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 phenomecentre@imperial.ac.uk 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.

Assay Matrix Coverage Further information
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.


Informatics capabilities

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 biofluidsAnal 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 spectraAnal 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 identificationJ 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 recoveryAnal Chem. 2009 Aug 1;81(15):6458-66. doi: 10.1021/ac900828p. PubMed PMID: 19580292.

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