West Coast Metabolomics Center Downloads
Aggregated downloads for the overall NIH Common Fund Metabolomics Program
data and protocols available from the metabolomicsworkbench.org
all WCMC data are uploaded at that website and available from there.
Specific WCMC data dictionaries and standard operating protocols (SOPs)
data dictionary lipidomics
SOP biofluid extraction lipidomics
SOP data acquisition lipidomics
SOP data processing lipidomics
data dictionary primary metabolomics
SOP biofluid extraction primary metabolism
SOP data acquisition primary metabolites
SOP data processing primary metabolites
data dictionary biogenic amines / specialized metabolites
SOP biofluid extraction biogenic amines / specialized metabolites
SOP biofluid data acquisition biogenic amines / specialized metabolites
SOP biofluid data processing biogenic amines / specialized metabolites
data dictionary bile acids SOP bile acids
data dictionary eicosanoids SOP eicosanoids
data dictionary steroids SOP steroids
data dictionary flux analysis SOP flux analysis
Pilot and Feasibility projects
Data Analysis Tools
A metabolomic network analysis tool enabling the rapid construction of biochemical, structural similarity, mass spectral similarity and correlation based networks.
Multivariate data analysis and visualization tool including: statistical analysis, clustering, PCA and O-PLS.
Multivariate data analysis and visualization add-in for MS Excel.
Software tool to display biochemical and chemical relationships of metabolomic data
Data Processing Tools
Software tool to convert metabolite identifiers between different databases (HMDB, PubChem and others)
Software tool and database to process, store and compare GC-TOF MS metabolomic data (LECO formats only)
Software tool and database to define study design parameters
that enables managing metabolomic data files for different platforms
Parameters for processing lipid data including a csv database for automated peak list generation and annotation presented at Metabolomics Society conference, Glasgow 2013
Links to External Downloads
Prof. Shankar Subramaniam at UC San Diego will develop a public data repository for all NIH-funded regional metabolomics resource cores. The Fiehn laboratory is partnering in this effort.
mzMine Software tool to process and compare LC-MS metabolomic data files
XCMS Software tool to process and compare LC-MS metabolomic data files
LipidMAPS Resources for analyzing lipid metabolism data