Open AccessNoninvasive Prenatal Testing: Comparison of Two Mappers and Influence in the Diagnostic Yield
Author(s) -
Irene Gómez-Manjón,
Ana Moreno-Izquierdo,
Sonia Mayo,
Marta Moreno-Garcı́a,
Aitor Delmiro,
David Escribano,
F. Javier Fernández-Martínez
Publication year - 2018
Publication title -
biomed research international
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.772
H-Index - 126
eISSN - 2314-6141
pISSN - 2314-6133
DOI - 10.1155/2018/9498140
Subject(s) - trisomy , false positive paradox , sensibility , pathological , aneuploidy , medicine , biology , pathology , genetics , computer science , artificial intelligence , chromosome , gene , art , literature
Objective The aim of this study was to determine if the use of different mappers for NIPT may vary the results considerably.Methods Peripheral blood was collected from 217 pregnant women, 58 pathological (34 pregnancies with trisomy 21, 18 with trisomy 18, and 6 with trisomy 13) and 159 euploid. MPS was performed following a manufacturer's modified protocol of semiconductor sequencing. Obtained reads were mapped with two different software programs: TMAP and HPG-Aligner, comparing the results.Results Using TMAP, 57 pathological samples were correctly detected (sensitivity 98.28%, specificity 93.08%): 33 samples as trisomy 21 (sensitivity 97.06%, specificity 99.45%), 16 as trisomy 18 (sensibility 88.89%, specificity 93.97%), and 6 as trisomy 13 (sensibility 100%, specificity 100%). 11 false positives, 1 false negative, and 2 samples incorrectly identified were obtained. Using HPG-Aligner, all the 58 pathological samples were correctly identified (sensibility 100%, specificity 96.86%): 34 as trisomy 21 (sensibility 100%, specificity 98.91%), 18 as trisomy 18 (sensibility 100%, specificity 98.99%), and 6 as trisomy 13 (sensibility 100%, specificity 99.53%). 5 false positives were obtained.Conclusion Different mappers use slightly different algorithms, so the use of one mapper or another with the same batch file can provide different results.