Dataset Information

Region-specific lipid markers of plaque outcome revealed by mass spectrometry imaging of human carotid atherosclerotic plaques

ABSTRACT: The goal of the project is the detection of region-specific lipid features that discriminate between symptomatic and asymptomatic human carotid atherosclerotic plaques by MALDI MSI.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Carotid Atherosclerotic Plaque

SUBMITTER: Francesco Greco

LAB HEAD: Liam Andrew McDonnell

PROVIDER: PXD039822 | Pride | 2025-01-04

REPOSITORIES: pride

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Dataset's files

Source:

			Action	DRS
	AllSamples_DHB_MALDI_MSI_Dataset.mat	Other
	AllSamples_DHB_MALDI_MSI_Regions.mat	Other
	AllSamples_Nor_MALDI_MSI_Dataset.mat	Other
	AllSamples_Nor_MALDI_MSI_Regions.mat	Other
	Asympt10_HE.svs	Other

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Project description:In this data set, we reported for the first time that huanglongbing disease (HLB) induces major changes in the expression of global genes in flavedo, vascular and juice vesicle tissues of citrus fruit. 68 Total samples were analyzed. cDNA generation, array analysis, and statistical tests were performed as a service at the Interdisciplinary Center for Biotechnology Research (ICBR) Microarray Core facility at the University of Florida (Gainesville, FL). The linear models were used for array analysis (Smyth GK et al. Bioinformatics, 2005, 2067-2075). The linear models were firstly used to assess differential expression, and then an empirical Bayes method was used to moderate the standard errors. 13 comparisons were performed for the study. The comparisons in Citrus sinensis cv. Hamlin included: SC vs. CC (genes that respond to infection in symptomatic vascular core); SJV vs. CJV (genes that respond to infection in symptomatic juice vesicle); SS vs. CS (genes that respond to infection in symptomatic seed); SP vs. CP (genes that respond to infection in symptomatic peel). The comparisons in Citrus sinensis cv. Valencia included: SP vs. HP (genes that respond to infection in symptomatic peel); ASP vs. HP (genes that respond to infection in asymptomatic peel); SP vs. ASP (genes that respond to infection in symptomatic peel compared to asymptomatic peel); SC vs. HC (genes that respond to infection in symptomatic vascular core); ASC vs. HC (genes that respond to infection in asymptomatic vascular core); SC vs. ASC (genes that respond to infection in symptomatic vascular core compared to asymptomatic vascular core); SJV vs. HJV (genes that respond to infection in symptomatic juice vesicle); ASJV vs. HJV (genes that respond to infection in asymptomatic juice vesicle); SJV vs. ASJV (genes that respond to infection in symptomatic juice vesicle compared to asymptomatic juice vesicle). ESTs with significant expression changes (P value <0.001; false discovery rate <0.01 with equal or higher than 2-fold changes in expression) were selected for further analysis.

Dataset Information

Region-specific lipid markers of plaque outcome revealed by mass spectrometry imaging of human carotid atherosclerotic plaques

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