Tecnometrix

Multivariate classification models to diagnose tuberculosis/non-tuberculosis patients

Short description:

The correct diagnose of tuberculosis patients is nowadays of paramount importance. The main reason is because traditional methods (i.e. Ziehl-Neelsen staining and microscopy) take too long (~3 weeks) and the treatment should be admnistered to the patient as soon as possible (~1 day). A typical short-cut to avoid traditional methods is to use genotype analysis of the mycobacterium (via PCR). However, these methods are labour-intensive and require well trained personnel.

Our proposal in this project is to use pyrolysis-GC-MS to analyse a sputum sample of the patient. In principle, we should be able to identify the biomarkers that are specific to tuberculosis mycobacteria, and use this information to classify patients between tuberculosis/non-tuberculosis. The project contained a considerable ammount of work in data pre-treatment (mainly alignment and standarization). At a first attempt, univariate analysis failed to pick up the right biomarkers. However, the use of Partial Least Squares Discriminant Analysis (PLS-DA) was succesful in detecting the right biomarkers and building up a discrimination method. In a second step we were able to translate the biomarker features into chemical components, so the method can be easily transfered to other instrumentation and/or operator. A seminal paper of the proposed methodology can be found here [38a]. A validation of this method (using samples from different countries) can be found here [39a]. In this later case, it has been proven that a tree model performs superior (and it is simpler) than the traditional PLS-DA model. The method works for mycobacterium samples, but it should be adapted for its application onto sputum samples.

Credits:

This project was developed at different institutions. Several people were involved. Look into presentations co-authorship for more information.

Sponsors:

University of Amsterdam.

Presentations:

None available

Software:

None available

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