Lipidomics - Neural Regeneration Laboratory Ottawa NRL

Lipidomic Mass Spectrometry and Bioinformatics

The Lipidomics Research Platform is part of the Faculty of Medicine Proteomic Core Facility. The platform is operated by Dr Steffany Bennett.

India Taylor lipidomics research platform

Summary txt will go here.

Services

(+) Fee calculator for services offered

Phospholipids

Sphingolipids

Estimated total Note: practical experimental restraints dictate that extractions are completed in batches of ten samples. This binning for labor costs is reflected in the estimated price total (e.g., 1 sample will be the same price as 10 samples)

(+) Service guide

The Lipidomics Research Platform is part of the Faculty of Medicine Proteomic Core Facility. The platform is operated by Dr Steffany Bennett.

≤ 40

≤ 30

≤ 20

≤ 10

# samples

$2,440

$1,830

$1,220

$610

Phospholipid Extraction - From cells, flash frozen dissected tissue, or frozen plasma
- 6 h extraction protocol
-Includes all reagents, vials, internal standard required at time of extraction, glassware
-Provides 3 X 100 uL aliquots stored at -80°C in amber glass vials under nitrogen gas until MS runs

$3,880

$2,910

$1,940

$970

Sphingolipid Extraction - From cells, flash frozen dissected tissue, or frozen plasma
- 12 h extraction protocol
-Includes all reagents, vials, internal standard required at time of extraction, glassware
-Provides 3 X 100 uL aliquots stored at -80°C in amber glass vials under nitrogen gas until MS runs

$9,800

$7,350

$4,900

$2,450

LC-ESI-MS - Includes all internal standards used for quantificationand alignment
- Each MRM run requires 2.5 h of preparation and MS time. Costs are per run. Each run can profile up to ~100 lipids.
- Provides list of predicted identities, alignment of corresponding lipids across runs, and relative abundance of each species

Additional analysis services available

$50.00/h, Estimate provided in consultation with Dr Bennett prior to starting project

Bioinformatic and statistical analysis of clusters, pathways, etc

$450.00 per species Estimate provided in consultation with Dr Bennett prior to starting project

Advanced validation (MS3) of Lipid Identities

Resources

(+) Tools

LIMSA

LIMSA (Lipid Mass Spectrum Analysis) is a program for quantitative analysis of mass spectra of complex lipid samples. LIMSA can do peak finding, integration, assigning, isotope correction and quantitation with internal standards.

LipidBank

LipidBank is an open, publicly free database of natural lipids including fatty acids, glycerolipids, sphingolipids, steroids, and various vitamins.

LipidHome

LipidHome is a database of theoretical lipid structures derived from a seed set of lipid sub classes and some lipid chemical space constraints agreed upon with experts in the field.

LIPID MAPS Mass Spectrometry Analysis Tools

LIPID MAPS provides the largest database of lipid molecular structures, information on the lipid proteome, quantitative estimates of lipids in the human plasma, complete cellular lipidomes, and a host of tools for lipid biology including mass spectrometry tools, structure tools and pathway tools.

LipidQA

LipidQA provides the ability to submit mass spectrometer analysis files and have them analyzed.

LipidView™

LipidView™ Software is a data processing tool for the molecular characterization and quantification of lipid species from electrospray mass spectrometry data.

LipidXplorer

LipidXplorer is an unique software to identify lipids from high to low resolution mass spectra.

MassBank

MassBank is the first public repository of mass spectral data for sharing them among scientific research community. MassBank data are useful for the chemical identification and structure elucidation of chemical compounds detected by mass spectrometry.

SimLipid®

A comprehensive high throughput informatics tool for characterizing lipids using precursors and product ions data from MS and MS/MS data.

XCMS

XCMS is an LC/MS-based data analysis approach which incorporates novel nonlinear retention time alignment, feature detection, and feature matching. Without using internal standards, the method dynamically identifies hundreds of endogenous metabolites for use as standards, calculating a nonlinear retention time correction profile for each sample.

VaLID

VaLID Lipid Visualization and Identification - VaLID is a online search engine that returns all theoretically possible phospholipids for any m/z value and MS condition. Visualization algorithms produce multiple chemical structure files for each species linked to both the PubMed and the Human Metabolome Database (HMDB).

(+) Databases

(+) Protocols