Dataset Information

Versican in murine cell line supernatants

ABSTRACT: The tumor derived Versican (VCAN) can be a possible mediator of the host NF-κB pathway in cancer pathogenesis. In this context, we defined VCAN function in the pathogenesis development in vitro with cell lines as well as in vivo with mouse model. We used the proteomic technique to quantify VCAN integrity and relative abundancy produced by different cancer cell lines and to link this information to our pre-existing data. These results helped us to finalise our dataset and define more clearly VCAN influence tumor development.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Epithelial Cell, Cell Culture

DISEASE(S): Lung Adenocarcinoma,Colon Cancer,Pancreas Adenocarcinoma,Disease Free,Skin Melanoma

SUBMITTER: Georgios Stathopoulos

LAB HEAD: Georgios T. STATHOPOULOS

PROVIDER: PXD019883 | Pride | 2023-05-10

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	92-176878_LAA12959X002__KRAS_WT_MLE12.raw	Raw
	92-176879_LAA12959X003__KRAS_WT_B16_F10.raw	Raw
	92-176880_LAA12959X004__KRAS_WT_Pano2.raw	Raw
	92-176882_LAA12959X006__KRAS_MUT_LLC.raw	Raw
	92-176883_LAA12959X007__KRAS_MUT_AE17.raw	Raw

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1 - 5 of 8

Publications

Non-Oncogene Addiction of KRAS-Mutant Cancers to IL-1β via Versican and Mononuclear IKKβ.

Spella Magda M Ntaliarda Giannoula G Skiadas Georgios G Lamort Anne-Sophie AS Vreka Malamati M Marazioti Antonia A Lilis Ioannis I Bouloukou Eleni E Giotopoulou Georgia A GA Pepe Mario A A MAA Weiss Stefanie A I SAI Petrera Agnese A Hauck Stefanie M SM Koch Ina I Lindner Michael M Hatz Rudolph A RA Behr Juergen J Arendt Kristina A M KAM Giopanou Ioanna I Brunn David D Savai Rajkumar R Jenne Dieter E DE de Château Maarten M Yull Fiona E FE Blackwell Timothy S TS Stathopoulos Georgios T GT

Cancers 20230320 6

Kirsten rat sarcoma virus (KRAS)-mutant cancers are frequent, metastatic, lethal, and largely undruggable. While interleukin (IL)-1β and nuclear factor (NF)-κB inhibition hold promise against cancer, untargeted treatments are not effective. Here, we show that human KRAS-mutant cancers are addicted to IL-1β via inflammatory versican signaling to macrophage inhibitor of NF-κB kinase (IKK) β. Human pan-cancer and experimental NF-κB reporter, transcriptome, and proteome screens reveal ...[more]

PMID: 36980752

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Project description:Parkinson disease (PD) is a neurodegenerative disease characterized by the accumulation of alpha-synuclein (SNCA) and other proteins in aggregates termed âLewy Bodiesâ within neurons. PD has both genetic and environmental risk factors, and while processes leading to aberrant protein aggregation are unknown, past work points to abnormal levels of SNCA and other proteins. Although several genome-wide studies have been performed for PD, these have focused on DNA sequence variants by genome-wide association studies (GWAS) and on RNA levels (microarray transcriptomics), while genome-wide proteomics analysis has been lacking. After appropriate filters, proteomics identified 3,558 unique proteins and 283 of these (7.9%) were significantly different between PD and controls (q-value<0.05). RNA-sequencing identified 17,580 protein-coding genes and 1,095 of these (6.2%) were significantly different (FDR p-value<0.05), but only 166 of the FDR significant protein-coding genes (0.94%) were present among the 3,558 proteins characterized. Of these 166, eight genes (4.8%) were significant in both studies, with the same direction of effect. Functional enrichment analysis of the proteomics results strongly supports mitochondrial-related pathways, while comparable analysis of the RNA-sequencing results implicates protein folding pathways and metallothioneins. Ten of the implicated genes or proteins co-localized to GWAS loci. Evidence implicating SNCA was stronger in proteomics than in RNA-sequencing analyses. Notably, differentially expressed protein-coding genes were more likely to not be characterized in the proteomics analysis, which lessens the ability to compare across platforms. Combining multiple genome-wide platforms offers novel insights into the pathological processes responsible for this disease by identifying pathways implicated across methodologies. The study consists of mRNA-Seq (29 PD, 44 neurologically normal controls) and three-stage Mass Spectrometry Tandem Mass Tag Proteomics (12 PD, 12 neurologically normal controls) performed in post-mortem BA9 brain tissue. The proteomics samples are a subset of the RNA-Seq samples.

Dataset Information

Versican in murine cell line supernatants

Dataset's files

Publications

Non-Oncogene Addiction of <i>KRAS</i>-Mutant Cancers to IL-1β via Versican and Mononuclear IKKβ.

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