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Although satellite-based sea surface temperature (SST) is advantageous for monitoring large areas, spatiotemporal data gaps frequently occur due to various environmental or mechanical causes. Thus, it is crucial to fill in the gaps to maximize its usability. In this study, daily SST composite fields with a resolution of 4 km were produced through a two-step machine learning approach using polar-orbiting and geostationary satellite SST data. The first step was SST reconstruction based on Data Interpolate Convolutional AutoEncoder (DINCAE) using multi-satellite-derived SST data. The second step improved the reconstructed SST targeting in situ measurements based on light gradient boosting machine (LGBM) to finally produce daily SST composite fields. The DINCAE model was validated using random masks for 50 days, whereas the LGBM model was evaluated using leave-one-year-out cross-validation (LOYOCV). The SST reconstruction accuracy was high, resulting in R2 of 0.98, and a root-mean-square-error (RMSE) of 0.97???. The accuracy increase by the second step was also high when compared to in situ measurements, resulting in an RMSE decrease of 0.21-0.29??? and an MAE decrease of 0.17-0.24???. The SST composite fields generated using all in situ data in this study were comparable with the existing data assimilated SST composite fields. In addition, the LGBM model in the second step greatly reduced the overfitting, which was reported as a limitation in the previous study that used random forest. The spatial distribution of the corrected SST was similar to those of existing high resolution SST composite fields, revealing that spatial details of oceanic phenomena such as fronts, eddies and SST gradients were well simulated. This research demonstrated the potential to produce high resolution seamless SST composite fields using multi-satellite data and artificial intelligence

Improved retrievals of aerosol optical depth and fine mode fraction from GOCI geostationary satellite data using machine learning over East Asia

Aerosol Optical Depth (AOD) and Fine Mode Fraction (FMF) are important information for air quality research. Both are mainly obtained from satellite data based on a radiative transfer model, which requires heavy computation and has uncertainties. We proposed machine learning-based models to estimate AOD and FMF directly from Geostationary Ocean Color Imager (GOCI) reflectances over East Asia. Hourly AOD and FMF were estimated for 00-07 UTC at a spatial resolution of 6 km using the GOCI reflectances, their channel differences (with 30-day minimum reflectance), solar and satellite viewing geometry, meteorological data, geographical information, and the Day Of the Year (DOY) as input features. Light Gradient Boosting Machine (LightGBM) and Random Forest (RF) machine learning approaches were applied and evaluated using random, spatial, and temporal 10-fold cross-validation with ground-based observation data. LightGBM (R-2 = 0.89-0.93 and RMSE = 0.071-0.091 for AOD and R-2 = 0.67-0.81 and RMSE = 0.079-0.105 for FMF) and RF (R-2 = 0.88-0.92 and RMSE = 0.080-0.095 for AOD and R-2 = 0.59-0.76 and RMSE = 0.092-0.118 for FMF) agreed well with the in-situ data. The machine learning models showed much smaller errors when compared to GOCI-based Yonsei aerosol retrieval and the Moderate Resolution Imaging Spectroradiometer Dark Target and Deep Blue algorithms. The Shapley Additive exPlanations values (SHAP)-based feature importance result revealed that the 412 nm band (i. e., ch01) contributed most in both AOD and FMF retrievals. Relative humidity and air temperature were also identified as important factors especially for FMF, which suggests that considering meteorological conditions helps improve AOD and FMF estimation. Besides, spatial distribution of AOD and FMF showed that using the channel difference features to indirectly consider surface reflectance was very helpful for AOD retrieval on bright surfaces

Improving Local Climate Zone Classification Using Incomplete Building Data and Sentinel 2 Images Based on Convolutional Neural Networks

Recent studies have enhanced the mapping performance of the local climate zone (LCZ), a standard framework for evaluating urban form and function for urban heat island research, through remote sensing (RS) images and deep learning classifiers such as convolutional neural networks (CNNs). The accuracy in the urban-type LCZ (LCZ1-10), however, remains relatively low because RS data cannot provide vertical or horizontal building components in detail. Geographic information system (GIS)-based building datasets can be used as primary sources in LCZ classification, but there is a limit to using them as input data for CNN due to their incompleteness. This study proposes novel methods to classify LCZ using Sentinel 2 images and incomplete building data based on a CNN classifier. We designed three schemes (S1, S2, and a scheme fusion; SF) for mapping 50 m LCZs in two megacities: Berlin and Seoul. S1 used only RS images, and S2 used RS and building components such as area and height (or the number of stories). SF combined two schemes (S1 and S2) based on three conditions, mainly focusing on the confidence level of the CNN classifier. When compared to S1, the overall accuracies for all LCZ classes (OA) and the urban-type LCZ (OA(urb)) of SF increased by about 4% and 7-9%, respectively, for the two study areas. This study shows that SF can compensate for the imperfections in the building data, which causes misclassifications in S2. The suggested approach can be excellent guidance to produce a high accuracy LCZ map for cities where building databases can be obtained, even if they are incomplete

Estimation of All-Weather 1 km MODIS Land Surface Temperature for Humid Summer Days

Land surface temperature (LST) is used as a critical indicator for various environmental issues because it links land surface fluxes with the surface atmosphere. Moderate-resolution imaging spectroradiometers (MODIS) 1 km LSTs have been widely utilized but have the serious limitation of not being provided under cloudy weather conditions. In this study, we propose two schemes to estimate all-weather 1 km Aqua MODIS daytime (1:30 p.m.) and nighttime (1:30 a.m.) LSTs in South Korea for humid summer days. Scheme 1 (S1) is a two-step approach that first estimates 10 km LSTs and then conducts the spatial downscaling of LSTs from 10 km to 1 km. Scheme 2 (S2), a one-step algorithm, directly estimates the 1 km all-weather LSTs. Eight advanced microwave scanning radiometer 2 (AMSR2) brightness temperatures, three MODIS-based annual cycle parameters, and six auxiliary variables were used for the LST estimation based on random forest machine learning. To confirm the effectiveness of each scheme, we have performed different validation experiments using clear-sky MODIS LSTs. Moreover, we have validated all-weather LSTs using bias-corrected LSTs from 10 in situ stations. In clear-sky daytime, the performance of S2 was better than S1. However, in cloudy sky daytime, S1 simulated low LSTs better than S2, with an average root mean squared error (RMSE) of 2.6 degrees C compared to an average RMSE of 3.8 degrees C over 10 stations. At nighttime, S1 and S2 demonstrated no significant difference in performance both under clear and cloudy sky conditions. When the two schemes were combined, the proposed all-weather LSTs resulted in an average R-2 of 0.82 and 0.74 and with RMSE of 2.5 degrees C and 1.4 degrees C for daytime and nighttime, respectively, compared to the in situ data. This paper demonstrates the ability of the two different schemes to produce all-weather dynamic LSTs. The strategy proposed in this study can improve the applicability of LSTs in a variety of research and practical fields, particularly for areas that are very frequently covered with clouds

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As part of the next-generation Compact Advanced Satellite 500 (CAS500) project, CAS500-4 is scheduled to be launched in 2025 focusing on the remote sensing of agriculture and forestry. To obtain quantitative information on vegetation from satellite images, it is necessary to acquire surface reflectance through atmospheric correction. Thus, it is essential to develop an atmospheric correction method suitable for CAS500-4. Since the absorption and scattering characteristics in the atmosphere vary depending on the wavelength, it is needed to analyze the sensitivity of atmospheric correction parameters such as aerosol optical depth (AOD) and water vapor (WV) considering the wavelengths of CAS500-4. In addition, as CAS500-4 has only five channels (blue, green, red, red edge, and near-infrared), making it difficult to directly calculate key parameters for atmospheric correction, external parameter data should be used. Therefore, this study performed a sensitivity analysis of the key parameters (AOD, WV, and O3) using the simulated images based on Sentinel-2 satellite data, which has similar wavelength specifications to CAS500-4, and examined the possibility of using the products of GEOKOMPSAT-2A (GK2A) as atmospheric parameters. The sensitivity analysis showed that AOD was the most important parameter with greater sensitivity in visible channels than in the near-infrared region. In particular, since AOD change of 20% causes about a 100% error rate in the blue channel surface reflectance in forests, a highly reliable AOD is needed to obtain accurate surface reflectance. The atmospherically corrected surface reflectance based on the GK2A AOD and WV was compared with the Sentinel-2 L2A reflectance data through the separability index of the known land cover pixels. The result showed that two corrected surface reflectance had similar Seperability index (SI) values, the atmospheric corrected surface reflectance based on the GK2A AOD showed higher SI than the Sentinel-2 L2A reflectance data in short-wavelength channels. Thus, it is judged that the parameters provided by GK2A can be fully utilized for atmospheric correction of the CAS500-4. The research findings will provide a basis for atmospheric correction of the CAS500-4 in the future. ?? This is an Open-Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited

Comparative genomics of Mycoplasma pneumoniae isolated from children with pneumonia: South Korea, 2010–2016

Background Mycoplasma pneumoniae is a common cause of respiratory tract infections in children and adults. This study applied high-throughput whole genome sequencing (WGS) technologies to analyze the genomes of 30 M. pneumoniae strains isolated from children with pneumonia in South Korea during the two epidemics from 2010 to 2016 in comparison with a global collection of 48 M. pneumoniae strains which includes seven countries ranging from 1944 to 2017. Results The 30 Korean strains had approximately 40% GC content and ranged from 815,686 to 818,669 base pairs, coding for a total of 809 to 828 genes. Overall, BRIG revealed 99% to > 99% similarity among strains. The genomic similarity dropped to approximately 95% in the P1 type 2 strains when aligned to the reference M129 genome, which corresponded to the region of the p1 gene. MAUVE detected four subtype-specific insertions (three in P1 type 1 and one in P1 type 2), of which were all hypothetical proteins except one tRNA insertion in all P1 type 1 strains. The phylogenetic associations of 30 strains were generally consistent with the multilocus sequence typing results. The phylogenetic tree constructed with 78 genomes including 30 genomes from Korea formed two clusters and further divided into two sub-clusters. eBURST analysis revealed two clonal complexes according to P1 typing results showing higher diversity among P1 type 2 strains. Conclusions The comparative whole genome approach was able to define high genetic identity, unique structural diversity, and phylogenetic associations among the 78 M. pneumoniae strains isolated worldwide.This research was supported by the 2017 Seoul National University Hospital Research Fund (0320170230) and the Basic Science Research Program through the National Research Foundation of Korea, which is funded by the Ministry of Education, Science and Technology (NRF2018R1D1A1A09082098). The funding bodies played no role in the design of the study and collection, analysis, and interpretation of data and in writing the manuscript. The study sponsors provided research grants to perform the study which was written by Dr. EH Choi

Predictive biomarkers for 5-fluorouracil and oxaliplatin-based chemotherapy in gastric cancers via profiling of patient-derived xenografts.

Gastric cancer (GC) is commonly treated by chemotherapy using 5-fluorouracil (5-FU) derivatives and platinum combination, but predictive biomarker remains lacking. We develop patient-derived xenografts (PDXs) from 31 GC patients and treat with a combination of 5-FU and oxaliplatin, to determine biomarkers associated with responsiveness. When the PDXs are defined as either responders or non-responders according to tumor volume change after treatment, the responsiveness of PDXs is significantly consistent with the respective clinical outcomes of the patients. An integrative genomic and transcriptomic analysis of PDXs reveals that pathways associated with cell-to-cell and cell-to-extracellular matrix interactions enriched among the non-responders in both cancer cells and the tumor microenvironment (TME). We develop a 30-gene prediction model to determine the responsiveness to 5-FU and oxaliplatin-based chemotherapy and confirm the significant poor survival outcomes among cases classified as non-responder-like in three independent GC cohorts. Our study may inform clinical decision-making when designing treatment strategies

Disease-specific induced pluripotent stem cells: a platform for human disease modeling and drug discovery

The generation of disease-specific induced pluripotent stem cell (iPSC) lines from patients with incurable diseases is a promising approach for studying disease mechanisms and drug screening. Such innovation enables to obtain autologous cell sources in regenerative medicine. Herein, we report the generation and characterization of iPSCs from fibroblasts of patients with sporadic or familial diseases, including Parkinson's disease (PD), Alzheimer's disease (AD), juvenile-onset, type I diabetes mellitus (JDM), and Duchenne type muscular dystrophy (DMD), as well as from normal human fibroblasts (WT). As an example to modeling disease using disease-specific iPSCs, we also discuss the previously established childhood cerebral adrenoleukodystrophy (CCALD)- and adrenomyeloneuropathy (AMN)-iPSCs by our group. Through DNA fingerprinting analysis, the origins of generated disease-specific iPSC lines were identified. Each iPSC line exhibited an intense alkaline phosphatase activity, expression of pluripotent markers, and the potential to differentiate into all three embryonic germ layers: the ectoderm, endoderm, and mesoderm. Expression of endogenous pluripotent markers and downregulation of retrovirus-delivered transgenes [OCT4 (POU5F1), SOX2, KLF4, and c-MYC] were observed in the generated iPSCs. Collectively, our results demonstrated that disease-specific iPSC lines characteristically resembled hESC lines. Furthermore, we were able to differentiate PD-iPSCs, one of the disease-specific-iPSC lines we generated, into dopaminergic (DA) neurons, the cell type mostly affected by PD. These PD-specific DA neurons along with other examples of cell models derived from disease-specific iPSCs would provide a powerful platform for examining the pathophysiology of relevant diseases at the cellular and molecular levels and for developing new drugs and therapeutic regimens

Identifying Ni-complexed natural organic matters in a relatively stagnant river water

Pretreatment protocols, using preparative liquid chromatography (prep-LC), and high resolution mass spectrometer methods, were developed to identify potential Ni-natural organic matter (NOM) complexation, for a relatively stagnant river water sample. The former and the latter were performed, using a large separation column, packed with C18 and size exclusion resin media, and ion trap-time of flight (IT-TOF) mass spectrometer, respectively. The NOM samples were effectively fractionated into four different peaks, with helps of both RI and UV detections, and further subjected to mass analyses using the IT-TOF, which provided distinct m/z peaks pairs in mass spectra, with m/z peaks difference of ca. 58, as evidence of Ni-complexed NOMclose0