Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Human Diseased Cardiovascular Tissue

ABSTRACT: Fewer than 50% of patients develop vascular and valvular calcification, implying differential pathogenesis. Disease stage-specific proteomics (non-diseased/fibrotic/calcified areas) was performed on human carotid endarterectomy specimens and stenotic aortic valves.

INSTRUMENT(S): Orbitrap Fusion Lumos

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Aortic Valve, Carotid Atherosclerotic Plaque

SUBMITTER: Mark Blaser

LAB HEAD: Elena Aikawa

PROVIDER: PXD035538 | Pride | 2023-07-10

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	02_MB_AoV_100_C_92020_1-20_rep1_TopS_OT120k-CID-IT_90min_5-21_.raw	Raw
	02_MB_AoV_100_F_92020_1-20_rep1_TopS_OT120k-CID-IT_90min_5-21_.raw	Raw
	02_MB_AoV_100_N_92020_1-20_rep1_TopS_OT120k-CID-IT_90min_5-21_.raw	Raw
	02_MB_AoV_112_C_92020_1-20_rep1_TopS_OT120k-CID-IT_90min_5-21_.raw	Raw
	02_MB_AoV_112_F_92020_1-20_rep1_TopS_OT120k-CID-IT_90min_5-21_.raw	Raw

Items per page:

1 - 5 of 139

Similar Datasets

Human Diseased Cardiovascular Tissue – Fractionated

Project description:Fewer than 50% of patients develop vascular and valvular calcification, implying differential pathogenesis. Disease stage-specific proteomics (non-diseased/fibrotic/calcified areas) was performed on human carotid endarterectomy specimens and stenotic aortic valves merged per donor as fractions.

2023-07-10 | PXD035563 | Pride

Human Normal & Diseased Cardiovascular Tissue

Project description:Fewer than 50% of patients develop vascular and valvular calcification, implying differential pathogenesis. Disease stage-specific proteomics (normal/non-diseased/fibrotic/calcified areas) was performed on human carotid artery specimens from autopsy, carotid endarterectomy specimens, aortic valves from heart transplant recipients, and stenotic aortic valves.

2023-07-10 | PXD035555 | Pride

Quiescent vs. Activated Endothelial Cell-Derived Extracellular Vesicles

Project description:Proteomics was performed on extracellular vesicles derived from in vitro cultures of activated and quiescent human endothelial cells.

2024-01-04 | PXD038914 | Pride

Human Cardiovascular Tissue Extracellular Vesicles – Density Gradient

Project description:Fewer than 50% of patients develop vascular and valvular calcification, implying differential pathogenesis. Tissue-entrapped extracellular vesicles (EVs) are found in mineralization but their contents and functions are unstudied. Tissue EVs were isolated from diseased human carotid arteries and aortic valves by enzymatic digestion, serial (ultra)centrifugation and density-gradient separation. Mass spectrometry characterized the density-gradient separation and quantified protein cargoes of tissue-derived cardiovascular EVs.

2023-07-10 | PXD035580 | Pride

Human Cardiovascular Tissue Extracellular Vesicles – Ultracentrifugation vs. Density Gradient

Project description:Fewer than 50% of patients develop vascular and valvular calcification, implying differential pathogenesis. Tissue-entrapped extracellular vesicles (EVs) are found in mineralization but their contents and functions are unstudied. Tissue EVs were isolated from normal and diseased human carotid arteries and aortic valves by enzymatic digestion, serial (ultra)centrifugation and density-gradient separation. Mass spectrometry characterized the density-gradient separation vs. ultracentrifugation.

2023-07-10 | PXD035485 | Pride

Human Cardiovascular Tissue Extracellular Vesicles

Project description:Fewer than 50% of patients develop vascular and valvular calcification, implying differential pathogenesis. Tissue-entrapped extracellular vesicles (EVs) are found in mineralization but their contents and functions are unstudied. Tissue EVs were isolated from normal and diseased human carotid arteries and aortic valves by enzymatic digestion, serial (ultra)centrifugation and density-gradient separation.

2023-07-10 | PXD035529 | Pride

Human Cardiovascular Tissue Extracellular Vesicles – Iodixanol Mass Exclusion

Project description:Fewer than 50% of patients develop vascular and valvular calcification, implying differential pathogenesis. Tissue-entrapped extracellular vesicles (EVs) are found in mineralization but their contents and functions are unstudied. Tissue EVs were isolated from normal and diseased human carotid arteries and aortic valves by enzymatic digestion, serial (ultra)centrifugation and density-gradient separation. Mass spectrometry characterized the density-gradient separation and ability to exclude iodixanol from the density gradient.

2023-07-10 | PXD035505 | Pride

Polarized Endothelial Cell-Derived Extracellular Vesicles

Project description:Proteomics was performed on extracellular vesicles secreted bidirectionally (apical vs. basolateral surfaces) from in vitro cultures of activated and quiescent human endothelial cells.

2024-01-04 | PXD038917 | Pride

Valvular interstitial cells and mesenchymal stem cell proteomes

Project description:Proteome profiling of valvular disease driver cell populations and mesenchymal stem cells undergoing osteogenic differentiation.

2024-01-25 | PXD029949 | Pride

Comparative Evaluation of MaxQuant and Proteome Discoverer MS1-based Protein Quantification Tools

Project description:MS1-based label-free quantification can compare precursor ion peaks across runs, allowing reproducible protein measurements. Among bioinformatic platforms enabling MS1-based quantification, MaxQuant (MQ) is one of the most used, while Proteome Discoverer (PD) has recently introduced the Minora tool. Here, we present a comparative evaluation of six MS1-based quantification methods available in MQ and PD. Intensity (MQ and PD) and area (PD only) of the precursor ion peaks were measured and then subjected or not to normalization. The six methods were applied to datasets simulating various differential proteomics scenarios and covering a wide range of protein abundance ratios and concentrations. PD outperformed MQ in terms of quantification yield, dynamic range, and reproducibility, although neither platform reached a fully satisfactory quality of measurements at low-concentration ranges. PD methods including normalization were the most accurate in estimating the abundance ratio between groups and the most sensitive when comparing groups with a narrow abundance ratio; on the contrary, MQ methods generally reached slightly higher specificity, accuracy, and precision values. Moreover, we found that applying an optimized log ratio-based threshold can maximize specificity, accuracy, and precision. Taken together, these results can help researchers choose the most appropriate MS1-based protein quantification strategy for their studies.

2021-05-31 | PXD022169 | 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