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Articles by Junchen Yang
A spatial multi-omics atlas of immunosenescence reveals germinal-center B cell alteration in human lymph nodes
To investigate senescence-associated and age-related changes in human LNs, we analyzed whole LN resections or needle biopsy tissue blocks from 65 donors (41 males and 24 females; 108 total samples) obtained through the Yale Pathology Tissue Service. LN tissue samples were stratified into three age groups: group 1 (<50 years, n = 26), group 2 (50–69 years, n = 15), and group 3 (≥70 years, n = 10), with median ages of 32, 56, and 75 years, respectively (Figures 1 and S1; Table S1).
Multi-omic Characterization of HIV Effects at Single Cell Level across Human Brain Regions
Abstract HIV infection exerts profound and long–lasting neurodegenerative effects on the central nervous system (CNS) that can persist despite antiretroviral therapy (ART). Here, we used single–nucleus multiome sequencing to map the transcriptomic and epigenetic landscapes of postmortem human brains from 13 healthy individuals and 20 individuals with HIV who have a history of treatment with ART.
Principled PCA separates signal from noise in omics count data
Abstract Principal component analysis (PCA) is indispensable for processing high-throughput omics datasets, as it can extract meaningful biological variability while minimizing the influence of noise. However, the suitability of PCA is contingent on appropriate normalization and transformation of count data, and accurate selection of the number of principal components; improper choices can result in the loss of biological information or corruption of the signal due to excessive noise.
A 3D Interferometer-Type Lightning Mapping Array for Observation of Winter Lightning in Japan
Open AccessArticle by Junchen Yang 1, Daohong Wang 1,*, Haitao Huang 1, Ting Wu 1, Nobuyuki Takagi 1 and Kazuo Yamamoto 2 1 Department of Electrical, Electronic and Computer Engineering, Gifu University, Gifu 501-1193, Japan 2 Department of Electrical Engineering, Chubu University, Kasugai 487-0027, Japan * Author to whom correspondence should be addressed. Remote Sens.
Multiple Local Domain Structural Evolutions at Morphotropic Phase Boundary in BiFeO3-Ba0.9Ca0.1TiO3 Ferroelectric Ceramics
Abstract Bismuth ferrite–barium titanate (BFO–BT) is a well-known lead-free ferroelectric material with a large electric field-induced strain; however, its piezoelectricity is very low under low electric fields.
Comprehensive visualization of cell-cell interactions in single-cell and spatial transcriptomics with NICHES
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Comprehensive visualization of cell-cell interactions in single-cell and spatial transcriptomics with NICHES
Abstract Recent years have seen the release of several toolsets that reveal cell-cell interactions from single-cell data. However, all existing approaches leverage mean celltype gene expression values, and do not preserve the single-cell fidelity of the original data. Here, we present NICHES (Niche Interactions and Communication Heterogeneity in Extracellular Signaling), a tool to explore extracellular signaling at the truly single-cell level.
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