with applications for malaria transmission modelling and control in Africa". Geospatial Health 10 (2): 328. doi:10.4081/gh.2015.328. PMID 26618308. 
  9. Takane, M.; Yabe, S.; Tateshita, Y. et al. (2016). "Satellite imagery technology in public health: analysis of site catchment areas for assessment of poliovirus circulation in Nigeria and Niger". Geospatial Health 11 (3): 462. doi:10.4081/gh.2016.462. PMID 27903060. 
  10. Hasan, M.A.; Mouw, C.; Jutla, A. et al. (2018). "Quantification of Rotavirus Diarrheal Risk Due to Hydroclimatic Extremes Over South Asia: Prospects of Satellite‐Based Observations in Detecting Outbreaks". GeoHealth 2 (2): 70–86. doi:10.1002/2017GH000101. 
  11. 11.0 11.1 Wan, Z. (2014). "New refinements and validation of the collection-6 MODIS land-surface temperature/emissivity product". Remote Sensing of Environment 140 (1): 36–45. doi:10.1016/j.rse.2013.08.027. 
  12. de Oliveira, G.; Brunsell, N.A.; Moraes, E.C. et al. (2016). "Use of MODIS Sensor Images Combined with Reanalysis Products to Retrieve Net Radiation in Amazonia". Sensors 16 (7): E956. doi:10.3390/s16070956. PMC PMC4970010. PMID 27347957. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4970010. 
  13. Colston, J.M.; Ahmed, T.; Mahopo, C. et al. (2018). "Evaluating meteorological data from weather stations, and from satellites and global models for a multi-site epidemiological study". Environmental Research 165: 91–109. doi:10.1016/j.envres.2018.02.027. PMC PMC6024078. PMID 29684739. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6024078. 
  14. Li, H.; Sun, D.; Yu, Y. et al. (2014). "Evaluation of the VIIRS and MODIS LST products in an arid area of Northwest China". Remote Sensing of Environment 142 (2): 111–21. doi:10.1016/j.rse.2013.11.014. 
  15. Sakai, T.; Iizumi, T.; Okada, M. et al. (2015). "Varying applicability of four different satellite-derived soil moisture products to global gridded crop model evaluation". International Journal of Applied Earth Observation and Geoinformation 48 (6): 51–60. doi:10.1016/j.jag.2015.09.011. 
  16. Ceglar, A.; Toreti, A. (2017). "Precipitation over Monsoon Asia: A Comparison of Reanalyses and Observations". Journal of Climate 30 (1): 465–76. doi:10.1175/JCLI-D-16-0227.1. 
  17. Japan Aerospace Exploration Agency (21 September 2018). "Jaxa’s Public-health Monitor and Analysis Platform". http://www.jpmap-jaxa.jp/index_en.html. 
  18. Japan Aerospace Exploration Agency (2013). "Jaxa Satellite Monitoring for Environmental Studies (JASMES)". https://www.eorc.jaxa.jp/JASMES/index_map.html. 
  19. Japan Aerospace Exploration Agency (2017). "Global Change Observation Mission-Climate (GCOM-C)". https://suzaku.eorc.jaxa.jp/GCOM_C/index.html. 
  20. Okamura, Y.; Hashiguch, T.; Urabe, T. et al. (2018). "Pre-Launch Characterisation and In-Orbit Calibration of GCOM-C/SGLI". Proceedings from the 2018 IEEE International Geoscience and Remote Sensing Symposium: 6651-6654. doi:10.1109/IGARSS.2018.8519151. 
  21. Frouin, R.; Murakami, H. (2007). "Estimating photosynthetically available radiation at the ocean surface from ADEOS-II global imager data". Journal of Oceanography 63 (3): 493–503. doi:10.1007/s10872-007-0044-3. 
  22. Saigusa, N.; Ichii, K.; Murakami, H. et al. (2010). "Impact of meteorological anomalies in the 2003 summer on Gross Primary Productivity in East Asia". Biogeosciences 7 (2): 641–55. doi:10.5194/bg-7-641-2010. 
  23. Tucker, C.J. (1979). "Red and photographic infrared linear combinations for monitoring vegetation". Remote Sensing of Environment 8 (2): 127–50. doi:10.1016/0034-4257(79)90013-0. 
  24. Fukuda, S.; Nakajima, T.; Takenaka, H. et al. (2013). "New approaches to removing cloud shadows and evaluating the 380 nm surface reflectance for improved aerosol optical thickness retrievals from the GOSAT/TANSO‐Cloud and Aerosol Imager". JGR Atmospheres 118 (24): 13,520-13,531. doi:10.1002/2013JD020090. 
  25. Fujii, H.; Koike, T.; Imaoka, K. (2009). "Improvement of the AMSR-E Algorithm for Soil Moisture Estimation by Introducing a Fractional Vegetation Coverage Dataset Derived from MODIS Data". Journal of The Remote Sensing Society of Japan 29 (1): 282–92. doi:10.11440/rssj.29.282. 
  26. Japan Aerospace Exploration Agency (2007). "Global Satellite Mapping of Precipitation (GSMaP)". https://sharaku.eorc.jaxa.jp/GSMaP/index.htm. 
  27. Kubota, T.; Shige, S.; Hashizume, H. et al. (2007). "Global Precipitation Map Using Satellite-Borne Microwave Radiometers by the GSMaP Project: Production and Validation". IEEE Transactions on Geoscience and Remote Sensing 45 (7): 2259–75. doi:10.1109/TGRS.2007.895337. 
  28. Japan Aerospace Exploration Agency (2015). "Advanced Land Observing Satellite World 3D-30 m (ALOS AW3D30)". https://www.eorc.jaxa.jp/ALOS/en/aw3d30/index.htm. 
  29. Tadono, T.; Ishida, H.; Oda, F. et al. (2014). "Precise Global DEM Generation by ALOS PRISM". ISPRS Annals of the Photogrammetry, Remote Sensing and Spatial Information Sciences II-4: 71–6. doi:10.5194/isprsannals-II-4-71-2014. 
  30. Global Administrative Areas team (2018). "GADM maps and data (version 3.6)". https://gadm.org/. 
  31. Bontemps, S.; Defourny, P.; Van Bogaert, E. et al. (18 February 2011). "GLOBCOVER 2009: Products Description and Validation Report" (PDF). UCL & ESA. https://epic.awi.de/id/eprint/31014/16/GLOBCOVER2009_Validation_Report_2-2.pdf. 

Notes

This presentation is faithful to the original, with only a few minor changes to presentation, grammar, and punctuation. In some cases important information was missing from the references, and that information was added. Inline URLs were web-based repositories of data were turned into external wiki links.