Progressive peak clustering in GC-MS Metabolomic experiments applied to Leishmania parasites.
BACKGROUND
A common problem in the emerging field of metabolomics is the consolidation of signal lists derived from metabolic profiling of different cell/tissue/fluid states where a number of replicate experiments was collected on each state.


RESULTS
We describe an approach for the consolidation of peak lists based on hierarchical clustering, first within each set of replicate experiments and then between the sets of replicate experiments. The problems of finding the dendrogram tree cutoff which gives the optimal number of peak clusters and the effect of different clustering methods were addressed. When applied to gas chromatography-mass spectrometry metabolic profiling data acquired on Leishmania mexicana, this approach resulted in robust data matrices which completely separated the wild-type and two mutant parasite lines based on their metabolic profile.
De Souza
David P
DP
Department of Biochemistry and Molecular Biology, University of Melbourne, Parkville 3010, Australia.
Saunders
Eleanor C
EC
McConville
Malcolm J
MJ
Likić
Vladimir A
VA
D000818:Animals; D016000:Cluster Analysis; D003627:Data Interpretation, Statistical; D008401:Gas Chromatography-Mass Spectrometry / Q000379:methods*; D020869:Gene Expression Profiling; D007894:Leishmania mexicana / Q000235:genetics* / Q000378:metabolism*; D008660:Metabolism; D040901:Proteomics / Q000379:methods; D012984:Software