Role of plasma metabolome in mediating the effect of plasma lipidome on NAFLD: a Mendelian randomization study by Zhuyuan Zheng, Shaojie Yang, Wanlin Dai, Yang Sun, Jingnan Wang, Xiaolin Zhang, Yiming Zheng, Jing Kong

“…BackgroundThis study explored the causal connection among the plasma lipidome, nonalcoholic fatty liver disease (NAFLD), and potential metabolome mediators through Mendelian randomization (MR).MethodsWe obtained summary statistics for 179 plasma lipidome traits (N = 7,174), 1,400 plasma metabolome traits (N = 8,299), and one NAFLD trait from publicly available genome-wide association studies. A two-sample MR analysis was conducted to infer causality. …”
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The protoplast two-way fusions and fusant characteristics of Antrodia cinnamomea and Cordyceps militaris by Wei-Kuang Lai, Yang-Chang Wu, Tai-Sheng Yeh, Chun-Ren Hsieh, Yi-Hong Tsai, Chien-Kei Wei, Chi-Ying Li, Ying-Chen Lu, Fang-Rong Chang

“…The protoplasts of A. cinnamomea were inactivated by heat to inactivate biochemical processes and enzymatic activities in the cytoplasm, and the protoplasts of C. militaris were inactivated by UV radiation to invalidate their genome function, then they were fused under optimal conditions to get a fusion rate as (7.42 ± 0.8) × 10-6 fusants/mL; the new fusants were abbreviated as Ac-Cm. …”
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Systematic dissection of pleiotropic loci and critical regulons in excitatory neurons and microglia relevant to neuropsychiatric and ocular diseases by Yunlong Ma, Dingping Jiang, Jingjing Li, Gongwei Zheng, Yao Deng, Xuanxuan Gou, Shuaishuai Gao, Cheng Chen, Yijun Zhou, Yaru Zhang, Chunyu Deng, Yinghao Yao, Haijun Han, Jianzhong Su

“…Abstract Advancements in single-cell multimodal techniques have greatly enhanced our understanding of disease-relevant loci identified through genome-wide association studies (GWASs). To investigate the biological connections between the eye and brain, we integrated bulk and single-cell multiomic profiles with GWAS summary statistics for eight neuropsychiatric and five ocular diseases. …”
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Automatic morphology phenotyping of tetra- and hexaploid wheat spike using computer vision methods by A. Yu. Pronozin, A. A. Paulish, E. A. Zavarzin, A. Yu. Prikhodko, N. M. Prokhoshin, Yu. V. Kruchinina, N. P. Goncharov, E. G. Komyshev, M. A. Genaev

“…The modern cultivated wheat species originated from three wild diploid ancestors as a result of several rounds of genome doubling and are represented by di-, tetra- and hexaploid species. …”
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Caution when using network partners for target identification in drug discovery by Dandan Tan, Yiheng Chen, Yann Ilboudo, Kevin Y.H. Liang, Guillaume Butler-Laporte, J. Brent Richards

“…We used the IntAct database to find physically interacting proteins of genes identified by exome-wide association studies (ExWASs), genome-wide association studies (GWASs) combined with a locus-to-gene mapping algorithm called the Effector Index, and Genetic Priority Score (GPS), which integrated eight genetic features with drug indications from the Open Targets and SIDER databases. …”
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Prion protein promotes copper toxicity in Wilson disease by Raffaella Petruzzelli, Federico Catalano, Roberta Crispino, Elena V. Polishchuk, Mariantonietta Elia, Antonio Masone, Giada Lavigna, Anna Grasso, Maria Battipaglia, Lucia Vittoria Sepe, Banu Akdogan, Quirin Reinold, Eugenio Del Prete, Diego Carrella, Annalaura Torella, Vincenzo Nigro, Enrico Caruso, Nicole Innocenti, Emiliano Biasini, Ludmila V. Puchkova, Alessia Indrieri, Ekaterina Y. Ilyechova, Pasquale Piccolo, Hans Zischka, Roberto Chiesa, Roman S. Polishchuk

“…Unfortunately, the molecular targets for normalizing Cu homeostasis in Wilson disease remain poorly understood. Here, using genome-wide screening, we identified the cellular prion protein (PrP) as an important mediator of Cu toxicity in WD. …”
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A conceptual model and practical guidance for the development, administration, and evaluation of individualized therapies by Lucie Perillat, Lucie Perillat, Andrew McFadyen, Andrew McFadyen, Andrew McFadyen, Patricia Furlong, James Anderson, James Anderson, James Anderson

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Protocol of the Nurses’ Mental Health Study (NMHS): a nationwide hospital multicentre prospective cohort study by Jiaxin Yang, Chongmei Huang, Shuiyuan Xiao, Xuting Li, Meng Ning, Zengyu Chen, Yusheng Tian, Qiang Yu, Yamin Chen, Ya-Min Li

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The Mla pathway promotes Vibrio cholerae re-expansion from stationary phase by Deborah R. Leitner, Franz G. Zingl, Alexander A. Morano, Hailong Zhang, Matthew K. Waldor

“…Whole genome sequencing revealed that mlaE suppressors inactivated flagellar biosynthesis. …”
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Exploring the role of circulating proteins in multiple myeloma risk: a Mendelian randomization study by Matthew A. Lee, Kate L. Burley, Emma L. Hazelwood, Sally Moore, Sarah J. Lewis, Lucy J. Goudswaard

“…Summary statistics for plasma proteins were obtained from genome-wide association studies performed using SomaLogic (N = 35,559; deCODE) and Olink (N = 34,557; UK Biobank; UKB) proteomic platforms and for MM risk from a meta-analysis of UKB and FinnGen (case = 1649; control = 727,247) or FinnGen only (case = 1085; control = 271,463). …”
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GPIHBP1 increase accounts for rheumatic arthritis-related hypotriglyceridemia by facilitating lipids uptake of white adipose tissues by Meng-Ke Song, Meng-Fan Gu, Ling Liu, Lian-Jun He, Peng Ye, Kui Yang, Dan-Dan Wang, Opeyemi Joshua Olatunji, Qin Yin, Jian Zuo

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Candidate SNP markers of social dominance, which may affect the affinity of the TATAbinding protein for human gene promoters by I. V. Chadaeva, D. A. Rasskazov, E. B. Sharypova, L. K. Savinkova, P. M. Ponomarenko, M. P. Ponomarenko

“…The proposed hypothesis, the candidate SNP markers predicted and the observed regularities of effects of natural selection for the human genome are discussed in comparison with published data: whether they can have any relation to social dominance in human. …”
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SHP2 promotes the epithelial-mesenchymal transition in triple negative breast cancer cells by regulating β-catenin by Shihan Qian, Jingjing Zhu, Qing Han, Huang Cheng, Huaibin Zhou

“…Methods In this study, we conducted bioinformatics analysis of the Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) databases to examine PTPN11 (encoding SHP2) expression levels and perform survival analysis in TNBC. …”
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Genetic Profile and Associated Characteristics of 150 Korean Patients with Retinitis Pigmentosa by You Na Kim, Yoon Jeon Kim, Chang Ahn Seol, Eul-Ju Seo, Joo Yong Lee, Young Hee Yoon

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Polygenic prediction of human longevity on the supposition of pervasive pleiotropy by M. Reza Jabalameli, Jhih-Rong Lin, Quanwei Zhang, Zhen Wang, Joydeep Mitra, Nha Nguyen, Tina Gao, Mark Khusidman, Sanish Sathyan, Gil Atzmon, Sofiya Milman, Jan Vijg, Nir Barzilai, Zhengdong D. Zhang

“…We showed that coefficients derived from our ensemble model could potentially reveal an interesting pattern of genomic pleiotropy specific to lifespan. We assessed the predictive performance of our model for distinguishing the enrichment of exceptional longevity among long-lived individuals in two replication cohorts (the Scripps Wellderly cohort and the Medical Genome Reference Bank (MRGB)) and showed that the median lifespan in the highest decile of our composite prognostic index is up to 4.8 years longer. …”
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MicroRNA-3145 as a potential therapeutic target for hepatitis B virus: inhibition of viral replication via downregulation of HBS and HBX by Amrizal Muchtar, Amrizal Muchtar, Daichi Onomura, Daichi Onomura, Dan Ding, Dan Ding, Hironori Nishitsuji, Kunitada Shimotohno, Shunpei Okada, Keiji Ueda, Koichi Watashi, Takaji Wakita, Kei Iida, Kei Iida, Hironori Yoshiyama, Hisashi Iizasa

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Machine learning models reveal microbial signatures in healthy human tissues, challenging the sterility of human organs by Anargyros Skoulakis, Anargyros Skoulakis, Giorgos Skoufos, Giorgos Skoufos, Armen Ovsepian, Armen Ovsepian, Artemis G. Hatzigeorgiou, Artemis G. Hatzigeorgiou

“…Unaligned sequencing reads with the human genome were processed using AGAMEMNON, an algorithm for metagenomic microbial quantification, with a reference database comprising bacterial, archaeal, and viral genomes, alongside fungal transcriptomes. …”
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Relationship between personality traits and spontaneous coronary artery dissection risk: evidence from Mendelian randomization by Kun Zheng, Kun Zheng, Mengdi Wu, Junhua Wang, Junhua Wang, Jinjin Sun, Yuqian Li, Peng Wang, Zhiyue Zhang, Xiuming Pan, Yifeng Yang, Tianqi Li, Yujie Guo

“…Besides, data regarding SCAD and personality were extracted from expansive genome-wide association studies (GWAS), and rigorous statistical inferences were made using inverse variance weighting (IVW) and ancillary methodologies. …”
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Phage vB_Kpn_HF0522: Isolation, Characterization, and Therapeutic Potential in Combatting K1 Klebsiella pneumoniae Infections by Yan T, Wang Q, Ma C, Teng X, Gong Z, Chu W, Zhou Q, Liu Z

“…Analysis of vB_Kpn_HF0522 characteristics, including optimal multiplicity of infection (MOI), one-step growth curve, host range, stability in different environments, and adsorption capacity. The phage genomic sequence was analyzed to explore evolutionary relationships. …”
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DOCK4 Is a Platinum-Chemosensitive and Prognostic-Related Biomarker in Ovarian Cancer by Qianqian Zhao, Jie Zhong, Ping Lu, Xiao Feng, Ying Han, Chenqi Ling, Wenke Guo, Weijin Zhou, Fudong Yu

“…The gene expression profiles were obtained from Gene Expression Omnibus (GEO) and The Cancer Genome Atlas (TCGA) database. A total of 4 genes (AP2A2, DOCK4, HSDL2, and PDK4) were the candidate differentially expressed genes (DEGs) of PPAR-TRGs with platinum chemosensitivity. …”
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