Spatiotemporal analysis of lung immune dynamics in lethal Coccidioides posadasii infection by Oscar A. Davalos, Aimy Sebastian, Nicole F. Leon, Margarita V. Rangel, Nadia Miranda, Deepa K. Murugesh, Ashlee M. Phillips, Katrina K. Hoyer, Nicholas R. Hum, Gabriela G. Loots, Dina R. Weilhammer

“…Using single-cell RNA sequencing and spatial transcriptomics, we characterized lung responses during Coccidioides infection. …”
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Multi-omics insights into Chinese herbal medicine additives for mutton flavor enhancement: epigenetic and microbial mechanisms by Kai Quan, Huibin Shi, Haoyuan Han, Kun Liu, Qiufang Cui, Huihua Wang, Meilin Jin, Wei Sun, Caihong Wei, Yibao Jiang, Jun Li

“…It is important to consider dose-dependent thresholds, as thyme phenolic extract at 0.05% maximizes aroma intensity (p < 0.05), while exceeding 1.5% licorice glycyrrhizin intensifies gaminess. …”
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Tetraspanin7 in adipose tissue remodeling and its impact on metabolic health by Shino Nemoto, Kazuyo Uchida, Tetsuya Kubota, Manabu Nakayama, Yong-Woon Han, Shigeo Koyasu, Hiroshi Ohno

“…Its modulation enhances subcutaneous fat storage capacity while mitigating visceral fat accumulation, leading to improved insulin sensitivity. …”
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Effects of environmental temperature on growth performance, muscle fiber structure, fatty acid composition, and gene expression in ducks by Ziyi Pan, Congcong Xu, Dongyue Sun, Xingda Yang, Rihong Guo, Zichun Dai, Fang Chen, Zhendan Shi, Shijia Ying

“…The T20 group also had higher levels of various fatty acids, including saturated (SFAs), monounsaturated (MUFAs), and polyunsaturated (PUFAs) types, while T29 group had lower levels of ω-3 and ω-6 PUFAs and a higher ω-6/ω-3 PUFA (P < 0.05). …”
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A novel Arthrobotrys species: Taxonomic characterization, nematicidal activity, and multi-omics insights into nematode predation by Mengting Gao, Zhaoqi Yan, Zexin Liu, Yunxia Jiang, Tengteng Liu, Xingjun Miao, Meixue Dai, Tanay Bose, Runlei Chang

“…The integrated in vitro nematicidal activity, physiological adaptability, and multi-omics data suggest A. byssisimilis warrants further evaluation as a potential biocontrol agent against PWN, while its unique genomic features provide new molecular targets for investigating fungal-nematode interactions.…”
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Effects of tryptamine on duckweed growth by Qiqi Di, Wenqian Han, Yujie Han, Sizheng Liu, Yi Hu, Ziyang Qu, Yumeng Jiang, Weibo Sun, Ting Qiu, Lin Yang

“…Moreover, transcriptomic analysis revealed an upregulation of auxin (IAA) metabolism-related enzymes by Try addition. …”
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Diurnal nectar secretion dynamics in Roscoea cautleoides (Zingiberaceae) reveal the role of non-sugar chemicals in plant–pollinator interaction by Wen-Jing Wang, Ya-Ting Lin, Hong-Fan Chen, Mei-Yuan Huang, Zong-Xin Ren, Jian-Li Zhao

“…By integrating metabolomics and transcriptomics, we explored the daily variations in nectar chemical composition and the gene expression in nectaries, with a specific focus on nectar metabolites from bagged flowers. …”
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Adaptation to Arginine Deprivation Leads to a More Aggressive, Therapy-Resistant Phenotype in HNSCC Cells by Oleg Chen, Olena Vovk, Nikita Polishchuk, Oksana Mayevska, Galyna Shuvayeva, Melike Demir, Vasyl Lukiyanchuk, Leoni A. Kunz-Schughart, Anna Dubrovska, Oleh Stasyk

“…This subline was compared to the parental SAS cell lines for its relative clonogenic proliferation, aggregation, adhesion, and migration capacities. The transcriptomic changes were assessed by RNA sequencing. …”
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Endoplasmic Reticulum-Targeted Phototherapy Remodels the Tumor Immunopeptidome to Enhance Immunogenic Cell Death and Adaptive Anti-Tumor Immunity by Weidong Xiao, Mingquan Gao, Banghui Mo, Xie Huang, Zaizhi Du, Shufeng Wang, Jianhong Chen, Shenglin Luo, Haiyan Xing

“…In vitro functional studies were conducted to evaluate dendritic cell maturation and T lymphocyte activation, while in vivo experiments were performed by combining the identified peptide with poly IC to evaluate anti-tumor immunity. …”
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Redefining the role of IL-18 in post-surgical recovery and sepsis: a key mediator of inflammation resolution by Ioanna Papatheodorou, Gabriela Blažková, Veronika Bosáková, Zuzana Tomášiková, Erin Spearing, Robin Klieber, Pavel Ostašov, Julie Štíchová, Martina Dvončová, Alexandra Mýtniková, Jan Emmer, Kamila Bendíčková, Tomáš Tomáš, Vladimír Šrámek, Petros Kolovos, Monika Holubová, Martin Helán, Marcela Vlková, Jan Frič, Marcela Hortová-Kohoutková

“…Abstract Background Timely resolution of innate immune responses activated by surgical intervention is crucial for patient recovery. While cytokines and innate immune cells are critical in inflammation resolution, the specific role of IL-18 in these processes remains controversial and underexplored. …”
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Stratification system with dual human endogenous retroviruses for predicting immunotherapy efficacy in metastatic clear-cell renal cell carcinoma by Li Xu, Stephane Oudard, Catherine Sautes-Fridman, Xiaoping Su, Gabriel G. Malouf, Virginie Verkarre, Salma Kotti, Fangrong Yan, Yann-Alexandre Vano, Wolf Herve Fridman, Cheng-Ming Sun, Xiaofan Lu, Wenxuan Cheng

“…Beyond enhancing the predictive precision of existing transcriptomic models, this system paves the way for more targeted and individualized approaches in the realm of precision oncology.…”
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Integrative spatial omics reveals distinct tumor-promoting multicellular niches and immunosuppressive mechanisms in Black American and White American patients with TNBC by Qian Zhu, Akhila Balasubramanian, Jaya Ruth Asirvatham, Megha Chatterjee, Badrajee Piyarathna, Jaspreet Kaur, Nada Mohamed, Ling Wu, Stacy Wang, Niloufar Pourfarrokh, Paula Danika Binsol, Mahak Bhargava, Uttam Rasaily, Yitian Xu, Junjun Zheng, Deborah Jebakumar, Arundhati Rao, Carolina Gutierrez, Angela R. Omilian, Carl Morrison, Gokul M. Das, Christine Ambrosone, Erin H. Seeley, Shu-hsia Chen, Yi Li, Eric Chang, Xiaoxian Li, Elizabeth Baker, Ritu Aneja, Xiang H.-F. Zhang, Arun Sreekumar

“…Ligand-receptor and pathway analyses further demonstrated that BA TNBC tumors exhibit a relatively “immune-cold” profile, while WA TNBC tumors display features of an “inflamed” TME, suggesting the evolution of a unique immunosuppressive mechanism. …”
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Effects of mode of reproduction on genetic polymorphism and divergence in wild yams (Dioscoreaceae: Dioscorea) by Xin Wang, Qing-Hong Feng, Zhi-Hua Zeng, Zhi-Qiang Zhang, Jie Cai, Gao Chen, De-Zhu Li, Hong Wang, Wei Zhou

“…We investigated evidence for differences among the transcriptomes of 19 Dioscorea species (wild yams) with diverse reproductive systems. …”
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Gibberellin-3 induced dormancy and suppression of flower bud formation in pitaya (Hylocereus polyrhizus) by Kamran Shah, Xiaoyue Zhu, Tiantian Zhang, Jiayi Chen, Jiaxuan Chen, Yonghua Qin

“…Results GA3 application during peak flowering period significantly altered hormone levels, reducing auxin (AUX), cytokinin (CTK) active forms dihydrozeatin riboside (dhZR), zeatin riboside (ZR), N6-isopentenyladenosine (iPA), and brassinosteroid (BR), while increasing jasmonic acid (JA), GA3, and gibberellin-4 (GA4) levels, with abscisic acid (ABA) levels remaining unchanged compared to control. …”
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Exploring the role of TIGIT in patients with Small Cell Lung Cancer as a novel predictor of prognosis and immunotherapy response by Li Liu, Peng Wu, Bingzhi Wang, Jiyan Dong, Chaoqi Zhang, Wenchao Liu, Jianming Ying

“…Additionally, TIGIT expression correlated positively with immune cells, including CD8 T cells, cytotoxic lymphocytes, and B cells (p < 0.05), and multiple immune checkpoints like BTLA, ICOS, and LAG3 (p < 0.05), while it had a significant negative correlation with the TIDE score (p < 0.05). …”
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Integrated machine learning and single-cell RNA sequencing reveal COL4A2 and CXCL6 as oxidative stress-associated biomarkers in periodontitis by Siyu Sun, Siyu Sun, Jing Ren, Jing Ren, Xiujuan Zeng, Yanbin Chen, Qianbing Zhou, Junying Yang, Shan Chen

“…This study aims to explore the association between oxidative stress and periodontitis pathogenesis while identifying potential diagnostic biomarkers and therapeutic targets for this condition.MethodsTranscriptomic data from gingival tissues of periodontitis patients and controls were obtained from the Gene Expression Omnibus (GEO) database. …”
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Exploring the role of EBV in multiple sclerosis pathogenesis through EBV interactome by Chiara Ballerini, Roberta Amoriello, Olfa Maghrebi, Gianmarco Bellucci, Ilaria Addazio, Matteo Betti, Maria Grazia Aprea, Camilla Masciulli, Arianna Caporali, Valeria Penati, Clara Ballerini, Ermelinda De Meo, Emilio Portaccio, Marco Salvetti, Marco Salvetti, Maria Pia Amato, Maria Pia Amato

“…Metascape and GTEx analyzed biological pathways and brain-level gene expression; transcriptomic analysis was performed on glial cells and peripheral blood in MS and controls. …”
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GLP-1R/GCGR dual agonism dissipates hepatic steatosis to restore insulin sensitivity and rescue pancreatic β-cell function in obese male mice by Rhianna C. Laker, Shaun Egolf, Sarah Will, Louise Lantier, Owen P. McGuinness, Charles Brown, Nicholas Bhagroo, Stephanie Oldham, Kyle Kuszpit, Alex Alfaro, Xidan Li, Taewook Kang, Giovanni Pellegrini, Anne-Christine Andréasson, Sarina Kajani, Sadichha Sitaula, Martin R. Larsen, Christopher J. Rhodes

“…Cotadutide or GCGR mono-agonist treatment also increases brown adipose tissue (BAT) insulin-stimulated glucose uptake, while GLP-1R mono-agonist shows a weak effect. BAT from cotadutide-treated mice have induction of UCP-1 protein, increased mitochondrial area and a transcriptomic profile of increased fat oxidation and mitochondrial activity. …”
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Chromatin Organization Governs Transcriptional Response and Plasticity of Cancer Stem Cells by Yinu Wang, Jane Frederick, Karla Isabel Medina, Elizabeth Thomas Bartom, Luay Matthew Almassalha, Yaqi Zhang, Greta Wodarcyk, Hao Huang, I Chae Ye, Ruyi Gong, Cody Levi Dunton, Alex Duval, Paola Carrillo Gonzalez, Joshua Pritchard, John Carinato, Iuliia Topchu, Junzui Li, Zhe Ji, Mazhar Adli, Vadim Backman, Daniela Matei

“…Comparative transcriptomic analyses showed higher intercellular transcriptional heterogeneity at baseline in CSCs. …”
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Mapping the rapid growth of multi-omics in tumor immunotherapy: Bibliometric evidence of technology convergence and paradigm shifts by Huijing Dong, Xinmeng Wang, Yumin Zheng, Jia Li, Zhening Liu, Aolin Wang, Yulei Shen, Daixi Wu, Huijuan Cui

“…This study aims to fill the knowledge gap in systematically mapping the evolution of omics-driven tumor immunotherapy research through a bibliometric lens. While omics technologies (genomics, transcriptomics, proteomics, metabolomics)provide multidimensional molecular profiling, their synergistic potential with immunotherapy remains underexplored in large-scale trend analyses. …”
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