Adaptive strategies of Caribbean sponge holobionts beyond the mesophotic zone by Benoît Paix, Alexane Thivet, Celso Domingos, Özlem Erol, Niels van der Windt, Young H. Choi, Nicole J. de Voogd

“…Abstract Background Marine sponges and their microbiomes function together as holobionts, playing essential roles in ecosystem dynamics and exhibiting remarkable adaptability across depth gradients. This study utilized a multi-omics approach, integrating microbiome and metabolome analyses, to investigate adaptive strategies in sponge holobionts inhabiting the mesophotic (80–125 m), upper-rariphotic (125–200 m), and lower-rariphotic (200–305 m) zones of Curaçao. …”
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SOX7: Autism associated gene identified by analysis of multi-Omics data. by Samantha Gonzales, Jane Zizhen Zhao, Na Young Choi, Prabha Acharya, Sehoon Jeong, Xuexia Wang, Moo-Yeal Lee

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Deciphering Heat Stress Mechanisms and Developing Mitigation Strategies in Dairy Cattle: A Multi-Omics Perspective by Zhiyi Xiong, Lin Li, Kehui Ouyang, Mingren Qu, Qinghua Qiu

“…While conventional single-omics or phenotypic studies have provided fragmented insights, they fail to decipher the multi-layered regulatory networks and gene–environment interactions underlying HS. This review integrates current knowledge on HS-induced physiological responses and molecular adaptations in dairy cattle from a multi-omics perspective, highlighting integrative approaches that combine IoT-enabled monitoring and AI-driven genetic improvement strategies. …”
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Multi-omics profiling reveals single-seed mutants of Ephedra saxatilis as dominant variants in high-altitude Xizang by Mengnan Lu, Shiyan Wang, Yonghong Zhou, Xiaona Wang, Hao Su, Yanbing Gong, Ji De

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Decoding cancer prognosis with deep learning: the ASD-cancer framework for tumor microenvironment analysis by Ziyuan Huang, Yunzhan Li, Vanni Bucci, John P. Haran

“…ABSTRACT Deep learning is revolutionizing biomedical research by facilitating the integration of multi-omics data sets while bridging classical bioinformatics with existing knowledge. …”
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Heterogeneity of the liver cancer tumor microenvironment: mitochondrial metabolism and causal inference through Mendelian randomization by Xiaping Liu, Zhang Jing, Jian Chen, Linhong Su, Jun Lin, Xiaoqu Zhu, Xiaodan Ye

“…We found an increased dispersion of tumor cells in PCA, reflecting adaptive changes due to complex gene regulatory networks. …”
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Omics-driven insights into plant growth-promoting microorganisms for sustainable agriculture by Abhishek Sahoo, Garima Yadav, Tushar Mehta, Mukesh Meena, Prashant Swapnil

“…Abstract Plant growth-promoting microorganisms (PGPMs) are pivotal to advancing sustainable agriculture, offering eco-friendly solutions for nutrient acquisition, stress tolerance, and disease suppression. Integrating multi-omics approaches, genomics, transcriptomics, proteomics, and metabolomics has substantially deepened our understanding of plant–microbe interactions at molecular and system levels. …”
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Oxidative Stress in Rice (<i>Oryza sativa</i>): Mechanisms, Impact, and Adaptive Strategies by Lady Edlenill J. Tavu, Mark Christian Felipe R. Redillas

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The ATF4-glutamine axis: a central node in cancer metabolism, stress adaptation, and therapeutic targeting by Xing Yan, Changhong Liu

“…However, challenges such as off-target effects of ATF4 inhibitors and metabolic plasticity in tumors remain critical barriers. Future studies integrating multi-omics approaches and AI-driven drug discovery are warranted to overcome these hurdles.…”
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The influence of glutathione metabolism on alkaline adaptation of Amur ide (Leuciscus waleckii) and potential role of gut microbiota by Zou Yuting, Li Chenghao, Huang Jing, Yang Haochen, Luo Liang, Liew Honjung, Chang Yumei

“…Both groups were exposed to a gradient of NaHCO3 stress levels (0, 10, 30, and 50 mmol/L), and their responses were systematically assessed through integrated multi-omics analyses alongside physiological assays. …”
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Decoding metabolic trade-offs in Halomonas elongata: Chemostat-based flux remodeling for industrial ectoine biosynthesis by Junxiong Yu, Hao Liu, Yudi Wang, Runlin Ju, Yue Zhang, Ali Moshin, Yingping Zhuang, Meijin Guo, Zejian Wang

“…To address this gap, we employed chemostat cultivation coupled with multi-omics integration (physiological profiling, metabolomics, and metabolic flux analysis) to dissect salt-dependent metabolic network rewiring in the model strain DSM 2581T under moderate (6.0 % NaCl) and high salinity (13.0 % NaCl). …”
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<i>Heortia vitessoides</i> Infests <i>Aquilaria sinensis</i>: A Systematic Review of Climate Drivers, Management Strategies, and Molecular Mechanisms by Zongyu Yin, Yingying Chen, Huanrong Xue, Xiaofei Li, Baocai Li, Jiaming Liang, Yongjin Zhu, Keyu Long, Jinming Yang, Jiao Pang, Kaixiang Li, Shaoming Ye

“…However, significant gaps persist in integrating climate adaptation mechanisms, control technologies, and host interaction networks across disciplines. …”
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Liquid biopsy for minimal residual disease and monitoring in early-stage non-small cell lung cancer: current clinical utility and implementation challenges by Yoshiharu Sato

“…This review discusses both the current state and the future direction of MRD-guided oncology, highlighting emerging strategies such as longitudinal ctDNA monitoring, artificial intelligence-based interpretation, and multi-omics integration. Together, these developments may enable more precise and adaptive treatment strategies in the perioperative setting, ultimately facilitating the transition of MRD assessment from investigational use to clinical standard-of-care.…”
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Genetic Improvement and Functional Characterization of AAP1 Gene for Enhancing Nitrogen Use Efficiency in Maize by Mo Zhu, Ziyu Wang, Shijie Li, Siping Han

“…., group 10-specific motifs 11/12), indicating species-specific adaptive evolution. Integrative analysis of promoter cis-elements and multi-omics data confirmed the root-preferential expression of ZmAAP1 under drought stress, mediated via the ABA-DRE signaling pathway. …”
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Cancer stem cells: Bridging microenvironmental interactions and clinical therapy by Huiling Wang, Junshu Li, Fei Du, Hongxin Deng

“…Recent advances in multi‐omics analysis, lineage tracing and single‐cell sequencing technologies have systematically elucidated the dynamic biology of CSCs, including their epigenetic plasticity, metabolic adaptations and phenotypic heterogeneity, which depend on their ecological niche. …”
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Targeted and Untargeted Urinary Metabolomics in Exercise Science: A Systematic Review by Zi-Xiao Yu, Ji-Suk Chang, Ah-Ram Kim, Ho-Seong Lee

“…Advancements in analytical technologies are expected to accelerate multi-omics integration, enabling precise characterization of physiological adaptations and supporting personalized strategies for health and performance enhancement.…”
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Long non-coding RNAs and autophagy: dual drivers of Hepatocellular carcinoma progression by Himanshi Goyal, Jyotdeep Kaur

“…Integrating multi-omics approaches to validate these candidates will be critical for translation into clinical practice. …”
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Accurate prediction of synergistic drug combination using a multi-source information fusion framework by Shuting Jin, Huaze Long, Anqi Huang, Jianming Wang, Xuan Yu, Zhiwei Xu, Junlin Xu

“…Furthermore, we refine the initial cell line representation by adaptively integrating it with normalized gene expression profiles, enabling the extraction of cell line features that encapsulate global information. …”
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Securing fruit trees future: AI-driven early warning and predictive systems for abiotic stress in changing climate by Muhammad Ahtasham Mushtaq, Muhammad Ateeq, Muhammad Ikram, Shariq Mahmood Alam, Muhammad Mohsin Kaleem, Muhammad Atiq Ashraf, Muhammad Asim, Khalid F. Almutairi, Mahmoud F. Seleiman, Fareeha Shireen

“…However, the acquiring of such AI based system in horticultural crops still faces numerous challenges. Specifically, multi-omics, data accessibility, algorithmic biases, the cost of implementation and requirements for robust training programs need to integrate for sustainable agriculture. …”
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