WashU Epigenome Browser update 2022

WashU Epigenome Browser (https://epigenomegateway.wustl.edu/browser/) is a web-based genomic data exploration tool that provides visualization, integration, and analysis of epigenomic datasets. The newly renovated user interface and functions have enabled researchers to engage with the browser and genomic data more efficiently and effectively since 2018. Here, we introduce a new integrated panel design in the browser that allows users to interact with 1D (genomic features), 2D (such as Hi-C), 3D (genome structure), and 4D (time series) data in a single web page. The browser can display three-dimensional chromatin structures with the 3D viewer module. The 4D tracks, called \u27Dynamic\u27 tracks, animatedly display time-series data, allowing for a more striking visual impact to identify the gene or genomic region candidates as a function of time. Genomic data, such as annotation features, numerical values, and chromatin interaction data can all be viewed in the dynamic track mode. Imaging data from microscopy experiments can also be displayed in the browser. In addition to software development, we continue to service and expand the data hubs we host for large consortia including 4DN, Roadmap Epigenomics, TaRGET and ENCODE, among others. Our growing user/developer community developed additional track types as plugins, such as qBed and dynseq tracks, which extend the utility of the browser. The browser serves as a foundation for additional genomics platforms including the WashU Virus Genome Browser (for COVID-19 research) and the Comparative Genome Browser. The WashU Epigenome Browser can also be accessed freely through Amazon Web Services at https://epigenomegateway.org/

Photonic Weyl points due to broken time-reversal symmetry in magnetized semiconductor

Weyl points are discrete locations in the three-dimensional momentum space where two bands cross linearly with each other. They serve as the monopoles of Berry curvature in the momentum space, and their existence requires breaking of either time-reversal or inversion symmetry. Although various non-centrosymmetric Weyl systems have been reported, demonstration of Weyl degeneracies due to breaking of the time-reversal symmetry remains scarce and is limited to electronic systems. Here, we report the experimental observation of photonic Weyl degeneracies in a magnetized semiconductor—InSb, which behaves as a magnetized plasma19 for electromagnetic waves at the terahertz band. By varying the magnetic field strength, Weyl points and the corresponding photonic Fermi arcs have been demonstrated. Our observation establishes magnetized semiconductors as a reconfigurable terahertz Weyl system, which may prompt research on novel magnetic topological phenomena such as chiral Majorana-type edge states and zero modes in classic systems

Chinese Milk Vetch as Green Manure Mitigates Nitrous Oxide Emission from Monocropped Rice System in South China.

Monocropped rice system is an important intensive cropping system for food security in China. Green manure (GM) as an alternative to fertilizer N (FN) is useful for improving soil quality. However, few studies have examined the effect of Chinese milk vetch (CMV) as GM on nitrous oxide (N2O) emission from monocropped rice field in south China. Therefore, a pot-culture experiment with four treatments (control, no FN and CMV; CMV as GM alone, M; fertilizer N alone, FN; integrating fertilizer N with CMV, NM) was performed to investigate the effect of incorporating CMV as GM on N2O emission using a closed chamber-gas chromatography (GC) technique during the rice growing periods. Under the same N rate, incorporating CMV as GM (the treatments of M and NM) mitigated N2O emission during the growing periods of rice plant, reduced the NO3- content and activities of nitrate and nitrite reductase as well as the population of nitrifying bacteria in top soil at maturity stage of rice plant versus FN pots. The global warming potential (GWP) and greenhouse gas intensity (GHGI) of N2O from monocropped rice field was ranked as M<NM<FN. However, the treatment of NM increased rice grain yield and soil NH4+ content, which were dramatically decreased in the M pots, over the treatment of FN. Hence, it can be concluded that integrating FN with CMV as GM is a feasible tactic for food security and N2O mitigation in the monocropped rice based system