Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ITRAQ quantitative proteomic analysis of human liver cancer cell HepG2/2.215

ABSTRACT: Trametenolic acid B (TAB) is a triterpenoid extracted from the Laetiporus sulphureus (Fr.) Murrill, which can effectively inhibit the proliferation of HepG2/2.215 cells and induce the autophagy. Proteomic analysis was performed to further study the anti-cancer mechanism of TAB. According to the peptide segment quantitative standard (FDR≤1%)，a total of 5324 proteins were identified in HepG2/2.215 by proteomic analysis.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Cancer

TISSUE(S): Cell Culture

DISEASE(S): Liver Cancer

SUBMITTER: Fefian Shi

LAB HEAD: Hubei Key Laboratory of Natural Products Research and Development

PROVIDER: PXD018963 | Pride | 2020-06-18

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	1-F1.raw	Raw
	1-F10.raw	Raw
	1-F11.raw	Raw
	1-F12.raw	Raw
	1-F13.raw	Raw

Items per page:

1 - 5 of 51

Similar Datasets

Genome-wide transcriptional response of the Arctic bacterium Pseudoalteromonas sp. A2 to oxidative stress

Project description:Transcriptomic sequencing was performed to obtain the key functional genes involved in the adaptation of oxidative stress induced by hydrogen peroxide (H2O2) in the Arctic bacterium Pseudoalteromonas sp. A2. Exposure to 1 mmol/L H2O2 resulted in large alterations of the transcriptome profile, including significant upregulation of 109 genes and significant downregulation of 174 genes. Functional classification of differentially expressed genes revealed that most of genes affiliated with biological adhesion, negative regulation of biological process, enzyme regulator activity, protein binding transcription factor activity and structural molecular activity were upregulated, and most of genes affiliated with multicellular organismal process and extracellular region were downregulated. It was notably that fifteen genes affiliated with flagella and four genes affiliated with heat shock proteins were significantly upregulated. Meanwhile, nine genes affiliated with cytochrome and cytochrome oxidase, and five genes affiliated with TonB-dependent receptor, were significantly downregulated. However, eighteen genes with antioxidant activity categorized by GO analysis showed differential expressions. This overall survey of transcriptome and oxidative stress-relevant genes can contribute to understand the adaptive mechanism of Arctic bacteria. five significant upregulated genes and five significant downregulated genes were selected using qRT-PCR to cinduct the oxidative stress. overall survey of transcriptomic sequencing by RNA-Seq of the Pseudoalteromonas sp. A2, an isolate from seawater with high activity against H2O2

2016-03-01 | E-GEOD-66773 | biostudies-arrayexpress

miR-29a/b1 regulates the pituitary gland luteinizing hormone secretion and affects mouse ovulation

Project description:miR-29a/b1 was reported to be involved in the regulation of reproductive function in female mice, but the underlying molecular mechanisms were not clear. In this study, female mice lacking miR-29a/b1 showed a delay in vaginal opening, irregular estrus cycles, ovulation disorder and infertility. However, the development of egg was normal in mutant mice and the ovulation disorder could be rescued by the superovulation treatment. The plasma level of luteinizing hormone (LH) was significantly lower in the mutant mice. Using iTRAQ coupled with LC-MS/MS, we found that the deficiency of miR-29a/b1 in mice resulted in an abnormal expression of a number of proteins involved in vesicular transport and secretion in the pituitary gland. The miR-29a/b1 targeting gene Dnmt3a and Hdac4 were up-regulated in the pituitary of miR-29a/b1 knockout mice suggesting that these two epigenetic writers may be the upstream causes for these phenotype changes due to miR-29a/b1 deficiency. These findings demonstrated that miR-29a/b1 is indispensable for the function of the reproductive axis through regulating LH secretion in the pituitary gland.

2021-09-09 | PXD017106 | Pride

Proteome and transcriptome analyses reveal key molecular differences between quality parameters of commercial-ripe and tree-ripe fig (Ficus carica L.)

Project description:Fig fruit are highly perishable at the tree-ripe (TR) stage. Commercial-ripe (CR) fruit, which are harvested before the TR stage for their postharvest transportability and shelf-life advantage, are inferior to TR fruit in size, color and sugar content. The succulent urn-shaped receptacle serves as the protective structure and edible part of the fruit, and determines fruit quality. Quantitative iTRAQ reveal the proteins and transcripts that are differentially expressed in fig receptacle at the two harvest stages. We annotated 691 proteins against uni_Moraceae_3487, of which 59 showed ≤1.3 -fold change—in TR vs CR fruit. Ficin was the most abundant soluble protein in the fig receptacle. A high abundance of aminocyclopropane-1-carboxylate oxidase was identified.

2019-03-22 | PXD009757 | Pride

Proteomics profiling based on TMT and PRM reveal crucial biological processes in the leaves of Sophora alopecuroides under salt stress

Project description:This project was based on Tandem Mass Tag (TMT) and Parallel Reaction Monitoring (PRM) technologies to study the changes in protein expression of leaves in Sophora alopecuroides under 150 mM NaCl condition treated for 3 days and 7 days. It was worthy of attention that the expression of several transporters related to the second messenger signaling pathway, such as the phosphatidylinositol signaling system, cAMP signaling pathway, and calcium signaling pathway had changed when treated for 3 d. However, the expression of some transferase, oxidoreductase, dehydrogenase was involved in the biosynthesis of flavonoids, alkaloids, phenylpropanoids and certain amino acid metabolisms had changed when treated for 7 d. This study analyzed the proteomic profiling of Sophora alopecuroides in response to salt stress using high-throughput omics technology firstly. Many potential genes were discovered that might be involved in salt stress, which laid the foundation for further research on their functions. All the results are of great significance for the researchers who are focus on the molecular genetic machnisms of abiotic stresses in plants, especially under salt stress.

2022-02-14 | PXD027627 | Pride

Unbalancing FurB (Zur)-mediated homeostasis in Anabaena sp. PCC7120: Consequences on heterocyst development and biofilm formation

Project description:Here, we report the comparison of transcriptomes of Anabaena sp. PCC7120 and the FurB(Zur) deletion derivative strain (MN38). Anabaena sp PCC7120 is a cyanobacterium that differentiates specialized nitrogen-fixing cells called heterocysts and that is capable of forming biofilms. Our data showed that the deletion of FurB negativily affected the heterocyst development and the biofilm formation. In addition, the RNA-seq data together with gel retardation assays unveiled that FurB is directly involved in the regulation of several genes related to heterocyst development and biofilm formation and other novel functions different from the ones related to the canonical Zur regulon.

2023-09-14 | E-MTAB-12347 | biostudies-arrayexpress

Characterization of gastric tumor organoids with specific oncogenic pathway activations

Project description:Gastric cancer ranks the fifth most common malignancy and the third leading cause of cancer related death worldwide. Classical chemotherapy is still the standard treatment in advanced stages, with only two targeted therapies currently in clinical use. Several targeted trials have failed, likely due to missing relevant biomarkers that predict response. Patient derived cancer organoids (PDOs) constitute a three dimensional cell culture system showing self renewal, self organization and regularly unlimited proliferation while faithfully recapitulating many aspects of the tumor they are derived from. Nevertheless, the complex individual mutational landscape hampers the use of PDOs for basic and translational research. We therefore characterized three murine tumor organoid models with defined mutational patterns altering specific oncogenic pathways: a RAS activated (KrasG12D, Tp53R172H), a WNT activated (Apcfl/fl, Tp53R172H) and a diffuse (Cdh1fl/fl, Apcfl/fl) tumor model. The models were analyzed phenotypically, a proteome signature was established and a drug screen performed. The models were morphologically diverse, were characterized by individual protein expression signatures and showed differential drug sensitivities. The developed organoid models allow functional assays as well as pathway specific drug interference testing in a genetically defined setting.

2022-08-22 | PXD022015 | Pride

Mass spec analysis of primary human erythroid cultures (healthy or thalassemic and treated or untreated with Decitabine)

Project description:Reactivation of gamma-globin is considered a promising approach for the treatment of beta-thalassaemia and sickle cell disease. Therapeutic induction of gamma-globin expression is fraught with lack of suitable therapeutic targets. In order to identify new potential targets we analysed the changes in the proteome of human primary erythroid progenitor cells by treatment with decitabine, a known, yet not clinically safe, gamma-globin inducer. Significant differentially expressed proteins were identified which were involved in various biological pathways and functional categories.

2020-01-23 | PXD006889 | Pride

Quantitative Proteomics analysis of LX-2 Responses to Irradiation and TGF-β1 Description

Project description:The human hepatic stellate cell line LX2 was treated with 8 Gy X-ray irradiation and/or 2ng/ml recombinant human TGF-β1. The iTRAQ-based high throughput quantitative proteomic approach was used to obtain a comprehensive view of the protein ensembles affected by irradiation and/or TGF-β1 treatment on LX2. This study provides clues for further investigation of the mechanisms behind radiation-induced liver fibrosis.

2018-12-04 | PXD011242 | Pride

Screening protein predictive of response to tumor necrosis factor-α inhibitors treatment in rheumatoid arthritis by using iTRAQ technique and investigating its mechanism through signal pathway

Project description:Rheumatoid arthritis (RA) is a chronic and disabling disease. TNF-α inhibitors have demonstrated an outstanding performance in relieving joint inflammation and retarding bone erosion involved in RA. However, there is still about one-thirds of RA patients had a poor response to TNF α inhibitors. Currently the personalized biological treatment is the research hotspot. Recent studies focuses on exploring biomarkers predictive of drug response. The research methods such as genomics, transcriptomics, proteomics, metabolomics and immunocytology, have been applied, but they are not successfully integrated. The related studies in China are still at an initial stage, which necessitates an in-depth study in this area. Our preliminary study showed that TNF-α-308 gene polymorphisms existed in Chinese RA patients and PI3K/Akt signal pathway was ativated in proliferated synovial fibroblasts stimulated by TNF-α. Therefore, for the first attempt in China, we intend to screen for differential proteins by using iTRAQ technique in RA patients receiving anti-TNF-α therapy, and then verify the predictive effects of selected differential proteins from the upstream gene polymorphism to the downstream protein expression. We will also investigate the mechanisms of differential proteins involved in TNF-α related signal pathway by using in vitro gene transfer, siRNA interference, and RA animal models. Through our study we hope to discover a prediction protein with a domestic genetic background and finally establish a prediction system with Chinese characteristics.

2022-02-15 | PXD010378 | Pride

Predictive biomarkers of sperm quality in sturgeon spermatozoa

Project description:In this study, we used the iTRAQ proteomics approach to perform proteomic profiling of spermatozoa associated with sperm quality in sturgeons. The results showed 291 and 359 differentially expressed proteins in A. baerii and A. schrenckii, respectively, of which 72 were common to both species and all were upregulated in high quality compared with low quality samples. The differentially expressed proteins were mainly categorized into the generation of precursor metabolites and energy and oxidation, and they were localized to the mitochondria. Three distinguishing pathways, Arginine and proline metabolism, Pyruvate metabolism and the Citrate cycle (TCA cycle) were found to play an important role in energy metabolism, and some substrates could be used in the sperm medium for storage and cryopreservation.

2017-10-31 | PXD006108 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data