SEAD reference panel with 22,134 haplotypes boosts rare variant imputation and genome-wide association analysis in Asian populations by Meng-Yuan Yang, Jia-Dong Zhong, Xin Li, Geng Tian, Wei-Yang Bai, Yi-Hu Fang, Mo-Chang Qiu, Cheng-Da Yuan, Chun-Fu Yu, Nan Li, Ji-Jian Yang, Yu-Heng Liu, Shi-Hui Yu, Wei-Wei Zhao, Jun-Quan Liu, Yi Sun, Pei-Kuan Cong, Saber Khederzadeh, Pian-Pian Zhao, Yu Qian, Peng-Lin Guan, Jia-Xuan Gu, Si-Rui Gai, Xiang-Jiao Yi, Jian-Guo Tao, Xiang Chen, Mao-Mao Miao, Lan-Xin Lei, Lin Xu, Shu-Yang Xie, Jin-Chen Li, Ji-Feng Guo, David Karasik, Liu Yang, Bei-Sha Tang, Fei Huang, Hou-Feng Zheng

“…Abstract Limited whole genome sequencing (WGS) studies in Asian populations result in a lack of representative reference panels, thus hindering the discovery of ancestry-specific variants. Here, we present the South and East Asian reference Database (SEAD) panel ( https://imputationserver.westlake.edu.cn/ ), which integrates WGS data for 11,067 individuals from various sources across 17 Asian countries. …”
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Peptide P2 targeting Vibrio parahaemolyticus PirB toxins blocks the cytotoxic effects to shrimp Litopenaeus vannamei by Xin Zhang, Ting Chen, Chunhua Ren, Yanhong Wang, Xiao Jiang, Jiasheng Huang, Bo Ma, Boxiang Zhu, Jiayue Yin, Chaoqun Hu, Peng Luo

“…This study aims to screen the PirB binding peptide to rescue the survival rate under VpAHPND infection. Here, the PirB toxin-binding peptides were selected using the random phage peptide library kit, and their biological function was verified by injecting them under VpAHPND challenge. …”
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Histopathologic Progression and Metastatic Relapse Outcomes in Small Cell Neuroendocrine Carcinomas of the Urinary Tract by Mohammad Jad Moussa, Georges C. Tabet, Arlene O. Siefker‐Radtke, Lianchun Xiao, Nathaniel R. Wilson, Jianjun Gao, Christopher J. Logothetis, Petros Grivas, Byron Lee, Amishi Y. Shah, Pavlos Msaouel, Roger Li, Leticia Campos Clemente, Jianping Zhao, Nizar M. Tannir, Ashish M. Kamat, Donna E. Hansel, Charles C. Guo, Matthew T. Campbell, Omar Alhalabi

“…ABSTRACT Introduction Small cell neuroendocrine carcinoma of the urinary tract (SCNEC‐URO) has an inferior prognosis compared to conventional urothelial carcinoma (UC). Here, we evaluate the predictors and patterns of relapse after surgery. …”
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Validation of formaldehyde products from three satellite retrievals (OMI SAO, OMPS-NPP SAO, and OMI BIRA) in the marine atmosphere with four seasons of Atmospheric Tomography Missi... by J. Liao, J. Liao, G. M. Wolfe, A. E. Kotsakis, A. E. Kotsakis, A. E. Kotsakis, J. M. Nicely, J. M. Nicely, J. M. St. Clair, J. M. St. Clair, T. F. Hanisco, G. González Abad, C. R. Nowlan, Z. Ayazpour, Z. Ayazpour, I. De Smedt, E. C. Apel, R. S. Hornbrook

“…Thus, it is important to understand and validate the levels of satellite HCHO over the remote oceans. Here we intercompare three satellite retrievals of total HCHO columns from the Ozone Monitoring Instrument Smithsonian Astrophysical Observatory (OMI SAO (v004)) algorithm, Ozone Mapping and Profiler Suite on Suomi National Polar-orbiting Partnership Smithsonian Astrophysical Observatory (OMPS-NPP SAO) algorithm, and Ozone Monitoring Instrument Belgian Institute for Space Aeronomy (OMI BIRA) algorithm and validate them against in situ observations from the NASA Atmospheric Tomography Mission (ATom) mission. …”
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Deciphering molecular and cellular ex vivo responses to bispecific antibodies PD1-TIM3 and PD1-LAG3 in human tumors by Alfred Zippelius, Petra Herzig, Pratiksha Gulati, Christian Klein, Marta Trüb, Kirsten D Mertz, Robert Rosenberg, Viola Heinzelmann-Schwarz, Mark Wiese, Didier Lardinois, Pablo Umana, Marina Natoli, Klas Hatje, Fabian Junker, Zhiwen Jiang, Iakov I Davydov, Markus Germann, Daniel Marbach, Adrian Zwick, Patrick Weber, Stefan Seeber, Lothar Tietze, Laura Codarri-Deak, Henry Kao

“…Similarly, little is known on the differential effects of dual, compared with single, checkpoint inhibition.Methods We here performed in-depth characterization, including multicolor flow cytometry, single cell RNA sequencing and multiplex supernatant analysis, using tumor single cell suspensions from patients with cancer treated ex vivo with novel bispecific antibodies targeting programmed cell death protein 1 (PD-1) and TIM-3 (PD1-TIM3), PD-1 and LAG-3 (PD1-LAG3), or with anti-PD-1.Results We identified patient samples which were responsive to PD1-TIM3, PD1-LAG3 or anti-PD-1 using an in vitro approach, validated by the analysis of 659 soluble proteins and enrichment for an anti-PD-1 responder signature. …”
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IFNβ drives ferroptosis through elevating TRIM22 and promotes the cytotoxicity of RSL3 by Huiyue Dong, Huiyue Dong, Ling Zhu, Ling Zhu, Jingjing Sun, Jingjing Sun, Qiuyan Chen, Qiuyan Chen, Pengyang Liu, Pengyang Liu, Wei Zhang, Huajing Zeng, Rong Lin, Rong Lin, Zongyang Yu, Zongyang Yu, Jun Lu, Jun Lu, Jun Lu, Jun Lu

“…HT1080 cells, three-dimensional (3D) spheroids, and the xenograft mouse models were treated with IFNβ, RSL3, or IFNβ combination with RSL3 to analyze whether IFNβ enhances RSL3-induced ferroptosis.ResultsHere, we found that IFNβ could promote intracellular Fe2+ and lipid peroxidation levels, and decrease GSH levels in tumor cells. …”
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A Chemically Defined Culture for Tooth Reconstitution by Ziwei Zhang, Hong Hu, Zhiheng Xu, Ce Shan, Hanyi Chen, Kun Xie, Kun Wang, Yifu Wang, Qing Zhu, Yike Yin, Haoyang Cai, Yunqiu Zhang, Zhonghan Li

“…However, the mechanism of tooth reconstitution remains largely unknown due to the lack of an efficient in vitro model. Here, a chemically defined culture system is established that supports tooth reconstitution, further development with normal anatomy, and prompt response to chemical interference in key developmental signaling pathways, termed as toothoids. …”
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The high-resolution global shipping emission inventory by the Shipping Emission Inventory Model (SEIM) by W. Yi, X. Wang, T. He, H. Liu, Z. Luo, Z. Lv, K. He

“…<p>The high-resolution ship emission inventory serves as a crucial dataset for various disciplines including atmospheric science, marine science, and environmental management. Here, we present a global high-spatiotemporal-resolution ship emission inventory at a resolution of 0.1° <span class="inline-formula">×</span> 0.1° for the years 2013 and 2016–2021, generated by the state-of-the-art Shipping Emission Inventory Model (SEIMv2.2). …”
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Targeting and reprogramming microglial phagocytosis of neutrophils by ginsenoside Rg1 nanovesicles promotes stroke recovery by Kaichao Hu, Junrui Ye, Pinglong Fan, Ruifang Zheng, Shasha Wang, Ye Peng, Yuan Ruan, Xu Yan, Zhao Zhang, Shifeng Chu, Naihong Chen

“…Ginsenoside Rg1, derived from Panax ginseng, exhibits neuroprotective properties and regulates cellular metabolism in vitro but its therapeutic application is limited by poor brain penetration. Here, we present a targeted delivery system utilizing neutrophil-like cell membrane vesicles (NCM), prepared via nitrogen cavitation, to enhance Rg1 delivery to the brain. …”
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WALLABY Pilot Survey and ASymba: Comparing H i Detection Asymmetries to the SIMBA Simulation by Mathieu Perron-Cormier, Nathan Deg, Kristine Spekkens, Mark L. A. Richardson, Marcin Glowacki, Kyle A. Oman, Marc A. W. Verheijen, Nadine A. N. Hank, Sarah Blyth, Helga Dénes, Jonghwan Rhee, Ahmed Elagali, Austin Xiaofan Shen, Wasim Raja, Karen Lee-Waddell, Luca Cortese, Barbara Catinella, Tobias Westmeier

“…The statistical power of quantitative comparisons of asymmetries such as the one presented here will improve as the WALLABY survey progresses and as simulation volumes and resolutions increase.…”
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Trigger inducible tertiary lymphoid structure formation using covalent organic frameworks for cancer immunotherapy by Liang Zhang, Boxin Zhang, Meng-Jie Zhang, Wenlang Li, Hao Li, Yantian Jiao, Qi-Chao Yang, Shuo Wang, Yuan-Tong Liu, An Song, Hai-Tao Feng, Jianwei Sun, Ryan T. K. Kwok, Jacky W. Y. Lam, Ben Zhong Tang, Zhi-Jun Sun

“…Thus, the exploration of potential inducers for TLS formation is of great interest but remains challenging. Here, inspired by the mechanism of artificially cultivated pearls, a covalent organic framework (COF) is employed to induce TLS formation. …”
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Genomic insights into population dynamics and adaptive strategies of the endangered dipterocarp, Hopea chinensis by Wei-Min Xiang, Yu-Ting Jiang, Jie Zou, Yan Deng, Kai Jiang, Kai-Jian Zhang, Xin-Yu Zhou, Kai-Xi Quan, Zi-Wen Han, Wei-Chao Liu, Liang Tang, Yuan-Yuan Li, Simon T. Segar, Yuan-Ye Zhang, Xing-Hua Hu, Rong Wang, Xiao-Yong Chen

“…Despite the perceived conservation priority of these species, we know little about how they became endangered and how they have adapted to marginal habitats. Here, we focused on the population genomics of Hopea chinensis, an endangered species narrowly distributed at the northern limit of dipterocarps, to (1) reveal its demographic history and infer factors contributing to endangered status; (2) evaluate the genetic consequences of its small remnant population; and (3) identify key genes associated with its adaptation. …”
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Incorporating climate data with machine learning can improve rice phenology estimation by Yiqing Liu, Weihang Liu, Tao Ye, Shuo Chen, Xuehong Chen, Zitong Li, Ning Zhan, Ran Sun

“…The importance of climate variation in crop phenology has been well acknowledged, but the potential of incorporating climate data to improve phenology estimation remains unclear. Here, we developed a hybrid model by incorporating the growth-specific climate predictors and satellite-derived phenology using random forest approach. …”
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Yerba mate (Ilex paraguariensis) genome provides new insights into convergent evolution of caffeine biosynthesis by Federico A Vignale, Andrea Hernandez Garcia, Carlos P Modenutti, Ezequiel J Sosa, Lucas A Defelipe, Renato Oliveira, Gisele L Nunes, Raúl M Acevedo, German F Burguener, Sebastian M Rossi, Pedro D Zapata, Dardo A Marti, Pedro Sansberro, Guilherme Oliveira, Emily M Catania, Madeline N Smith, Nicole M Dubs, Satish Nair, Todd J Barkman, Adrian G Turjanski

“…Yerba mate (YM, Ilex paraguariensis) is an economically important crop marketed for the elaboration of mate, the third-most widely consumed caffeine-containing infusion worldwide. Here, we report the first genome assembly of this species, which has a total length of 1.06 Gb and contains 53,390 protein-coding genes. …”
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Recruiting Young People for Digital Mental Health Research: Lessons From an AI-Driven Adaptive Trial by Wu Yi Zheng, Artur Shvetcov, Aimy Slade, Zoe Jenkins, Leonard Hoon, Alexis Whitton, Rena Logothetis, Smrithi Ravindra, Stefanus Kurniawan, Sunil Gupta, Kit Huckvale, Eileen Stech, Akash Agarwal, Joost Funke Kupper, Stuart Cameron, Jodie Rosenberg, Nicholas Manoglou, Manisha Senadeera, Svetha Venkatesh, Kon Mouzakis, Rajesh Vasa, Helen Christensen, Jill M Newby

“…Evidence on whether web-based recruitment methods are more effective than traditional methods such as newspapers, media, or flyers is inconsistent. Here we present insights from our experience recruiting tertiary education students for a digital mental health artificial intelligence–driven adaptive trial—Vibe Up. …”
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Differentiation of high risk prostate cancer with a facile urinary exosome detection workflow by Shuai Qiu, Yue Li, Zheng Zhang, Chunchang Li, Haoyu Wang, Ao Chen, Zhi Yan, Yang Liu, Zifei Li, Hua Huang, Yi Liu, Yiqi Seow, Ruibing Chen, Jinhong Guo, Simeng Wen, Jing Tian, Hongtuan Zhang, Ranlu Liu, Gang Han, Baolong Wang, Yong Wang, Yuanjie Niu, HaiFang Yin

“…Summary: Clear differentiation of high-grade and clinically insignificant prostate cancer (PCa) is critical for clinical decision-making. Here, we developed a proprietary urinary exosome isolation approach (EVLatch) and established a facile diagnostic workflow. …”
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NFE2-driven neutrophil polarization promotes pancreatic cancer liver metastasis progression by Wenchao Xu, Jianzhou Liu, Qiaofei Liu, Jia Xu, Li Zhou, Zhiyong Liang, Haoran Huang, Bowen Huang, Gary Guishan Xiao, Junchao Guo

“…The details of adaptive immune remodeling in liver metastasis, especially the role of neutrophils, remain elusive. Here, combined single-cell sequencing with spatial transcriptomics results revealed that liver metastases exhibit more aggressive transcriptional characteristics and higher levels of immunosuppression compared with the primary tumor. …”
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Exploring in vivo human brain metabolism at 10.5 T: Initial insights from MR spectroscopic imaging by Lukas Hingerl, Bernhard Strasser, Simon Schmidt, Korbinian Eckstein, Guglielmo Genovese, Edward J. Auerbach, Andrea Grant, Matt Waks, Andrew Wright, Philipp Lazen, Alireza Sadeghi-Tarakameh, Gilbert Hangel, Fabian Niess, Yigitcan Eryaman, Gregor Adriany, Gregory Metzger, Wolfgang Bogner, Małgorzata Marjańska

“…Introduction: Ultra-high-field magnetic resonance (MR) systems (7 T and 9.4 T) offer the ability to probe human brain metabolism with enhanced precision. Here, we present the preliminary findings from 3D MR spectroscopic imaging (MRSI) of the human brain conducted with the world's first 10.5 T whole-body MR system. …”
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A noncanonical role of roX RNAs in autosomal epigenetic repression by Jianjian Li, Shuyang Xu, Zicong Liu, Liuyi Yang, Zhe Ming, Rui Zhang, Wenjuan Zhao, Huipai Peng, Jeffrey J. Quinn, Manyin Wu, Yushan Geng, Yuying Zhang, Jiazhi He, Minghai Chen, Nan Li, Ning-Yi Shao, Qing Ma

“…While roX RNAs are recognized for their role in sex-chromosome dosage compensation, ensuring balanced expression of X-linked genes in both sexes, their potential influence on autosomal gene regulation remains unexplored. Here, using an integrative multi-omics approach, we show that roX RNAs not only govern the X chromosome but also target genes on autosomes that lack male-specific lethal (MSL) complex occupancy, together with Polycomb repressive complexes (PRCs). …”
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Mesenchymal Progenitor Cells and Their Orthopedic Applications: Forging a Path towards Clinical Trials by Deana S. Shenaq, Farbod Rastegar, Djuro Petkovic, Bing-Qiang Zhang, Bai-Cheng He, Liang Chen, Guo-Wei Zuo, Qing Luo, Qiong Shi, Eric R. Wagner, Enyi Huang, Yanhong Gao, Jian-Li Gao, Stephanie H. Kim, Ke Yang, Yang Bi, Yuxi Su, Gaohui Zhu, Jinyong Luo, Xiaoji Luo, Jiaqiang Qin, Russell R. Reid, Hue H. Luu, Rex C. Haydon, Tong-Chuan He

“…Thus, engineering such cells to maximize therapeutic potential has been the focus of cell/gene therapy to date. Here, we discuss the path towards the development of clinical trials utilizing BMSCs for orthopaedic applications. …”
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