Imperial College London

DrJesusRodriguez Manzano

Faculty of MedicineDepartment of Infectious Disease

Non-Clinical Lecturer in Antimicrobial Resistance and Infect
 
 
 
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Contact

 

j.rodriguez-manzano

 
 
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Location

 

Electrical EngineeringSouth Kensington Campus

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Summary

 

Publications

Citation

BibTex format

@article{Moniri:2019:10.1021/acs.analchem.9b01466,
author = {Moniri, A and Rodriguez-Manzano, J and Malpartida-Cardenas, K and Yu, L-S and Didelot, X and Holmes, A and Georgiou, P},
doi = {10.1021/acs.analchem.9b01466},
journal = {Analytical Chemistry},
pages = {7426--7434},
title = {Framework for DNA quantification and outlier detection using multidimensional standard curves},
url = {http://dx.doi.org/10.1021/acs.analchem.9b01466},
volume = {91},
year = {2019}
}

RIS format (EndNote, RefMan)

TY  - JOUR
AB - Real-time PCR is a highly sensitive and powerful technology for the quantification of DNA and has become the method of choice in microbiology, bioengineering, and molecular biology. Currently, the analysis of real-time PCR data is hampered by only considering a single feature of the amplification profile to generate a standard curve. The current “gold standard” is the cycle-threshold (Ct) method which is known to provide poor quantification under inconsistent reaction efficiencies. Multiple single-feature methods have been developed to overcome the limitations of the Ct method; however, there is an unexplored area of combining multiple features in order to benefit from their joint information. Here, we propose a novel framework that combines existing standard curve methods into a multidimensional standard curve. This is achieved by considering multiple features together such that each amplification curve is viewed as a point in a multidimensional space. Contrary to only considering a single-feature, in the multidimensional space, data points do not fall exactly on the standard curve, which enables a similarity measure between amplification curves based on distances between data points. We show that this framework expands the capabilities of standard curves in order to optimize quantification performance, provide a measure of how suitable an amplification curve is for a standard, and thus automatically detect outliers and increase the reliability of quantification. Our aim is to provide an affordable solution to enhance existing diagnostic settings through maximizing the amount of information extracted from conventional instruments.
AU - Moniri,A
AU - Rodriguez-Manzano,J
AU - Malpartida-Cardenas,K
AU - Yu,L-S
AU - Didelot,X
AU - Holmes,A
AU - Georgiou,P
DO - 10.1021/acs.analchem.9b01466
EP - 7434
PY - 2019///
SN - 0003-2700
SP - 7426
TI - Framework for DNA quantification and outlier detection using multidimensional standard curves
T2 - Analytical Chemistry
UR - http://dx.doi.org/10.1021/acs.analchem.9b01466
UR - http://hdl.handle.net/10044/1/70470
VL - 91
ER -