Application of Metabolomics in Thyroid Cancer Research by Anna Wojakowska, Mykola Chekan, Piotr Widlak, Monika Pietrowska

“…Beside genomics, transcriptomics, and proteomics, metabolomic approach emerges as the most downstream attitude reflecting phenotypic changes and alterations in pathophysiological states of biological systems. …”
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High Throughput Approaches to Unravel the Mechanism of Action of a New Vanadium-Based Compound against Trypanosoma cruzi by M. Florencia Mosquillo, Pablo Smircich, Analía Lima, Sergio A. Gehrke, Gonzalo Scalese, Ignacio Machado, Dinorah Gambino, Beatriz Garat, Leticia Pérez-Díaz

“…Concordantly, no drastic changes of the parasite transcriptome were detected after 6 h of treatment. Instead, proteomic analysis uncovered the modulation of proteins involved in different processes such as energy and redox metabolism, transport systems, detoxifying pathways, ribosomal protein synthesis, and proteasome protein degradation. …”
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Antibody Responses and the Vaccine Efficacy of Recombinant Glycosyltransferase and Nicastrin Against <i>Schistosoma japonicum</i> by Bowen Dong, Haoran Zhong, Danlin Zhu, Luobin Wu, Jinming Wang, Hao Li, Yamei Jin

“…While praziquantel remains the primary treatment, concerns about drug resistance highlight the urgent need for new drugs and effective vaccines to achieve sustainable control. Previous proteomic studies from our group revealed that the expression of <i>Schistosoma japonicum</i> glycosyltransferase and nicastrin as proteins was higher in single-sex males than mated males, suggesting their critical roles in parasite reproduction and their potential as vaccine candidates. …”
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Protein Glycation in Diabetes as Determined by Mass Spectrometry by Annunziata Lapolla, Laura Molin, Pietro Traldi

“…The development of mass spectrometric techniques able to give highly specific and reliable results in proteome field is of wide interest for physicians, giving them new tools to monitor the disease progression and the possible complications related to diabetes, as well as the effectiveness of therapeutic treatments. …”
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Spatial tumor immune heterogeneity facilitates subtype co-existence and therapy response in pancreatic cancer by Lukas Klein, Mengyu Tu, Niklas Krebs, Laura Urbach, Daniela Grimm, Muhammad Umair Latif, Frederike Penz, Anna Blandau, Xueyan Wu, Rebecca Diya Samuel, Stefan Küffer, Florian Wegwitz, Nathan Chan, Kazeera Aliar, Foram Vyas, Uday Kishore, Elisabeth Hessmann, Andreas Trumpp, Elisa Espinet, Argyris Papantonis, Rama Khokha, Volker Ellenrieder, Barbara T. Grünwald, Shiv K. Singh

“…Here, by combining preclinical models, multi-center clinical, transcriptomic, proteomic, and patient bioimaging data, we identify an interplay between neoplastic intrinsic AP1 transcription factor dichotomy and extrinsic macrophages driving subtype co-existence and an immunosuppressive microenvironment. …”
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Zika virus modulates human fibroblasts to enhance transmission success in a controlled lab-setting by Raimondas Mozūraitis, Karsten Cirksena, Mohammad Raftari, Melika Hajkazemian, Musa Mustapha Abiodun, Juela Brahimi, Sandra Radžiutė, Violeta Apšegaitė, Rasa Bernotienė, Lech Ignatowicz, Tessy Hick, Andreas Kirschning, Annasara Lenman, Gisa Gerold, S. Noushin Emami

“…The findings are complemented by an extensive meta-proteome analysis. Overall, we demonstrate a multifaceted role of virus-host interaction and shed light on how arboviruses may influence the behaviour of their vectors as an evolved means of improving transmission-success.…”
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Cross-trait multivariate GWAS confirms health implications of pubertal timing by Siquan Zhou, Yujie Xu, Jingyuan Xiong, Guo Cheng

“…We find 266 independent variants in 197 loci, including 18 novel variants. Transcriptomic, proteome imputation and fine-mapping analyses reveal genes causal for pubertal timing, including KDM4C, LEPR, CCNC, ACP1, and PCSK1. …”
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Isolation of Viral Biofilms From HTLV-1 Chronically Infected T Cells and Integrity Analysis by Coline Arone, Hélène Dutartre, Delphine Muriaux

“…In this study, we optimized a protocol to isolate HTLV-1 biofilms from chronically infected T cells, facilitating their structural and molecular characterization using proteomic and super-resolution microscopy analyses. …”
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Lipopolysaccharide affects metabolic processes and energy homeostasis in the corpus luteum by Karol Mierzejewski, Robert Stryiński, Iwona Bogacka, Monika Golubska, Mónica Carrera, Aleksandra Kurzynska

“…Understanding the intricate interplay between inflammatory processes and reproductive organ’s function is crucial for the development of effective therapeutic strategies to alleviate reproductive disorders and improve fertility.MethodsThe aim of this study was to determine the in vitro effects of lipopolysaccharide (LPS) on the proteomic profile of the porcine CL in the mid-luteal phase of the estrous cycle using LC-MS/MS analysis. …”
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Integrative multi-omics analysis reveals the translational landscape of the plant-parasitic nematode Meloidogyne incognita by Zhaolu Zhu, Dexin Bo, Chuanshuai Xie, Dadong Dai, Donghai Peng, Ming Sun, Jinshui Zheng

“…In this study, we elucidated the translational landscape of Meloidogyne incognita through the integration of translatome, transcriptome and quantitative proteome analyses. Our findings revealed numerous previously unannotated translation events and refined the genome annotation. …”
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An Innovative Method to Identify Autoantigens Expressed on the Endothelial Cell Surface: Serological Identification System for Autoantigens Using a Retroviral Vector and Flow Cytom... by Tsuyoshi Shirai, Hiroshi Fujii, Masao Ono, Ryu Watanabe, Tomonori Ishii, Hideo Harigae

“…For identification of autoantigens, proteomics and expression library analyses have been performed for many years with some success. …”
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Sex-specific response of intramuscular fat to diet-induced obesity in rats by Hannah E. Smith, Nada Abughazaleh, Ruth A. Seerattan, Faizan Syed, Daniel Young, Antoine Dufour, David A. Hart, Raylene A. Reimer, Walter Herzog

“…Using a combination of histological staining techniques, quantitative proteomics, and measures of metabolic syndrome and inflammation, it was determined that the diet-induced obesity model in female Sprague-Dawley rats is a viable model with pronounced effects on the musculoskeletal system. …”
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Localized molecular chaperone synthesis maintains neuronal dendrite proteostasis by Célia Alecki, Javeria Rizwan, Phuong Le, Suleima Jacob-Tomas, Mario Fernandez Comaduran, Morgane Verbrugghe, Jia Ming Stella Xu, Sandra Minotti, James Lynch, Jeetayu Biswas, Tad Wu, Heather D. Durham, Gene W. Yeo, Maria Vera

“…However, this is challenging in neuronal projections because of their polarized morphology and constant synaptic proteome remodeling. Using high-resolution fluorescence microscopy, we discover that hippocampal and spinal cord motor neurons of mouse and human origin localize a subset of chaperone mRNAs to their dendrites and use microtubule-based transport to increase this asymmetric localization following proteotoxic stress. …”
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Characterizing the Contaminant-Adhesion of a Dibenzofuran Degrader <i>Rhodococcus</i> sp. by Yu Chen, Qingquan Wei, Xudi Wang, Yanan Wu, Changai Fu, Xu Wang, Hangzhou Xu, Li Li

“…Compared with sodium acetate as a carbon source, the percentages of glucose and proteins related to electron transfer, toxin–antitoxin, and stress responses were elevated, which were analyzed by polysaccharide composition and proteomics, and the contents of extracellular polysaccharides and proteins were increased. …”
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Evidence for Activation of Toll-Like Receptor and Receptor for Advanced Glycation End Products in Preterm Birth by Taketoshi Noguchi, Toshiyuki Sado, Katsuhiko Naruse, Hiroshi Shigetomi, Akira Onogi, Shoji Haruta, Ryuji Kawaguchi, Akira Nagai, Yasuhito Tanase, Shozo Yoshida, Takashi Kitanaka, Hidekazu Oi, Hiroshi Kobayashi

“…A systematic search was performed in the electronic databases PubMed and ScienceDirect up to July 2010, combining the keywords “preterm birth,” “TLR”, “RAGE”, “danger signal”, “alarmin”, “genomewide,” “microarray,” and “proteomics” with specific expression profiles of genes and proteins. …”
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APMAT analysis reveals the association between CD8 T cell receptors, cognate antigen, and T cell phenotype and persistence by Jingyi Xie, Daniel G. Chen, William Chour, Rachel H. Ng, Rongyu Zhang, Dan Yuan, Jongchan Choi, Michaela McKasson, Pamela Troisch, Brett Smith, Lesley Jones, Andrew Webster, Yusuf Rasheed, Sarah Li, Rick Edmark, Sunga Hong, Kim M. Murray, Jennifer K. Logue, Nicholas M. Franko, Christopher G. Lausted, Brian Piening, Heather Algren, Julie Wallick, Andrew T. Magis, Kino Watanabe, Phil Mease, Philip D. Greenberg, Helen Chu, Jason D. Goldman, Yapeng Su, James R. Heath

“…Starting with 951 putative antigens representing a comprehensive survey of the SARS-CoV-2 viral proteome, we utilize APMAT for the capture and single cell analysis of CD8 T cells from 62 HLA A*02:01 COVID-19 participants. …”
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Downregulation of S100 Calcium Binding Protein A9 in Esophageal Squamous Cell Carcinoma by Harsh Pawar, Srinivas M. Srikanth, Manoj Kumar Kashyap, Gajanan Sathe, Sandip Chavan, Mukul Singal, H. C. Manju, Kariyanakatte Veeraiah Veerendra Kumar, M. Vijayakumar, Ravi Sirdeshmukh, Akhilesh Pandey, T. S. Keshava Prasad, Harsha Gowda, Rekha V. Kumar

“…We had previously employed a quantitative proteomic approach to identify differentially expressed proteins in ESCC tumors. …”
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Characterization of the Protective HIV-1 CTL Epitopes and the Corresponding HLA Class I Alleles: A Step towards Designing CTL Based HIV-1 Vaccine by Sajib Chakraborty, Taibur Rahman, Rajib Chakravorty

“…High mutation rate in the viral genome underlying the antigenic variability of the viral proteome is the major hindrance as far as the antibody based vaccine development is concerned. …”
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Molecular Basis of GABA Hypofunction in Adolescent Schizophrenia-Like Animals by Xiaodan Wang, Ying Hu, Wenxin Liu, Yuanyuan Ma, Xi Chen, Ting Xue, Donghong Cui

“…Slice recording showed reduced GABA transmission and PVI+ hypofunction, indicating GABAergic hypofunction. Cortical proteomic evaluation combined with analysis of single cell data from the Allen Brain showed that various metabolic processes were enriched in top ranks and differentially altered in excitatory neurons, GABAergic interneurons, and glial cells. …”
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Profiling protease cleavage patterns in plasma for pancreatic cancer detection by Morgan R. Stewart, Arnaud Quentel, Elise Manalo, Jose Montoya Mira, Srivathsan Ranganathan, Bruce P. Branchaud, Jared M. Fischer, Eugene Tu, Fehmi Civitci, Yu-Jui Chiu, Adem Yildirim

“…However, the complexity of the human proteome makes it challenging to develop sensitive and selective tests against a specific protease biomarker. …”
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