Modulation of biological activities in adipose derived stem cells by histone deacetylation by Sallam Abdallah, Mouna Tabebi, Sawsan Qanadilo, Neserin Ali, Jing Wang, Pádraig D’Arcy, Wen Zhong, Folke Sjoberg, Moustafa Elmasry, Ahmed El-Serafi

“…Microarray analysis revealed 74 upregulated and 40 downregulated differentially expressed genes, including upregulation of P53 targets, CDKN1A and MDM2. Proteomic analysis identified 631 upregulated and 823 downregulated proteins compared to the vehicle. …”
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Spatially Resolved Multiomics: Data Analysis from Monoomics to Multiomics by Changxiang Huan, Jinze Li, Yingxue Li, Shasha Zhao, Qi Yang, Zhiqi Zhang, Chuanyu Li, Shuli Li, Zhen Guo, Jia Yao, Wei Zhang, Lianqun Zhou

“…Spatial monoomics techniques in epigenomics, genomics, transcriptomics, proteomics, and metabolomics can enhance our understanding of biological functions and cellular identities by simultaneously measuring tissue structures and biomolecule levels. …”
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Associations between accurate measures of adiposity and fitness, blood proteins, and insulin sensitivity among South Asians and Europeans by Pik Fang Kho, Pik Fang Kho, Laurel Stell, Shirin Jimenez, Shirin Jimenez, Daniela Zanetti, Daniela Zanetti, Daniela Zanetti, Daniel J. Panyard, Kathleen L. Watson, Ashish Sarraju, Ashish Sarraju, Ming-Li Chen, Ming-Li Chen, Lars Lind, John R. Petrie, Khin N. Chan, Holly Fonda, Kyla Kent, Kyla Kent, Jonathan N. Myers, Jonathan N. Myers, Jonathan N. Myers, Latha Palaniappan, Latha Palaniappan, Latha Palaniappan, Fahim Abbasi, Themistocles L. Assimes, Themistocles L. Assimes, Themistocles L. Assimes, Themistocles L. Assimes

“…We explored this possibility by investigating the relationship between ‘gold standard’ measures of adiposity, fitness, selected proteomic biomarkers, and insulin sensitivity among a cohort of SAs and Europeans (EURs).MethodsA total of 46 SAs and 41 EURs completed ‘conventional’ (lifestyle questionnaires, standard physical exam) as well as ‘gold standard’ (dual energy X-ray absorptiometry scan, cardiopulmonary exercise test, and insulin suppression test) assessments of adiposity, fitness, and insulin sensitivity. …”
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Platelet‐derived apoptotic vesicles ameliorate nonalcoholic fatty liver disease by regulating lipid metabolism via apolipoprotein A‐II by Yuhe Jiang, Yike Liao, Zeying Wang, Lei Zhu, Yunsong Liu, Ping Zhang, Yuan Zhu, Wenyue Li, Yongsheng Zhou, Xiao Zhang

“…The results showed that PLT‐apoVs exhibited superior effects in diminishing lipid accumulation in liver induced by high‐fat diet than MSC‐apoVs. Through proteomic analysis, we defined and validated apolipoprotein A‐II (APOA2) as a regulator for apoV‐mediated MSC adipogenesis, which could be used as a target to enhance apoV therapeutic potential in the lipid metabolism biomedical field. …”
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Ginsenoside F1 administration promotes UCP1-dependent fat browning and ameliorates obesity-associated insulin resistance by Yuhan Meng, Weili Li, Chenxing Hu, Si Chen, Haiyang Li, Feifei Bai, Lujuan Zheng, Ye Yuan, Yuying Fan, Yifa Zhou

“…We also investigated the ability of F1 on energy metabolism in obesity-induced diabetic mice, including body weight, body composition and energy expenditure. The results of proteomics showed that F1 significantly up-regulated thermogenesis proteins and lipolytic proteins, but down-regulated fatty acid synthesis proteins. …”
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A perfusion-independent high-throughput method to isolate liver sinusoidal endothelial cells by Anna Babin-Ebell Gonçalves, Yifang Mao, Tinja Baljkas, Felix Wiedmann, Larissa Eis, Franziska Pilz, Manuel Winkler, Sina W. Kürschner-Zacharias, Marlene Hoffarth, Charlotta Funaya, Réza Shahidi, Cyrill Géraud, Chi-Chung Wu, Constanze Schmidt, Sergij Goerdt, Philipp-Sebastian Reiners-Koch, Mahak Singhal

“…Combining magnetic and fluorescence-activated cell sorting (FACS), LSECs from different zones of the hepatic sinusoid can now be isolated in high numbers in less than two hours for downstream applications including proteomics. Our protocol enables the isolation of LSECs from fibrotic liver tissues from mice and healthy liver tissues from higher vertebrate species (pigs), where traditional perfusion-based digestion protocols have very limited application. …”
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Robust ensemble of handcrafted and learned approaches for DNA-binding proteins by Loris Nanni, Sheryl Brahnam

“…Purpose – Automatic DNA-binding protein (DNA-BP) classification is now an essential proteomic technology. Unfortunately, many systems reported in the literature are tested on only one or two datasets/tasks. …”
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A novel two-component system contributing the catabolism of c-di-GMP influences virulence in Aeromonas veronii by Chaolun Liu, Jia Shao, Xiang Ma, Yanqiong Tang, Juanjuan Li, Hong Li, Xue Chi, Zhu Liu

“…The roles of ArrS/ArrR in Aeromonas veronii were investigated using RT-qPCR, murine model, and proteomics.ResultsArrS and ArrR constituted a two-component system in Aeromonas veronii and were transcriptionally repressed by ArgR. …”
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Impact of developmental state, p53 status, and interferon signaling on glioblastoma cell response to radiation and temozolomide treatment. by Artem Berezovsky, Oluwademilade Nuga, Indrani Datta, Kimberly Bergman, Thais Sabedot, Katherine Gurdziel, Susan Irtenkauf, Laura Hasselbach, Yuling Meng, Claudius Mueller, Emanuel F Petricoin, Stephen Brown, Neeraja Purandare, Sidhesh Aras, Tom Mikkelsen, Laila Poisson, Houtan Noushmehr, Douglas Ruden, Ana C deCarvalho

“…In this study, we employed an integrative multi-omics approach, including targeted proteomics, transcriptomics, genomics, and DNA methylation profiling, to investigate the response of a representative panel of GBM patient-derived cancer stem cells (CSCs) to astrocytic differentiation and RT and TMZ treatments. …”
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A review of leishmaniasis: current knowledge and future directions of heterocyclic molecules by Tejaswini Masne, Dileep Kumar, Deepali Bansode

“…It emphasizes the importance of interdisciplinary research and integrating emerging technologies, such as genomics and proteomics, to identify new drug targets and strategies for disease control. …”
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Multi-modal investigation reveals pathogenic features of diverse DDX3X missense mutations. by Federica Mosti, Mariah L Hoye, Carla F Escobar-Tomlienovich, Debra L Silver

“…Here, we integrate transcriptomics, proteomics, and live imaging to demonstrate clinically diverse DDX3X missense mutations perturb neural development via distinct cellular and molecular mechanisms. …”
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Rehabilomics Strategies Enabled by Cloud-Based Rehabilitation: Scoping Review by Sejun Oh, SangHeon Lee

“… BackgroundRehabilomics, or the integration of rehabilitation with genomics, proteomics, metabolomics, and other “-omics” fields, aims to promote personalized approaches to rehabilitation care. …”
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IGFBP2 and IGFBP4 interact to activate complement pathway in diabetic kidney disease by Jieling Liang, Yangxiao Huang, Daping Peng, Yali Xie, Yifei Liu, Xiuxia Lu, Junfa Xu

“…Overactivation of the complement pathway in DKD remains poorly understood.Methods Blood samples were collected from patients for proteomic analysis, complemented by both in vitro and in vivo experiments to investigate the roles of IGFBP2, IGFBP4, and the complement pathway in DKD.Results Elevated levels of IGFBP2 and IGFBP4 were observed in DKD patients. …”
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Cytoplasmic male sterility and prospects for its utilization in breeding, genetic studies and seed production of potato by I. N. Anisimova, T. A. Gavrilenko

“…The main results of research on molecular mechanisms of CMS and fertility restoration obtained in the post-genomic era for various plant species using methods of transcriptomic and proteomic analyses are provided. As in many plant species, cytoplasmic male sterility in potato is of hybrid origin. …”
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Effect of Dietary Cholesterol, Phytosterol, and Docosahexaenoic Acid on Astaxanthin Absorption and Retention in Rainbow Trout by Yang Jin, Keshuai Li, Jon Olav Vik, Marie Hillestad, Rolf Erik Olsen

“…On the other hand, the transcriptomic and proteomic analyses found no changes of genes or proteins involved in Ax absorption, transport, or excretion in fish fed PS or DHA diets as compared to the control diet. …”
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Scrutinizing neurodegenerative diseases: decoding the complex genetic architectures through a multi-omics lens by Relu Cocoș, Bogdan Ovidiu Popescu

“…Additionally, we emphasize the importance of multi-omics layers including genomic, transcriptomic, proteomic, epigenetic, and metabolomic data in elucidating the molecular mechanisms underlying neurodegeneration. …”
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Endothelial Progenitor Cell Migration-Enhancing Factors in the Secretome of Placental-Derived Mesenchymal Stem Cells by Witchayaporn Kamprom, Pakpoom Kheolamai, Yaowalak U-Pratya, Aungkura Supokawej, Methichit Wattanapanitch, Chuti Laowtammathron, Sittiruk Roytrakul, Surapol Issaragrisil

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Cbf11 and Mga2 function together to activate transcription of lipid metabolism genes and promote mitotic fidelity in fission yeast. by Anna Marešová, Michaela Grulyová, Miluše Hradilová, Viacheslav Zemlianski, Jarmila Princová, Martin Převorovský

“…Deletion of either gene results in a similar array of defects, including slow growth, dysregulated lipid homeostasis, impaired cell cycle progression (cut phenotype), abnormal cell morphology, perturbed transcriptomic and proteomic profiles, and compromised response to the stressors camptothecin and thiabendazole. …”
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The histone methyltransferase DOT1B is dispensable for stage differentiation and macrophage infection of Leishmania mexicana by Nicole Eisenhuth, Elisa Theres Rauh, Melina Mitnacht, Andrea Debus, Ulrike Schleicher, Falk Butter, Katerina Pruzinova, Petr Volf, Christian J. Janzen

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Gut microbiota drives colon cancer risk associated with diet: a comparative analysis of meat-based and pesco-vegetarian diets by Carlotta De Filippo, Sofia Chioccioli, Niccolò Meriggi, Antonio Dario Troise, Francesco Vitali, Mariela Mejia Monroy, Serdar Özsezen, Katia Tortora, Aurélie Balvay, Claire Maudet, Nathalie Naud, Edwin Fouché, Charline Buisson, Jacques Dupuy, Valérie Bézirard, Sylvie Chevolleau, Valérie Tondereau, Vassilia Theodorou, Claire Maslo, Perrine Aubry, Camille Etienne, Lisa Giovannelli, Vincenzo Longo, Andrea Scaloni, Duccio Cavalieri, Jildau Bouwman, Fabrice Pierre, Philippe Gérard, Françoise Guéraud, Giovanna Caderni

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