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Phospholipid Analysis using SimLipid Software

In this application note, results of phospholipid changes by LCMS-8060 were analyzed using liver tissue between a control and a probe administered mouse. Simultaneous analysis for phospholipids on PIS and NLS mode by LCMS-8060 enables evaluating the fluctuation of Pls whereas candidate phospholipid species were narrowed down from a database search by SimLipid software.


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A high throughput informatics tool for identification and relative quantitation of lipids using data from LC-, MALDI-, Shotgun-, Mass Spectrometry Workflows

The main biological functions of lipids include energy storage, acting as structural components of cell membranes, and participating as important signaling molecules.

Comparative studies of complex lipid mixtures found in cells and tissues could potentially reveal lipid biomarkers. The presence of lipids in membranes is reflective of the physiological state of an organism at a given time. Targeted and non-targeted approaches based on chromatography and mass spectrometry are employed for such studies. Both the approaches involve identification and measurement of lipids in the samples.

The challenges with mass spectrometry based lipidomics are the chemical complexity and large range of concentration of thousands of lipid species that are present in biological samples. Moreover, identification of lipids requires sophisticated software since automated interpretation of lipid MS/MS spectra is more challenging as compared to other biopolymers such as DNA, carbohydrates or peptides since lipids show much less standardized fragment mass spectra. Each lipid class has its own fragmentation patterns as well as ionization efficiency.

High Throughput DIA Data Processing with Waters® UPLC® SONAR™ and Waters® UPLC® HDMSE along with Waters® TQ-S and Shimadzu LCMS 8060 are now supported!


  • Robust Lipid Structure Database
  • Project Management and Data Visualization
  • High Throughput Lipid Structural Elucidation using MS, MS/MS and MSE Data
  • High Throughput DIA Data Processing- Waters® UPLC® SONAR™ and Waters® UPLC® HDMSE
  • LC MS and LC- MS/MS (DDA) High Throughput Data Processing
  • Multiplexed Precursor Ion Scan (PIS) and Neutral Loss Scan (NLS) Triple Quadrupole Mass Spectrometry Methods Based Lipid Profiling and Quantitation - Waters® TQ-S, Shimadzu LCMS 8060
  • Normalize Analyte Peaks Based on Peaks of the Internal Standards; either analytes, and the internal standards belong to same lipid class or an analyte and one of the internal standards have the "closest retention time"
  • MALDI-FT-ICR-MS Lipidomics Analysis
  • Mass Spectra Annotation with Identified Lipids
  • Generate Report


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