Machine learning‐based multi‐omics models for diagnostic classification and risk stratification in diabetic kidney disease by Xian Shao, Suhua Gao, Pufei Bai, Qian Yang, Yao Lin, Mingzhen Pang, Weixi Wu, Lihua Wang, Ying Li, Saijun Zhou, Hongyan Liu, Pei Yu

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Real world perspectives on endometriosis disease phenotyping through surgery, omics, health data, and artificial intelligence by Camran R. Nezhat, Tomiko T. Oskotsky, Joshua F. Robinson, Susan J. Fisher, Angie Tsuei, Binya Liu, Juan C. Irwin, Brice Gaudilliere, Marina Sirota, David K. Stevenson, Linda C. Giudice

“…Integrating single-cell and other omic disease data with clinical and surgical metadata can identify multiple disease subtypes with translation to novel diagnostics and therapeutics. …”
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Unveiling the mechanism of micro-and-nano plastic phytotoxicity on terrestrial plants: A comprehensive review of omics approaches by Asad Jamil, Ambreen Ahmad, Muhammad Moeen-ud-din, Yihao Zhang, Yuxuan Zhao, Xiaochen Chen, Xiaoyu Cui, Yindong Tong, Xianhua Liu

“…Recent advancements in omics technologies such as proteomics, metabolomics, transcriptomics, and microbiomics, coupled with emerging technologies like 4D omics, phenomics, spatial transcriptomics, and single-cell omics, offer unprecedented insight into the physiological, molecular, and cellular responses of terrestrial plants to MNPs exposure. …”
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Multi-omics approaches for understanding gene-environment interactions in noncommunicable diseases: techniques, translation, and equity issues by Robel Alemu, Nigussie T. Sharew, Yodit Y. Arsano, Muktar Ahmed, Fasil Tekola-Ayele, Tesfaye B. Mersha, Azmeraw T. Amare

“…This scoping review evaluates the global landscape of multi-omics data related to NCDs from 2000 to 2024, focusing on recent advancements in multi-omics data integration, translational applications, and equity considerations. …”
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Editorial: New techniques in microbiome research - volume II: Host-microbiome interactions using ‘meta-omics’ techniques by Tao Lin

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Uncovering the molecular mechanisms behind Alzheimer’s and Parkinson’s disease through multi-omics: an interview with Bruno A. Benitez by Bruno A. Benitez

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Multi-omics analysis reveals distinct gene regulatory mechanisms between primary and organoid-derived human hepatocytes by Haoyu Wu, Annie S. P. Yang, Suzan Stelloo, Floris J. M. Roos, René H. M. te Morsche, Anne H. Verkerk, Maria V. Luna-Velez, Laura Wingens, Johannes H. W. de Wilt, Robert W. Sauerwein, Klaas W. Mulder, Simon J. van Heeringen, Monique M. A. Verstegen, Luc J. W. van der Laan, Hendrik Marks, Richárd Bártfai

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Author Correction: Synthetic augmentation of cancer cell line multi-omic datasets using unsupervised deep learning by Zhaoxiang Cai, Sofia Apolinário, Ana R. Baião, Clare Pacini, Miguel D. Sousa, Susana Vinga, Roger R. Reddel, Phillip J. Robinson, Mathew J. Garnett, Qing Zhong, Emanuel Gonçalves

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Multi-omics analyses identify gut microbiota-fecal metabolites-brain-cognition pathways in the Alzheimer’s disease continuum by Han Zhao, Xia Zhou, Yu Song, Wenming Zhao, Zhongwu Sun, Jiajia Zhu, Yongqiang Yu

“…Furthermore, we assessed the associations between these multi-omics changes using correlation and mediation analyses. …”
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MONet: cancer driver gene identification algorithm based on integrated analysis of multi-omics data and network models by Yingzan Ren, Tiantian Zhang, Jian Liu, Fubin Ma, Jiaxin Chen, Ponian Li, Guodong Xiao, Chuanqi Sun, Yusen Zhang

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Omics-Based Interaction Analysis Reveals Interplay of Chemical Pollutant (Ozone) and Photoradiation (UVSSR) Stressors in Skin Damage by Hong Zhang, Yiying Dong, Xue Xiao, Xiao Cui, Xuelan Gu

Subjects: “…omics-based interaction effect…”
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Multi-omic and machine learning analysis of mitochondrial RNA modification genes in lung adenocarcinoma for prognostic and therapeutic implications by Xiao Zhang, Jiatao Liu, Yaolin Cao, Wei Wang, Haoran Lin, Yue Yu

“…Recognizing the pivotal role of mitochondrial RNA modifications (MRM) in cancer progression, this study aims to provide a comprehensive analysis of MRM-related genes and their clinical relevance in lung adenocarcinoma (LUAD). Integrating multi-omic datasets, we systematically explored the molecular features of MRM-related genes across various cancers and identified distinct expression patterns and prognostic associations. …”
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Integrated electronic nose and multi-omics reveal changes in flavour characterization of cashmere goats and tan sheep meat by Ju Zhang, Shuang Pang, Ge Yan, Lulu Wang, Yuan Xu, Yuheng Bai, Ran Li, Xihong Wang, Yu Jiang

“…This study aimed to employ a multi-omics method to identify key compounds contributing to the sensory flavour of mutton and to investigate the internal correlation between volatile metabolites and lipids in Cashmere goats and Tan sheep. …”
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Comprehensive multi-omics, behavioral and morphological analysis of the hazards of nano-plastics in mice with internal carotid artery occlusion by Lu Wang, Jia-Qi Ma, Li-Jia Song, Xiao-Peng Qu, Yue Zhang, Hai-Ming Fan, Chao Wang, Long-Long Zheng, Guo-Dong Gao, Yan Qu, Liang-Liang Shen, Bei Liu

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HighDimMixedModels.jl: Robust high-dimensional mixed-effects models across omics data. by Evan Gorstein, Rosa Aghdam, Claudia Solís-Lemus

“…Our simulations provide new insights into the algorithm's behavior in these settings, and, comparing the performance of two popular penalties, we demonstrate that the smoothly clipped absolute deviation (SCAD) penalty consistently outperforms the least absolute shrinkage and selection operator (LASSO) penalty in terms of both variable selection and estimation accuracy across omics data. To empower researchers in biology and other fields to fit models with the SCAD penalty, we implement the algorithm in a Julia package, HighDimMixedModels.jl.…”
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CLEC11A-Driven Molecular Mechanisms in Intervertebral Disc Degeneration: A Comprehensive Multi-Omics Study by Jiang N, Wang Q, Hu Z, Tian X

“…Similarly, overexpression of ARTN significantly increased, while knockdown decreased, the expression of these inflammatory markers in nucleus pulposus cells.Conclusion: Our integrative multi-omics analysis indicates that CLEC11A exacerbates IVDD by upregulating ARTN and inducing metabolic dysregulation, thereby amplifying the inflammatory pathways that drive disease progression. …”
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Multi-omics investigation of high-transglutaminase production mechanisms in Streptomyces mobaraensis and co-culture-enhanced fermentation strategies by Huanan Chang, Ziyu Zheng, Hao Li, Yanqiu Xu, Gengyao Zhen, Yao Zhang, Xidong Ren, Xidong Ren, Xinli Liu, Xinli Liu, Deqiang Zhu, Deqiang Zhu

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Multi-omics unveils strain-specific neuroactive metabolite production linked to inflammation modulation by Bacteroides and their extracellular vesicles by Basit Yousuf, Walid Mottawea, Galal Ali Esmail, Nazila Nazemof, Nour Elhouda Bouhlel, Emmanuel Njoku, Yingxi Li, Xu Zhang, Zoran Minic, Riadh Hammami

“…This study investigated the strain-specific production of neuroactive metabolites by 18 Bacteroidetes (12 Bacteroides, 4 Phocaeicola, and 2 Parabacteroides) using multi-omics approaches. Genomic analysis revealed a significant potential for producing GABA, tryptophan, tyrosine, and histidine metabolism-linked neuroactive compounds. …”
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Erratum: Multi-omics analysis reveals interactions between host and microbes in Bama miniature pigs during weaning by Frontiers Production Office

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Deciphering the anti-obesity mechanisms of pharmabiotic probiotics through advanced multiomics analysis by Ye-Rim Kim, Tae-Rim Choi, Sung-Hyun Jo, Won-Suk Song, TaeHyun Kim, Min-Gyu Kim, Ji-Hyun Baek, Seo-Young Kwon, Bo-Gyeong Choi, Sang Woo Seo, Chol-Soon Jang, Yung-Hun Yang, Yun-Gon Kim

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