Background: Japanese encephalitis (JE) is presumed to be endemic throughout Asia, yet only a few cases have been reported in tropical Asian countries such as Indonesia, Malaysia and the Philippines. To estimate the true disease burden due to JE in this region, we conducted a prospective, hospital-based surveillance with a catchment population of 599,120 children less than 12 years of age in Bali, Indonesia, from July 2001 through December 2003.

Background The growing epidemics of severe fever with thrombocytopenia syndrome (SFTS), an emerging tick-borne disease in East Asia, and its high case fatality rate have raised serious public health concerns. Methods Surveillance data on laboratory-confirmed SFTS cases in China were collected. The spatiotemporal dynamics and epidemiological features were explored. The socioeconomic and environmental drivers were identified for SFTS diffusion using survival analysis and for SFTS persistence using a two-stage generalized boosted regression tree model. Results During 2010‒2018, a total of 7,721 laboratory-confirmed SFTS cases were reported in China, with an overall CFR of 10.5%. The average annual incidence increased >20 times and endemic areas expanded from 27 to 1,574 townships, whereas the CFR declined from 19% to 10% during this period. Four geographical clusters, the Changbai Mountain area, the Jiaodong Peninsula, the Taishan Mountain area and the Huaiyangshan Mountain area, were identified. Diffusion and persistence of the disease were both driven by elevation, high coverages of woods, crops and shrub, and the vicinity of habitats of migratory birds, but had different meteorological drivers. Residents ≥60 years old in rural areas with crop fields and tea farms were at increased risk to SFTS. Conclusions Surveillance of SFTS and intervention programs need to be targeted at areas with ecologically suitability for vector ticks and in the vicinity of migratory birds to curb the growing epidemic.

Purpose: Limb Girdle Muscular Dystrophies (LGMD) are a genetically heterogeneous category of autosomal inherited muscle diseases. Many genes causing LGMD have been identified, and clinical trials are beginning for treatment of some genetic subtypes. However, even with the gene-level mechanisms known, it is still difficult to get a reliable and generalizable prevalence estimation for each subtype due to the limited amount of epidemiology data and the low incidence of LGMDs. Methods: Taking advantage of recently published whole exome and genome sequencing data from the general population, we used a Bayesian method to develop a reliable disease prevalence estimator. Results: This method was applied to nine recessive LGMD subtypes. The estimated disease prevalence calculated by this method were largely comparable to published estimates from epidemiological studies, however highlighted instances of possible under-diagnosis for LGMD2B and 2L. Conclusion: The increasing size of aggregated population variant databases will allow for robust and reproducible prevalence estimates of recessive disease, which is critical for the strategic design and prioritization of clinical trials..

Yunnan, Guangxi and Henan are the provinces with the most severe HIV epidemic in China, which were also among the first group of areas providing free ART in 2004. However, little comprehensive data are available on prevalence of HIV subtype and baseline drug resistance in drug-naïve populations. In this study, 1746 treatment-naïve HIV-positive individuals were randomly selected from new-reported cases in Henan, Guangxi and Yunnan. Among of them, subtypes and drug resistance of 1159 strains were determined by amplifying and sequencing full-length pol genes. Significantly different distributions of HIV subtypes prevalent in three provinces were identified (P<0.01). CRF08_BC was found dominant in Yunnan (59.8%), while CRF01_AE was dominant in Guangxi (77.3%) and subtype B was dominant in Henan province (93.9%). The total prevalence of drug resistance was 7.1%. The highest prevalence of HIV drug resistance was found in Henan (12.2%), followed by Yunnan (5.6%) and Guangxi (3.3%). The results of this study suggest that genetic drug-resistance should be tested before initiation of ART in China, especially in Henan province. Furthermore, the prevalence of HIV drug resistant strains should be considered separately in different areas in China before the change of different free ART regimens.

Local genetic correlation quantifies the genetic similarity of complex traits in specific genomic regions, which could shed unique light on etiologic sharing and provide additional mechanistic insights into the genetic basis of complex traits compared to global genetic correlation. However, accurate estimation of local genetic correlation remains challenging, in part due to extensive linkage disequilibrium in local genomic regions and pervasive sample overlap across studies. We introduce SUPERGNOVA, a unified framework to estimate both global and local genetic correlations using summary statistics from genome-wide association studies. Through extensive simulations and analyses of 30 complex traits, we demonstrate that SUPERGNOVA substantially outperforms existing methods and identifies 150 trait pairs with significant local genetic correlations. In particular, we show that the positive, consistently-identified, yet paradoxical genetic correlation between autism spectrum disorder and cognitive performance could be explained by two etiologically-distinct genetic signatures with bidirectional local genetic correlations. We believe that statistically-rigorous local genetic correlation analysis could accelerate progress in complex trait genetics research.