Comparative proteome analysis of saccular intracranial aneurysms with iTRAQ quantitative proteomics

Jia, Wang; Yu, Lanbing; Huang, Xiahe; Wang, Yingchun; Zhao, Jizong

doi:10.1016/j.jprot.2015.09.014

Cited by 20 publications

(14 citation statements)

References 28 publications

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“…Down regulated expression of this protein demonstrates impaired division and growth of cells. Downregulated expression of proteins laminin subunit beta-2 (LAMB2) and α-actinin-1 (ACTN1) was observed in a recent study on IA (Wang et al, 2016). Further, we found proteins such as Nidogen 1 (NID1), Cadherin 2 (CDH2) and Multimerin 2 (MMRN-2) to be downregulated in serum samples.…”

Section: Discussionsupporting

confidence: 60%

“…Over the past decade, MS based quantitative proteomics has emerged as the method of choice to identify molecular signatures of disease and to optimize their management. In succession to the same, a number of studies following MS based analysis from literature have provided new subset of protein biomarkers with possible therapeutic targets for IA (Jiang et al, 2018, Wang et al, 2015, Wang et al, 2016, Xu et al, 2015. Presently, there is no molecular study to our knowledge, depicting the differential expression of the proteins between three subgroups of patients with IA.…”

Section: Discussionmentioning

confidence: 99%

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Proteome-wide characterization and biomarker identification of intracranial aneurysm

Sharma

Datta

Kumar

et al. 2019

Preprint

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The scientific basis of intracranial aneurysm (IA) formation, its rupture and further development of cerebral vasospasm remains incompletely understood. Deciphering the molecular mechanisms underlying these events will lead to identification of early detection biomarkers and in turn, improved treatment outcomes. Aberrant protein expression may drive structural alterations of vasculature found in IA. To unravel these aberrations, we performed untargeted, global, quantitative proteomic analysis of aneurysm tissue and serum from patients with IA. Samples were derived from patients of three clinical sub groups-1) unruptured aneurysm 2) ruptured aneurysm without vasospasm 3) ruptured aneurysm who developed vasospasm. A total of 937 and 294 proteins were identified in aneurysm tissue and serum samples respectively. Several proteins that are known to maintain the structural integrity of vasculature were found to be dysregulated. ORM1, a glycoprotein, was significantly upregulated in both the aneurysm tissue and serum samples of unruptured IA patients. We employed a larger cohort of patients and validated ORM1 as a potential biomarker for screening of unruptured aneurysm using ELISA. Samples from ruptured aneurysm with vasospasm showed significant upregulation of MMP9 as compared to ruptured aneurysm without vasospasm. Using a cohort of ruptured aneurysm patients with and without vasospasm, we validated MMP9 as a potential biomarker for vasospasm. This study reveals pathophysiology underlying different clinical sub groups of IA and also suggests potential biomarkers.

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Section: Discussionsupporting

confidence: 60%

Section: Discussionmentioning

confidence: 99%

Proteome-wide characterization and biomarker identification of intracranial aneurysm

Sharma

Datta

Kumar

et al. 2019

Preprint

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“…Proteomic approaches provide valuable tools for monitoring developmental profiles directly at the protein level and therefore have been widely used [12–14]; approaches include two dimensional gel electrophoresis (2-DE), differential in gel electrophoresis (DIGE), tag-based labeling of proteins (isotope-coded affinity tags (ICAT)), stable isotope labeling with amino acids in cell culture (SILAC), isobaric tags for relative and absolute quantification (iTRAQ), protein-protein interaction, and protein modifications [15]. iTRAQ is a powerful technology that allows identification of numerous proteins between different samples [13]. Furthermore, if iTRAQ returns a sufficient number of differentially expressed proteins (DEPs), pathway and protein-protein interaction analyses can be conducted [13,14,16].…”

Section: Introductionmentioning

confidence: 99%

“…iTRAQ is a powerful technology that allows identification of numerous proteins between different samples [13]. Furthermore, if iTRAQ returns a sufficient number of differentially expressed proteins (DEPs), pathway and protein-protein interaction analyses can be conducted [13,14,16]. …”

Section: Introductionmentioning

confidence: 99%

Comparative proteomic analysis of eggplant (Solanum melongena L.) heterostylous pistil development

Wang

Liu

et al. 2017

PLoS ONE

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Heterostyly is a common floral polymorphism, but the proteomic basis of this trait is still largely unexplored. In this study, self- and cross-pollination of L-morph and S-morph flowers and comparison of embryo sac development in eggplant (Solanum melongena L.) suggested that lower fruit set from S-morph flowers results from stigma-pollen incompatibility. To explore the molecular mechanism underlying heterostyly development, we conducted isobaric tags for relative and absolute quantification (iTRAQ) proteomic analysis of eggplant pistils for L- and S-morph flowers. A total of 5,259 distinct proteins were identified during heterostyly development. Compared S-morph flowers with L-morph, we discovered 57 and 184 differentially expressed proteins (DEPs) during flower development and maturity, respectively. Quantitative real time polymerase chain reactions were used for nine genes to verify DEPs from the iTRAQ approach. During flower development, DEPs were mainly involved in morphogenesis, biosynthetic processes, and metabolic pathways. At flower maturity, DEPs primarily participated in biosynthetic processes, metabolic pathways, and the formation of ribosomes and proteasomes. Additionally, some proteins associated with senescence and programmed cell death were found to be upregulated in S-morph pistils, which may lead to the lower fruit set in S-morph flowers. Although the exact roles of these related proteins are not yet known, this was the first attempt to use an iTRAQ approach to analyze proteomes of heterostylous eggplant flowers, and these results will provide insights into biochemical events taking place during the development of heterostyly.

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“…We expanded the study at translational level in order to explore the activity and mechanism of glucose metabolism-related physiological process of LR. In this study, the protein expression profile was examined which is related to rat LR using isotopically labeled tags for relative and absolute quantification (iTRAQ) combined with mass spectrometry (MS) [13–17]. And we analyzed the likely transcription factor which is likely regulating the carbohydrate metabolism and built the network.…”

Section: Introductionmentioning

confidence: 99%

Expressions Profiles of the Proteins Associated with Carbohydrate Metabolism in Rat Liver Regeneration

Chang

2017

BioMed Research International

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Liver has a very amazing ability to regenerate from the remnant liver after injury or partial hepatectomy (PH). Carbohydrate metabolism plays a critical role in regeneration. Many signaling pathways are involved in the metabolism process. We analyzed the changes of proteins at 0–36 h after PH in rats using isobaric tags for relative and absolute quantitation (iTRAQ) coupled with LC-MS/MS-based quantitative proteomics strategy. The results showed that 110 proteins and 5 signaling pathways related to carbohydrate metabolism in rat LR changed significantly. Based on a motif discovery method performed by iRegulon, we identified for the first time that the transcription factor SPIB whose motif was enriched among the differentiated genes associated with carbohydrate metabolism may play an important role in liver regeneration for the first time. The findings of this research provide a molecular basis for further unrevealing the mechanism of regeneration at priming stage (0–6 h) and proliferation stage (6–36 h) of LR in rats. At the same time, our studies provide more novel evidence for the signaling pathways which regulate carbohydrate metabolism from proteomics level. This study can provide some new thinking of liver regeneration and treatment of diseases associated with glucose metabolism.

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Comparative proteome analysis of saccular intracranial aneurysms with iTRAQ quantitative proteomics

Cited by 20 publications

References 28 publications

Proteome-wide characterization and biomarker identification of intracranial aneurysm

Proteome-wide characterization and biomarker identification of intracranial aneurysm

Comparative proteomic analysis of eggplant (Solanum melongena L.) heterostylous pistil development

Expressions Profiles of the Proteins Associated with Carbohydrate Metabolism in Rat Liver Regeneration

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