Summary of Study ST003059

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001905. The data can be accessed directly via it's Project DOI: 10.21228/M8GH8F This work is supported by NIH grant, U2C- DK119886.

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This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST003059
Study TitleSpatiotemporal mapping of lipid disturbance in heart injury - Part 3
Study SummaryThe project consists of 3 studies in total, this is the third part, in this study, pig plasma were collected for LC-MS/MS based lipidomics. The plasma sample from pig underwent I/R injury at different time points were collected for investigation.
Institute
National University of Singapore
Last Namechenyuan
First Namehuang
Address14 Medical Drive, MD6, #08-01, Singapore
Emailhuangchenyuan@u.nus.edu
Phone80384853
Submit Date2024-01-26
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2025-01-30
Release Version1
huang chenyuan huang chenyuan
https://dx.doi.org/10.21228/M8GH8F
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001905
Project DOI:doi: 10.21228/M8GH8F
Project Title:Spatiotemporal mapping of lipid disturbance in heart injury
Project Summary:Disturbance of myocardial lipid metabolism occurring in response to cardiac injury has been closely associated with heart failure. However, the spatial and temporal myocardial lipid profiles in heart injury remain unexplored. Here, we employ the matrix-assisted laser desorption ionization mass spectrometry imaging (MALDI-MSI) and liquid chromatography tandem mass spectrometry (LC-MS/MS) to analyze myocardial lipid profiles in heart injury induced by myocardial ischemia/reperfusion (I/R) in both mice and pigs.
Institute:National University of Singapore
Last Name:chenyuan
First Name:huang
Address:14 Medical Drive, MD6, Singapore
Email:huangchenyuan@u.nus.edu
Phone:80384853

Subject:

Subject ID:SU003174
Subject Type:Mammal
Subject Species:Sus scrofa
Taxonomy ID:9823
Species Group:Mammals

Factors:

Subject type: Mammal; Subject species: Sus scrofa (Factor headings shown in green)

mb_sample_id local_sample_id Time
SA331815034_basecontrol
SA331816014_basecontrol
SA331817016_basecontrol
SA331818032_basecontrol
SA331819035_basecontrol
SA331820015_basecontrol
SA331821034_D1day 1
SA331822015_D1day 1
SA331823032_D1day 1
SA331824016_D1day 1
SA331825035_D1day 1
SA331826014_D1day 1
SA331827034_D28day 28
SA331828016_D28day 28
SA331829014_D28day 28
SA331830035_D28day 28
SA331831032_D28day 28
SA331832015_D28day 28
SA331833014_D3day 3
SA331834032_D3day 3
SA331835035_D3day 3
SA331836034_D3day 3
SA331837015_D3day 3
SA331838016_D3day 3
SA331839016_D7day 7
SA331840034_D7day 7
SA331841035_D7day 7
SA331842014_D7day 7
SA331843032_D7day 7
SA331844015_D7day 7
Showing results 1 to 30 of 30

Collection:

Collection ID:CO003167
Collection Summary:Mice were sacrificed at different time points after I/R injury, blood was collected in EDTA-coated tubes (Greiner Bio-One, Kremsmünster, Austria) via submandibular vein by cheek puncture and was subsequently centrifuged at 4 °C, 2000 g for 10 min, to obtain plasma. The hearts were perfused with saline, and the atria and right ventricles were removed. Left ventricles were divided transversally, the bottom parts were dissected for LC-MS/MS and upper part was later used for MALDI-MSI. Sham surgery was performed (referred to as control) where all procedures were the same as the experimental group except for the LAD ligation. Tissue and blood from sham group were collected 24 hours after surgery to serve as baseline lipid levels (control).
Sample Type:Blood (plasma)

Treatment:

Treatment ID:TR003183
Treatment Summary:There is no treatment, but the factor contains different time and collection region of the tissue

Sample Preparation:

Sampleprep ID:SP003180
Sampleprep Summary:10 µL plasma was mixed with 100 µL butanol/methanol (1:1, v:v; Merck Millipore, Massachusetts, USA) spiked with the following internal standards: 400 nM phosphatidylethanolamine (PE) 17:0/17:0, 2.4 nM ceramide (Cer) d18:1/8:0, 200 nM phosphatidylcholine (PC) 13:0/13:0, 1.7 nM hexosylceramide (HexCer) d18:1/8:0, 400 nM lysophosphatidylcholine (LPC) 13:0, 400 nM lysophosphatidylethanolamine (LPE) 14:0, 400 nM phosphatidylserine (PS) 17:0/17:0, 3.6 nM sphingomyelin (SM) d18:1/6:0, 0.8 nM sphingosine d18:1 d7 and 0.8 nM sphingosine d18:0 d7 from Avanti Polar Lipids; 400 nM triacylglycerides (TAG) 12:0/12:0/12:0 from Sigma Aldrich. The samples were sonicated for 30 min followed by centrifugation at 14,000 g for 10 min at 22°C. The supernatant was analysed by LC-MS
Extraction Method:one phase extraction with 1:1 butanol/methanol
Extract Cleanup:by taking the supernatant
Extract Storage:On ice

Combined analysis:

Analysis ID AN005014
Analysis type MS
Chromatography type Reversed phase
Chromatography system Agilent 1290
Column Agilent ZORBAX Eclipse Plus C18 (50 x 2.1mm,1.8um)
MS Type ESI
MS instrument type Triple quadrupole
MS instrument name Agilent 6495 QQQ
Ion Mode POSITIVE
Units relative unit to (will only calculate against control)

Chromatography:

Chromatography ID:CH003787
Chromatography Summary:The supernatant was analysed using an Agilent 1290 series UHPLC system connected to an Agilent 6495 QQQ mass spectrometer after separation on a ZORBAX Eclipse plus C18 column (2.1 x 50 mm, 1.8 µm, 95 Å, Agilent) at 40 °C. The injection volume was 2 µL. Solvent A consisted of 60% water/40% acetonitrile (v/v) with 10 mM ammonium formate; solvent B consisted of 90% isopropanol/10% acetonitrile (v/v) with 10 mM ammonium formate. The gradient started with a flow rate of 0.4 mL/min at 20% B and increased to 60% B at 2 min, 100% B at 7 min, held at 100% B until 9 min, followed by equilibration with 20% B from 9.01 min until 10.8 min.
Instrument Name:Agilent 1290
Column Name:Agilent ZORBAX Eclipse Plus C18 (50 x 2.1mm,1.8um)
Column Temperature:40
Flow Gradient:Time (min) %B Flow rate (ml/min) 0 20 0.4 2 60 0.4 12 100 0.4 14 100 0.4 14.01 20 0.4 15.8 20 0.4
Flow Rate:0.4 mL/min
Solvent A:40% acetonitrile + 60% water + 10mM ammonium formate
Solvent B:10% acetonitrile + 90% isopropanol + 10mM ammonium formate
Chromatography Type:Reversed phase

MS:

MS ID:MS004753
Analysis ID:AN005014
Instrument Name:Agilent 6495 QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Column effluent was introduced to the mass spectrometer via AJS-ESI ion source operating under the following conditions: gas temperature, 200 °C; gas flow, 14 L/min; nebulizer, 20 psi; sheath gas temperature, 250 °C; sheath gas flow, 11 L/min; capillary, 3500 V. Mass spectrometry analysis was performed in positive ion mode with dynamic multiple reaction monitoring (dMRM). Mass spectrometry settings, LC-MS gradient and MRM transitions for each lipid class were adapted from a published method 65. Relative quantification of lipids was based on one-point calibration with class specific internal standards and was further normalized to the total protein content within each sample. The data were then analyzed by MassHunter
Ion Mode:POSITIVE
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