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Abstract Background Applying directed acyclic graph (DAG) models to proteogenomic data has been shown effective for detecting causal biomarkers of complex diseases. However, there remain unsolved challenges in DAG learning to jointly model binary clinical outcome variables and continuous biomarker measurements. Results In this paper, we propose a new tool, DAGBagM, to learn DAGs with both continuous and binary nodes. By using appropriate models, DAGBagM allows for either continuous or binary nodes to be parent or child nodes. It employs a bootstrap aggregating strategy to reduce false positives in edge inference. At the same time, the aggregation procedure provides a flexible framework to robustly incorporate prior information on edges. Conclusions Through extensive simulation experiments, we demonstrate that DAGBagM has superior performance compared to alternative strategies for modeling mixed types of nodes. In addition, DAGBagM is computationally more efficient than two competing methods. When applying DAGBagM to proteogenomic datasets from ovarian cancer studies, we identify potential protein biomarkers for platinum refractory/resistant response in ovarian cancer. DAGBagM is made available as a github repository at https://github.com/jie108/dagbagM . 

The layout of public service facilities and their accessibility are important factors affecting spatial justice. Previous studies have verified the positive influence of public facilities accessibility on house prices; however, the spatial scale of the impact of various public facilities accessibility on house prices is not yet clear. This study takes transportation analysis zone of Wuhan city as the spatial unit, measure the public facilities accessibility of schools, hospitals, green space, and public transit stations with four kinds of accessibility models such as the nearest distance, real time travel cost, kernel density, and two step floating catchment area (2SFCA), and explores the multiscale effect of public services accessibility on house prices with multiscale geographically weighted regression model. The results show that the differentiated scale effect not only exists among different public facility accessibilities, but also exists in different accessibility models of the same sort of facility. The article also suggests that different facilities should adopt its appropriate accessibility model. This study provides insights into spatial heterogeneity of urban public service facilities accessibility, which will benefit decision making in equal accessibility planning and policy formulation for the layout of urban service facilities. 

Understanding the space-time dynamics of human activities is essential in studying human security issues such as climate change impacts, pandemic spreading, or urban sustainability. Geotagged social media posts provide an open and space-time continuous data source with user locations which is convenient for studying human movement. However, the reliability of Chinese geotagged social media data for representing human mobility remains unclear. This study compares human movement data derived from the posts of Sina Weibo, one of the largest social media software in China, and that of Baidu Qianxi, a high-resolution human movement dataset from ‘Baidu Map’, a popular location-based service in China with 1.3 billion users. Correlation analysis was conducted from multiple dimensions of time periods (weekly and monthly), geographic scales (cities and provinces), and flow directions (inflow and outflow), and a case study on COVID-19 transmission was further explored with such data. The result shows that Sina Weibo data can reveal similar patterns as that of Baidu Qianxi, and that the correlation is higher at the provincial level than at the city level and higher at the monthly scale than at the weekly scale. The study also revealed spatial variations in the degree of similarity between the two sources. Findings from this study reveal the values and properties and spatiotemporal heterogeneity of human mobility data extracted from Weibo tweets, providing a reference for the proper use of social media posts as the data sources for human mobility studies. 

ABSTRACT Considering the spatially separated polarization radiation and Faraday rotation regions to simulate complex interstellar media, we study synchrotron polarization gradient techniques’ measurement capabilities. We explore how to trace the direction of projected magnetic field of emitting-source region at the multifrequency bands, using the gradient technique compared with the traditional polarization vector method. Furthermore, we study how Faraday rotation density in the foreground region, i.e. a product of electron number density and parallel component of magnetic fields along the line of sight, affects the measurement of projected magnetic field. Numerical results show that synchrotron polarization gradient technique could successfully trace projected magnetic field within emitting-source region independent of radio frequency. Accordingly, the gradient technique can measure the magnetic field properties for a complex astrophysical environment. 

Methods for highly multiplexed RNA imaging are limited in spatial resolution and thus in their ability to localize transcripts to nanoscale and subcellular compartments. We adapt expansion microscopy, which physically expands biological specimens, for long-read untargeted and targeted in situ RNA sequencing. We applied untargeted expansion sequencing (ExSeq) to the mouse brain, which yielded the readout of thousands of genes, including splice variants. Targeted ExSeq yielded nanoscale-resolution maps of RNAs throughout dendrites and spines in the neurons of the mouse hippocampus, revealing patterns across multiple cell types, layer-specific cell types across the mouse visual cortex, and the organization and position-dependent states of tumor and immune cells in a human metastatic breast cancer biopsy. Thus, ExSeq enables highly multiplexed mapping of RNAs from nanoscale to system scale.