Assays and analysis available
The MRC-NIHR National Phenome Centre is open to the whole UK research community (academic and industry) and offers a wide range of services from broad profiling untargeted assays to targeted assays. These services are offered on a collaborative project basis or as a fee-for-service offering.
Please contact the Centre on firstname.lastname@example.org to discuss your needs in more detail and to obtain advice. As a brief introduction, the assays available and the coverage they offer are summarised below.
Comprehensive Discovery Assays and Guided Monitoring Services
The table below provides an overview of the scope of each assay available as part of the comprehensive discovery platform which the MRC-NIHR National Phenome Centre is uniquely able to offer, in addition to the new assays which are currently being developed and validated to come into the Centre in the near future. Alongside this sit a number of guided monitoring assays. More detailed information as to the metabolite coverage and volume requirements for each of these assays can be found in the document: MRC-NIHR NPC Assay Portfolio (PDF). Please note that this infomation is provided for guidance only and we would encourage all potential users to contact the Centre to discuss their requirements and needs in more detail.
|NMR - broad profiling||Urine||Broad spectral profile, fundamental to NPC analytical workflow. Assay as defined by NPC covers 3 experiments of differing lengths and methodologies to target different types of analytes.||Background publication|
|RP-LC (POS) - broad profiling mass spec||Urine||Excellent analyte coverage, from moderately polar to moderately apolar species|
|RP-LC (NEG) - broad profiling mass spec||Urine||Complementary analyte coverage, from moderately polar to moderately apolar species|
|HILIC (POS) - broad profiling mass spec||Urine||Most similar to NMR in that the targeted compound class is small polar analytes, however provides additional sensitivity||Background publication|
|HILIC (NEG) - broad profiling mass spec||Urine||Currently under validation - please enquire for further details||Background publication|
|NMR - broad profiling||Plasma & Serum||Broad spectral profile, fundamental to NPC analytical workflow. Assay as defined by NPC covers 3 experiments of differeing lengths to target different types of analytes.|
|Lipid screening (POS) - broad profiling mass spec||Plasma & Serum||Provides in depth coverage of lipid species, complementing NMR|
|Lipid screening (NEG) - broad profiling mass spec||Plasma & Serum||Complimentary in depth coverage of lipid species, complimenting NMR|
|HILIC (POS) - broad profiling mass spec||Plasma & Serum||Most similar to NMR in that the targeted compound class is small polar analytes, however provides additional sensitivity|
|HILIC (NEG) - broad profiling mass spec||Plasma & Serum||Currently under validation - please enquire for further details|
|RP-LC (POS) - broad profiling mass spec||Plasma & Serum||Currently under validation - please enquire for further details|
|RP-LC (NEG) - broad profiling mass spec||Plasma & Serum||Currently under validation - please enquire for further details|
|Lipid targeted (NEG) mass spec assay||Plasma & Serum||Targeted assay for the relative quantification of lipid species||Publication on method|
|Bile acid targeted mass spec assay||Urine, Plasma & Serum||Targeted assay for the relative quantification of bile acid species. 100 analytes monitored||Publication on method|
Other targeted mass spec assays
|Urine, Plasma & Serum||Currently under validation - please enquire for further details if you have a specific primary qustion and targeted assay under consideration and would like further advice regarding availability and timeline of assay.||
More detailed information on the methods and philosophy of the MRC-National Phenome Centre can be found in the Publications section of the website.
Background publications on the data modelling and identification work undertaken by the MRC-NIHR National Phenome Centre's Informatics Group are detailed below.
Posma JM, Garcia-Perez I, De Iorio M, Lindon JC, Elliott P, Holmes E, Ebbels TM, Nicholson JK.Subset optimization by reference matching (STORM): an optimized statistical approach for recovery of metabolic biomarker structural information from 1H NMR spectra of biofluids. Anal Chem. 2012 Dec 18;84(24):10694-701. doi: 10.1021/ac302360v. Epub 2012 Dec 4. PubMed PMID: 23151027.
Maher AD, Fonville JM, Coen M, Lindon JC, Rae CD, Nicholson JK. Statistical total correlation spectroscopy scaling for enhancement of metabolic information recovery in biological NMR spectra. Anal Chem. 2012 Jan 17;84(2):1083-91. doi: 10.1021/ac202720f. Epub 2011 Dec 27. PubMed PMID: 22148245.
Chadeau-Hyam M, Ebbels TM, Brown IJ, Chan Q, Stamler J, Huang CC, Daviglus ML, Ueshima H, Zhao L, Holmes E, Nicholson JK, Elliott P, De Iorio M. Metabolic profiling and the metabolome-wide association study: significance level for biomarker identification. J Proteome Res. 2010 Sep 3;9(9):4620-7. doi: 10.1021/pr1003449. PubMed PMID: 20701291; PubMed Central PMCID: PMC2941198.
Sands CJ, Coen M, Maher AD, Ebbels TM, Holmes E, Lindon JC, Nicholson JK. Statistical total correlation spectroscopy editing of 1H NMR spectra of biofluids: application to drug metabolite profile identification and enhanced information recovery. Anal Chem. 2009 Aug 1;81(15):6458-66. doi: 10.1021/ac900828p. PubMed PMID: 19580292.