Plasma brain-related biomarkers and potential therapeutic targets in pediatric ECMO by Sue J. Hong, Bradley J. De Souza, Kristen K. Penberthy, Lisa Hwang, David E. Procaccini, John N. Kheir, Melania M. Bembea

“…Higher concentrations of pro-inflammatory cytokines (IL-1β, IL-6, IFN-γ, TNF-α) are associated with abnormal neuroimaging, and proteomic expression panels reveal different coagulation and inflammatory responses. …”
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Evaluation of the cross-immunity between Mycobacterium tuberculosis and Mycobacterium abscessus in vitro by Da Xu, Yujie Gu, Guilian Li, Ruihuan Wang, Shiqi Xiao, Hongyang Duan, Jingwei Jiang, Xiuqin Zhao, Kanglin Wan, Xinyue He, Haican Liu, Yongliang Lou

“…After the final immunization, cross-immune antigens were analysed via genomic comparison and Mycobacterium tuberculosis proteome microarrays. BALB/c mice splenic lymphocytes were stimulated with TB-PPD to assess the cross-immunity of the cellular immune response. …”
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Insight into the role of antioxidant in microbial lignin degradation: Ascorbic acid as a fortifier of lignin-degrading enzymes by Aipeng Li, Weimin Wang, Shuqi Guo, Changzhi Li, Xinying Wang, Qiang Fei

“…Furthermore, the addition of AA led to a reduction in the molecular weights of lignin and an increase in the content of degradation products with lower molecular weight, indicating more thorough degradation of lignin. Proteomics analysis suggested that the enhancement in enzyme activity was more likely to attributed to the reinforcement of AA on oxidative protein folding and transportation, rather than changes in enzyme expression. …”
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Comprehensive analysis of the succinylome in Vero cells infected with peste des petits ruminants virus Nigeria 75/1 vaccine strain by Xuelian Meng, Xueliang Zhu, Xiangwei Wang, Rui Zhang, Zhidong Zhang, Yuefeng Sun

“…Results In this study, a global profile of the succinylome in Vero cells infected with PPRV Nigeria 75/1 vaccine strain (PPRVvac) was performed by dimethylation labeling-based quantitative proteomics analysis. A total of 2633 succinylation sites derived from 823 proteins were quantified. …”
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Unraveling the pathogenesis of Barrett’s esophagus and esophageal adenocarcinoma: the “omics” era by Alberto Barchi, Giuseppe Dell’Anna, Giuseppe Dell’Anna, Luca Massimino, Luca Massimino, Francesco Vito Mandarino, Edoardo Vespa, Edi Viale, Sandro Passaretti, Vito Annese, Vito Annese, Alberto Malesci, Alberto Malesci, Silvio Danese, Silvio Danese, Federica Ungaro

“…The implementation of transcriptomic and proteomic analysis, even at the single-cell level, has widened the horizons, complementing the genomic alterations with their transcriptional and translational bond. …”
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Viable but nonculturable state in the zoonotic pathogen Bartonella henselae induced by low-grade fever temperature and antibiotic treatment by Yuze Gou, Yuze Gou, Dongxia Liu, Dongxia Liu, Yuxian Xin, Yuxian Xin, Ting Wang, Jiaxin Li, Yiwen Xi, Xiaoling Zheng, Tuanjie Che, Ying Zhang, Ying Zhang, Tingting Li, Jie Feng, Jie Feng

“…Notably, VBNC cells demonstrated greater drug tolerance than cells in the stationary phase, which encompassed a substantial portion of persisters. Proteomic analysis revealed the up-regulation of proteins linked to host cell invasion and stress resistance, while proteins related to signaling and cellular processes were down-regulated. …”
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Predictive, preventive and personalized project of vascular cognitive impairment in China (P3): Study design and interim baseline patient characteristics of a Nationwide multicente... by Linlin Wang, Jiwei Jiang, Yanli Wang, Gaifen Liu, Wenyi Li, Qiwei Ren, Shirui Jiang, Min Zhao, Huiying Zhang, Tianlin Jiang, Shiyi Yang, Mei Cui, Qiang Dong, Jun Xu

“…Through multidimensional analysis of clinical information, radiomics, proteomics, metabolomics, microbiomics, and genetics, provide a more comprehensive understanding of VCI trajectories and individual variability, enhancing early detection and prognosis management.…”
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AKT1-Mediated NOTCH1 phosphorylation promotes gastric cancer progression via targeted regulation of IRS-1 transcription by Lingshan Zhou, Yuan Yang, Qian Qiao, Yingying Mi, Yuling Gan, Ya Zheng, Yuping Wang, Min Liu, Yongning Zhou

“…Methods The study utilized databases such as PhosphositePlus, TRANSFAC, CHEA, GPS 5.0, and TCGA, along with experimental techniques including Western Blot, co-IP, in vitro kinase assay, construction of lentiviral overexpression and silencing vectors, immunoprecipitation, modified proteomics, immunofluorescence, ChIP-PCR, EdU assay, Transwell assay, and scratch assay to investigate the effects of AKT1-induced Notch1 phosphorylation on cell proliferation, invasion and migration in vitro, as well as growth and epithelial-mesenchymal transition (EMT) in vivo. …”
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A cohort-based multi-omics identifies nuclear translocation of eIF5B /PD-L1/CD44 complex as the target to overcome Osimertinib resistance of ARID1A-deficient lung adenocarcinoma by Dantong Sun, Helei Hou, Feiyue Feng, Weizheng Wu, Jingyu Tan, Tongji Xie, Jiayu Liu, Jinsong Wang, Haili Qian, Junling Li, Puyuan Xing

“…Methods Spatial transcriptomic and proteomic analyses were utilized to investigate the mechanisms of Osimertinib resistance. …”
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The Synthesis, Crystal Structure, Modification, and Cytotoxic Activity of α-Hydroxy-Alkylphosphonates by Zsuzsanna Szalai, Anna Sára Kis, Angéla Takács, László Kőhidai, Konstantin Karaghiosoff, Mátyás Czugler, László Drahos, György Keglevich

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A graph neural network approach for hierarchical mapping of breast cancer protein communities by Xiao Zhang, Qian Liu

“…Results Using a large amount of publicly available proteomics data, we created a hierarchical tree for breast cancer protein communities using a novel hierarchical graph neural network, with the supervision of gene ontology terms and assistance of a pre-trained deep contextual language model. …”
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Sensory Diet Program Through In-Person and Tele-Occupationa Therapy in Children with Autism Spectrum Disorder: A Single-Blind Randomized Controlled Trial by Simin Dehghani, Marzieh Pashmdarfard, Zahra Pashazadeh Azari, Alireza Akbarzadeh Baghban, Sima Dehghani, Navid Mirzakhani Araghi

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Identifying MTHFD1 and LGALS4 as Potential Therapeutic Targets in Prostate Cancer Through Multi-Omics Mendelian Randomization Analysis by Huan Han, Hanwen Su, Zhihua Lv, Chengliang Zhu, Jingtao Huang

“…<b>Methods:</b> We integrated eQTL data from the eQTLGen Consortium and pQTL data from UK Biobank Proteome Plasma Proteins (UKB-PPP) and deCODE health datasets. …”
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Circulating CD3+HLA-DR+ Extracellular Vesicles as a Marker for Th1/Tc1-Type Immune Responses by Ryutaro Oba, Motomichi Isomura, Akira Igarashi, Kinya Nagata

“…To establish T cell subset-specific biomarkers, we performed proteomic analysis with Th1- and Th2-derived EVs and identified HLA-DR as a Th1-dominated EV membrane protein. …”
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Analysis of Bacterial Diversity in Different Heavy Oil Wells of a Reservoir in South Oman with Alkaline pH by Biji Shibulal, Saif N. Al-Bahry, Yahya M. Al-Wahaibi, Abdulkadir E. Elshafie, Ali S. Al-Bemani, Sanket J. Joshi

“…Molecular approaches like proteomic and genomic characterization of the isolates are replacing the traditional method of identification with systemic classification. …”
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Innovative applications and future trends of multiparametric PET in the assessment of immunotherapy efficacy by Tingting Qiao, Tingting Qiao, Zhaoping Cheng, Yanhua Duan

“…The integration of multi-omics data (including genomics and proteomics) with PET imaging enhanced the sensitivity and accuracy of efficacy prediction. …”
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Addressing genome scale design tradeoffs in Pseudomonas putida for bioconversion of an aromatic carbon source by Deepanwita Banerjee, Javier Menasalvas, Yan Chen, Jennifer W. Gin, Edward E. K. Baidoo, Christopher J. Petzold, Thomas Eng, Aindrila Mukhopadhyay

“…In this study glutamine is then converted to indigoidine, an alternative sustainable pigment and a model heterologous product that is commonly used to colorimetrically quantify glutamine concentration. Through proteomics, promoter-variation, and growth characterization of a fully implemented gene deletion design, we provide evidence that aromatic catabolism in the completed design is rate-limited by fumarase hydratase (FUM) enzyme activity in the citrate cycle and requires careful optimization of another fumarate hydratase protein (PP_0897) expression to achieve growth and production. …”
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Regulation of interferon alpha production by the MAGUK-family protein CASK under H5N1 infection by Jing-Ying Huang, Jing-Ying Huang, Pei-Shan Sung, Shie-Liang Hsieh, Shie-Liang Hsieh, Shie-Liang Hsieh, Shie-Liang Hsieh

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Upregulated GSDMB in Clear Cell Renal Cell Carcinoma Is Associated with Immune Infiltrates and Poor Prognosis by Yuanshan Cui, Zhongbao Zhou, Yumeng Chai, Yong Zhang

“…The Human Protein Atlas and the Clinical Proteomic Tumor Analysis Consortium (CPTAC) were used to assess the protein expression of GSDMB. …”
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Prioritization of potato genes involved in the formation of agronomically valuable traits using the SOLANUM TUBEROSUM knowledge base by P. S. Demenkov, O. V. Saik, T. V. Ivanisenko, N. A. Kolchanov, A. V. Kochetov, V. A. Ivanisenko

“…The development of highly efficient technologies in genomics, transcriptomics, proteomics and metabolomics, as well as new technologies in agriculture has led to an “information explosion” in plant biology and crop production, including potato production. …”
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