Isobaric Labeling-Based LC-MS/MS Strategy for Comprehensive Profiling of Human Pancreatic Tissue Proteome

Li, Youfu; Zhang, Qibin

doi:10.1007/7651_2017_77

Cited by 14 publications

(9 citation statements)

References 11 publications

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“…Isobaric labeling, however, has seen significant use in the study of pancreatic cancer. Zhang and colleagues 82 have provided a meaningful guide for those seeking to perform isobaric labeling experiments using the commercial TMT 36 offering from ThermoScientific. Beyond this, Perera et al 83 employed TMT labeling to study pancreatic cancer cell metabolism, revealing the MiT/TFE proteins -MITF, TFE3 and TFEB -are decoupled from regulatory mechanisms, increasing expression levels of lysosomal catabolic function essential for pancreatic ductal adenocarcinoma (PDA) growth.…”

Section: Tissue Analysesmentioning

confidence: 99%

Recent developments and applications of quantitative proteomics strategies for high-throughput biomolecular analyses in cancer research

Miles

Delafield

2021

RSC Chem. Biol.

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Section: Tissue Analysesmentioning

confidence: 99%

Recent developments and applications of quantitative proteomics strategies for high-throughput biomolecular analyses in cancer research

Miles

Delafield

2021

RSC Chem. Biol.

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“…It allows the identification and quantification of biomolecules, such as proteins, peptides, and nucleic acids. Reagents called isobaric mass labels are used; these are molecules with the same mass that, after fragmentation, generate reporter ions with different mass 61 . The most common isobaric labels are amine-reactive labels 62 .…”

Section: A Tandem Mass Tag (Tmt) Is a Technique That Employs A Chemical Label To Facilitate The Multiplexing Of Samples Through Mass Specmentioning

confidence: 99%

The Proteomics and Fibromyalgia: A Perspective on the Study of the Inflammatory Response in Fibromyalgia

Maldonado-García

Vega-Ramírez

Pérez‐Sánchez

et al. 2021

MRAJ

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Fibromyalgia (FM) is a chronic, non-degenerative disease characterized by widespread and sustained pain, sleep disturbances, physical exhaustion, and cognitive difficulties. The FM pathophysiology has not been completely clarified, and several theories have been postulated, among which is the dysregulation of the inflammatory response as a mediator of the painful phenomenon. In addition, it has been reported that FM patients present a rise of IL-6 and IL-8 serum levels; this fact has clinical relevance since these inflammatory molecules induce symptoms such as pain, fatigue, hyperalgesia, and allodynia. Additionally, some studies have been carried out on the participation of leukocytes in the physiopathology of fibromyalgia; The evidence suggests that mast cells are the most relevant leukocytes in the pathophysiology of FM since they promote the release of pro-inflammatory cytokines in response to stimuli such as substance P or corticotropin-releasing hormone, which were elevated in patients. The number of FM patients is increasing year after year around the world. For this reason, it is essential to study the proteins involved in the inflammatory response in fibromyalgia. Proteomic analysis techniques such as tandem mass tag (TMT) with isobaric labeling offer a hope to find biological markers that allow the study simultaneously the participation of multiple inflammatory proteins in FM patients, allowing the identification of biomarkers. Thus, the use of isobaric tagging will allow shortly to expand the knowledge of pathophysiology in fibromyalgia, helping to identify biomarkers to improve the diagnosis of the FM disease and increase the quality of life of patients and their families.

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“…Protein extraction and trypsin digestion with some changes were based on previously published methods [57]. Nine WT zebrafish and nine elovl6 −/− zebrafish (each kind of zebrafish three to a biologic sample) were randomly selected and their livers were taken for analysis.…”

Section: Protein Extraction and Trypsin Digestionmentioning

confidence: 99%

Quantitative Phosphoproteomic Analysis Reveals the Regulatory Networks of Elovl6 on Lipid and Glucose Metabolism in Zebrafish

Wang

Sun

Cao

et al. 2020

IJMS

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Elongation of very long-chain fatty acids protein 6 (Elovl6) has been reported to be associated with clinical treatments of a variety of metabolic diseases. However, there is no systematic and comprehensive study to reveal the regulatory role of Elovl6 in mRNA, protein and phosphorylation levels. We established the first knock-out (KO), elovl6−/−, in zebrafish. Compared with wild type (WT) zebrafish, KO presented significant higher whole-body lipid content and lower content of fasting blood glucose. We utilized RNA-Seq, tandem mass tag (TMT) labeling-based quantitative technology and liquid chromatography-tandem mass spectrometry (LC-MS/MS) to perform the transcriptomic, proteomic and phosphoproteomic analyses of livers from WT and elovl6−/− zebrafish. There were 734 differentially expressed genes (DEG) and 559 differentially expressed proteins (DEP) between elovl6−/− and WT zebrafish, identified out of quantifiable 47251 transcripts and 5525 proteins. Meanwhile, 680 differentially expressed phosphoproteins (DEPP) with 1054 sites were found out of quantifiable 1230 proteins with 3604 sites. Gene ontology (GO) and kyoto encyclopedia of genes and genomes (KEGG) analysis of the transcriptomic and proteomic data further suggested that the abnormal lipid metabolism and glucose metabolism in KO were mainly related to fatty acid degradation and biosynthesis, glycolysis/gluconeogenesis and PPAR signaling pathway. Based on phosphoproteomic analyses, some kinases critical for lipid metabolism and glucose metabolism, including ribosomal protein S6 kinase (Rps6kb), mitogen-activated protein kinase14 (Mapk14) and V-akt murine thymoma viral oncogene homolog 2-like (Akt2l), were identified. These results allowed us to catch on the regulatory networks of elovl6 on lipid and glucose metabolism in zebrafish. To our knowledge, this is the first multi-omic study of zebrafish lacking elovl6, which provides strong datasets to better understand many lipid/glucose metabolic risks posed to human health.

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Isobaric Labeling-Based LC-MS/MS Strategy for Comprehensive Profiling of Human Pancreatic Tissue Proteome

Cited by 14 publications

References 11 publications

Recent developments and applications of quantitative proteomics strategies for high-throughput biomolecular analyses in cancer research

Recent developments and applications of quantitative proteomics strategies for high-throughput biomolecular analyses in cancer research

The Proteomics and Fibromyalgia: A Perspective on the Study of the Inflammatory Response in Fibromyalgia

Quantitative Phosphoproteomic Analysis Reveals the Regulatory Networks of Elovl6 on Lipid and Glucose Metabolism in Zebrafish

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