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DIA-Based Quantitative Proteomics Analysis of Human Gastric Cancer Cells

ABSTRACT: This study investigates the proteomic landscape of AGS gastric cancer cells with stable overexpression of the VASN gene. Utilizing DIA-based quantitative proteomics, we examined protein expression changes in VASN-overexpressing AGS cells compared to their negative control (NC) counterparts. The resulting dataset offers valuable insights into the molecular mechanisms underlying VASN overexpression in gastric cancer.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Epithelial Cell, Cell Culture

SUBMITTER: Chao Peng

LAB HEAD: Yong Xie

PROVIDER: PXD058610 | Pride | 2026-06-29

REPOSITORIES: Pride

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			Action	DRS
	20210127_120732_Dl14ZRL.sne	Other
	Dl14ZRL_ANC_1.raw	Raw
	Dl14ZRL_ANC_2.raw	Raw
	Dl14ZRL_ANC_3.raw	Raw
	Dl14ZRL_AOE_1.raw	Raw

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Publications

VASN drives gastric tumorigenesis via activation of the COL4A1/PI3K/AKT axis during Helicobacter pylori infection.

Zhao Rulin R Xie Jun J Chen Hao H Gong Xiaomin X Peng Chao C Xie Jinliang J Peng Jianxiang J Qiu Jiayu J Wu Chengyun C Liu Dingwei D Ding Wenjie W Wu Xidong X Chen Sihai S Gong Xiaoling X Wang Huan H Rong Jianfang J Liu Jianping J Xie Yong Y

British journal of cancer 20250623 4

<h4>Background</h4>Vasorin (VASN) is linked to tumor progression in various cancers, its role and regulatory mechanisms in gastric cancer (GC) are still unknown.<h4>Methods</h4>Human gastric mucosal samples, VASN heterozygous-deficient (VASN<sup>+/-</sup>) C57BL/6 mice, and gastric cell lines with VASN knockdown and overexpression were used to study VASN's role in GC. A combination of in vitro and in vivo models, RNA sequencing (RNA-seq), proteomics, bioinformatics, and various assays revealed V ...[more]

PMID: 40550854

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Proteomic and metabolomic studies of transplanted gastric epithelial cell mitochondria in reducing gastric cancer cell malignancy

Project description:Mitochondria exhibit diverse effects on cellular responses. Mitochondrial transplantation from gastric epithelial cells GES-1 to gastric cancer cells AGS reduces cancer malignancy was previously reported. We employed proteomic and metabolomic analyses to elucidate underlying mechanisms. iTRAQ/TMT-based proteomics identified 257 upregulated and 34 downregulated proteins, with Ingenuity pathway analysis revealing regulation of 14 signaling pathways. The upregulation of p53, Bax, p-AktS473, p-mTORS2448 and the down-regulation of Sirt 3, p-NRF2S40, and HO-1 were further verified by western blotting. Metabolomic profiling detected 3 upregulated and 8 down-regulated metabolites implicated in glycolysis, TCA cycle, pentose phosphate pathway (PPP), and ATP production. Further investigation showed that decreased extracellular lactate correlating with enhanced MCT1 expression (lactate importer), reduced MCT4 expression (lactate exporter), and increased LDHB expression (lactate to-pyruvate conversion). With the finding that transplanted with GES-1 mitochondria and induced accumulation of pyruvate, the AGS was solely treated with pyruvate and the result showed a cell migration of AGS was retarded. Additionally, isocitrate accumulation preceded decreased α-ketoglutarate, malate, ATP, and NADH levels. In conclusion, integrated proteomic and metabolomic analyses revealed that transplanted GES-1 mitochondria attenuate AGS gastric cancer malignancy through stagnation of glycolysis and the TCA cycle progression, highlighting potential targets for mitochondrial-based therapies.

2026-05-18 | PXD061705 | Pride

Identification of indisulam-mediated DCAF15 interacting proteins by TurboID and shotgun proteomics

Project description:In this project, we used proximity labeling with TurboID to identify proteins that interact with DCAF15 in the presence of indisulam in a gastric cancer AGS cell line.

2021-08-26 | PXD024168 | Pride

AGS-RACK1

Project description:MicroRNA microarray profiling analysis was performed on human gastric cancer AGS cells after RACK1 silenced or not

2016-03-01 | E-MTAB-2619 | biostudies-arrayexpress

Gastric cancer_iTRAQ - Integrating transcriptomics and proteomics to show that tanshinone IIA suppresses cell growth by blocking glucose metabolism in gastric cancer cells

Project description:Using quantitative proteomics-isobaric tags for relative and absolute quantification (iTRAQ), we characterize the mechanism of TIIA regulation in gastric cancer cell line AGS.

2016-07-08 | PXD000998 | Pride

MicroRNA profiling of human AGS gastric cancer cell line was treated with the selective COX-2 inhibitor celecoxib

Project description:AGS gastric cancer cell line was treated with the selective COX-2 inhibitor celecoxib. microRNA expression profile was analyzed between untreated cells and cells treated with celecoxib.

2009-07-11 | E-MEXP-2231 | biostudies-arrayexpress

mRNA profiling of AGS Gastric Cancer cell line treated with the Homeopathy formulation, Ornithogalum

Project description:Ornithogalum is one of the therapeutic formulation used in homeopathic treatments. It is specifically used in the treatment for gastric and duodenal ulcerations. Towards understanding the anticancer mechanism, we investigated the genome-wide mRNA changes upon treating AGS Gastric Cancer cells with Ornithogalum. We observed that totally 707 genes were significantly regulated upon Ornithogalum Treatment, among them 246 genes were upregulated and 461 genes were downregulated. The results provide insight into molecular implication and gene level expression of AGS upon treatment with Ornithogalum. Total RNA was isolated from AGS gastric cancer cells treated with 0.01% of ornithogalum and ethanol control and profiled using Affymetrix Human Gene 1.0 ST Array (HuGene-1_0-st).

2014-04-01 | E-GEOD-54658 | biostudies-arrayexpress

LBH589 (Panobinostat) treatment of a gastric cancer cell line

Project description:LBH589 is a histone deacetylase (HDAC) inhibitor, treatment and changes in acetylated histones alters gene expression Gastric cancer cell line AGS was treated with 100nM LBH589 for 24h.

2012-04-14 | E-GEOD-36444 | biostudies-arrayexpress

Transcription profiling by array of human gastric cancer cells treated with suberoylanilide hydroxamic acid (SAHA)

Project description:Gastric cancer cell line AGS was treated with suberoylanilide hydroxamic acid (SAHA) for 24 hours. Microarray analysis was done to explore the differentially expressed genes betweenSAHA treated and control cells.

2011-05-01 | E-MEXP-2695 | biostudies-arrayexpress

Transcriptional profiling of gastric epithelial cells infected with wild type or arginase-deficient Helicobacter pylori

Project description:We studied the differential gene expression in the gastric cell line AGS infected with wild type (WT) or arginase gene mutant (rocF) Helicobacter pylori (Hp). We found that the presence of the gene regulates the inflammatory responses in terms of IL8 and MIP-1B. We conclude that arginase may be involved in regulating inflammatory responses which improves the chances of survival against the human immune response. AGS cells were infected for 16 hours with WT, the rocF, or a complemented H. pylori strain (rocF+). The RNA was extracted with TRIzol, treated with DNAse I (both from invitrogen). cRNA was made with the Illumina TotalPrep RNA amplification Kit (ambion AMIL1791).

2013-06-15 | E-GEOD-39919 | biostudies-arrayexpress

Helicobacter pylori-induced changes in miRNA expression in human gastric epithelial cells

Project description:H. pylori infection of human gastric epithelial cells (GEC) represses H,K-ATPase alpha subunit (HK-alpha) gene transcription through NF-Kappa B p50 homodimer binding to HK-alpha promoter. The bacterial cagA and slt gene products have been implicated in HK-alpha repression, which facilitates gastric H. pylori colonization and may underlie transient clinical hypochlorhydria. We hypothesized that H. pylori also regulates H,K-ATPase expression post-transcriptionally by micro-RNA interaction with HK-alpha mRNA. Our microarray experiment examined the effect of infection by wildtype H. pylori infection or a delta-cagA H. pylori mutant on miRNA expression of human gastric cells (AGS). Our results indicate that H. pylori infection up-regulates GEC miRNAs that target the HK-alpha 3' UTR and block translation, and that CagA activity is implicated in the miRNA up-regulation. Three types of samples were generated for microarray analysis: 1) AGS cells infected with wildtype H. pylori; 2) AGS cells infected with cagA-deficient H. pylori; 3) a mock-infected sample, prepared as a control by combining total RNA from uninfected AGS cells with total RNA from wildtype H. pylori, with relative eukaryotic and prokaryotic RNA amounts matching those observed in infected samples, based on proportional ribosomal peak heights quantified by Bioanalyzer. Three experimental replicates were generated for each type of treatment.

2016-01-18 | E-GEOD-51306 | biostudies-arrayexpress

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