Validation of a SNP-based non-invasive prenatal test to detect the fetal 22q11.2 deletion in maternal plasma samples
Non-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has expanded to detect subchromosomal abnormalities including the 22q11.2 deletion. Validation of a SNP-based NIPT for detection of 22q11.2 deletions demonstrat...
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Published in | PloS one Vol. 13; no. 2; p. e0193476 |
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Main Authors | , , , , , , , |
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Abstract | Non-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has expanded to detect subchromosomal abnormalities including the 22q11.2 deletion. Validation of a SNP-based NIPT for detection of 22q11.2 deletions demonstrating a high sensitivity (97.8%) and specificity (99.75%) has been reported. We sought to further demonstrate the performance of a revised version of the test in a larger set of pregnancy plasma samples.
Blood samples from pregnant women (10 with 22q11.2-deletion‒affected fetuses and 390 negative controls) were successfully analyzed using a revised SNP-based NIPT for the 22q11.2 deletion. The sensitivity and specificity of the assay were measured.
Sensitivity of the assay was 90% (9/10), and specificity of the assay was 99.74% (389/390), with a corresponding false positive-rate of 0.26%.
The data presented in this study add to the growing body of evidence demonstrating the ability of the SNP-based NIPT to detect 22q11.2 deletions with high sensitivity and specificity. |
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AbstractList | Introduction Non-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has expanded to detect subchromosomal abnormalities including the 22q11.2 deletion. Validation of a SNP-based NIPT for detection of 22q11.2 deletions demonstrating a high sensitivity (97.8%) and specificity (99.75%) has been reported. We sought to further demonstrate the performance of a revised version of the test in a larger set of pregnancy plasma samples. Methods Blood samples from pregnant women (10 with 22q11.2-deletion-affected fetuses and 390 negative controls) were successfully analyzed using a revised SNP-based NIPT for the 22q11.2 deletion. The sensitivity and specificity of the assay were measured. Results Sensitivity of the assay was 90% (9/10), and specificity of the assay was 99.74% (389/390), with a corresponding false positive-rate of 0.26%. Discussion The data presented in this study add to the growing body of evidence demonstrating the ability of the SNP-based NIPT to detect 22q11.2 deletions with high sensitivity and specificity. Introduction Non-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has expanded to detect subchromosomal abnormalities including the 22q11.2 deletion. Validation of a SNP-based NIPT for detection of 22q11.2 deletions demonstrating a high sensitivity (97.8%) and specificity (99.75%) has been reported. We sought to further demonstrate the performance of a revised version of the test in a larger set of pregnancy plasma samples. Methods Blood samples from pregnant women (10 with 22q11.2-deletion‒affected fetuses and 390 negative controls) were successfully analyzed using a revised SNP-based NIPT for the 22q11.2 deletion. The sensitivity and specificity of the assay were measured. Results Sensitivity of the assay was 90% (9/10), and specificity of the assay was 99.74% (389/390), with a corresponding false positive-rate of 0.26%. Discussion The data presented in this study add to the growing body of evidence demonstrating the ability of the SNP-based NIPT to detect 22q11.2 deletions with high sensitivity and specificity. Non-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has expanded to detect subchromosomal abnormalities including the 22q11.2 deletion. Validation of a SNP-based NIPT for detection of 22q11.2 deletions demonstrating a high sensitivity (97.8%) and specificity (99.75%) has been reported. We sought to further demonstrate the performance of a revised version of the test in a larger set of pregnancy plasma samples. Blood samples from pregnant women (10 with 22q11.2-deletion‒affected fetuses and 390 negative controls) were successfully analyzed using a revised SNP-based NIPT for the 22q11.2 deletion. The sensitivity and specificity of the assay were measured. Sensitivity of the assay was 90% (9/10), and specificity of the assay was 99.74% (389/390), with a corresponding false positive-rate of 0.26%. The data presented in this study add to the growing body of evidence demonstrating the ability of the SNP-based NIPT to detect 22q11.2 deletions with high sensitivity and specificity. INTRODUCTIONNon-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has expanded to detect subchromosomal abnormalities including the 22q11.2 deletion. Validation of a SNP-based NIPT for detection of 22q11.2 deletions demonstrating a high sensitivity (97.8%) and specificity (99.75%) has been reported. We sought to further demonstrate the performance of a revised version of the test in a larger set of pregnancy plasma samples.METHODSBlood samples from pregnant women (10 with 22q11.2-deletion‒affected fetuses and 390 negative controls) were successfully analyzed using a revised SNP-based NIPT for the 22q11.2 deletion. The sensitivity and specificity of the assay were measured.RESULTSSensitivity of the assay was 90% (9/10), and specificity of the assay was 99.74% (389/390), with a corresponding false positive-rate of 0.26%.DISCUSSIONThe data presented in this study add to the growing body of evidence demonstrating the ability of the SNP-based NIPT to detect 22q11.2 deletions with high sensitivity and specificity. Non-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has expanded to detect subchromosomal abnormalities including the 22q11.2 deletion. Validation of a SNP-based NIPT for detection of 22q11.2 deletions demonstrating a high sensitivity (97.8%) and specificity (99.75%) has been reported. We sought to further demonstrate the performance of a revised version of the test in a larger set of pregnancy plasma samples. Blood samples from pregnant women (10 with 22q11.2-deletion-affected fetuses and 390 negative controls) were successfully analyzed using a revised SNP-based NIPT for the 22q11.2 deletion. The sensitivity and specificity of the assay were measured. Sensitivity of the assay was 90% (9/10), and specificity of the assay was 99.74% (389/390), with a corresponding false positive-rate of 0.26%. The data presented in this study add to the growing body of evidence demonstrating the ability of the SNP-based NIPT to detect 22q11.2 deletions with high sensitivity and specificity. |
Audience | Academic |
Author | McNeill, Gabriel Ryan, Allison Goel, Shruti Levy, Brynn Meltzer, Steven D Demko, Zachary P Hunkapiller, Nathan Ravi, Harini |
AuthorAffiliation | 1 Natera, Inc., San Carlos, CA, United States of America Hospital Authority, CHINA 2 The Woman’s Hospital of Texas, Houston, TX, United States of America 3 Department of Pathology and Cell Biology, Columbia University, New York, NY, United States of America |
AuthorAffiliation_xml | – name: Hospital Authority, CHINA – name: 2 The Woman’s Hospital of Texas, Houston, TX, United States of America – name: 1 Natera, Inc., San Carlos, CA, United States of America – name: 3 Department of Pathology and Cell Biology, Columbia University, New York, NY, United States of America |
Author_xml | – sequence: 1 givenname: Harini surname: Ravi fullname: Ravi, Harini organization: Natera, Inc., San Carlos, CA, United States of America – sequence: 2 givenname: Gabriel surname: McNeill fullname: McNeill, Gabriel organization: Natera, Inc., San Carlos, CA, United States of America – sequence: 3 givenname: Shruti surname: Goel fullname: Goel, Shruti organization: Natera, Inc., San Carlos, CA, United States of America – sequence: 4 givenname: Steven D surname: Meltzer fullname: Meltzer, Steven D organization: The Woman's Hospital of Texas, Houston, TX, United States of America – sequence: 5 givenname: Nathan surname: Hunkapiller fullname: Hunkapiller, Nathan organization: Natera, Inc., San Carlos, CA, United States of America – sequence: 6 givenname: Allison surname: Ryan fullname: Ryan, Allison organization: Natera, Inc., San Carlos, CA, United States of America – sequence: 7 givenname: Brynn surname: Levy fullname: Levy, Brynn organization: Department of Pathology and Cell Biology, Columbia University, New York, NY, United States of America – sequence: 8 givenname: Zachary P surname: Demko fullname: Demko, Zachary P organization: Natera, Inc., San Carlos, CA, United States of America |
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Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 Competing Interests: All authors except SM and BL are/were employees of Natera and own stock, or options to stock, in the company. BL is a paid consultant to Natera. This does not alter our adherence to PLOS ONE policies on sharing data and materials. |
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Snippet | Non-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has expanded to... Introduction Non-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has... INTRODUCTIONNon-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has... Introduction Non-invasive prenatal testing (NIPT) for aneuploidy using cell-free DNA in maternal plasma has been widely adopted. Recently, NIPT coverage has... |
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SubjectTerms | Abnormalities Adult Amniocentesis Analysis Aneuploidy Assaying Biology and Life Sciences Children & youth Chromosome Deletion Chromosomes Chromosomes, Human, Pair 22 Clonal deletion Congenital diseases Deoxyribonucleic acid DNA Female Fetuses Gene deletion Genetic aspects Genetic Testing - methods Gynecology Humans Intermetallic compounds Laboratories Medicine and Health Sciences Mothers Nickel base alloys Nickel compounds Obstetrics Physiological aspects Plasma - metabolism Platinum compounds Polymorphism, Single Nucleotide Pregnancy Prenatal diagnosis Prenatal Diagnosis - methods Research and Analysis Methods Sampling methods Sensitivity Single nucleotide polymorphisms Single-nucleotide polymorphism Women |
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Title | Validation of a SNP-based non-invasive prenatal test to detect the fetal 22q11.2 deletion in maternal plasma samples |
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