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PERFORMANCE OF THE LEUKOSTRAT® CDX FLT3 MUTATION SIGNAL RATIO ASSAY TO DETECT INTERNAL TANDEM DUPLICATION (ITD) AND TYROSINE KINASE DOMAIN (TKD) MUTATIONS IN PATIENTS WITH ACUTE MYELOID LEUKEMIA
Author(s): ,
April Osgood
Affiliations:
Invivoscribe Technologies,San Diego,United States
,
Erica Shakeri
Affiliations:
Product Development,Invivoscribe Technologies,San Diego,United States
,
Veronika Atkinson
Affiliations:
Invivoscribe Technologies,San Diego,United States
,
Nelson Kha
Affiliations:
Laboratory for Personalized Molecular Medicine (LabPMM),San Diego,United States
,
Christophe Simon
Affiliations:
Laboratory for Personalized Molecular Medicine (LabPMM),Kawasaki,Japan
,
Jordan Thornes
Affiliations:
Laboratory for Personalized Molecular Medicine (LabPMM),San Diego,United States;Laboratory for Personalized Molecular Medicine (LabPMM),Martinsried,Germany;Laboratory for Personalized Molecular Medicine (LabPMM),Kawasaki,Japan
,
Timothy Stenzel
Affiliations:
Invivoscribe Technologies,San Diego,United States
Jeffrey Miller
Affiliations:
Invivoscribe Technologies,San Diego,United States
(Abstract release date: 05/18/17) EHA Library. Osgood A. 05/18/17; 182403; PB1689
April Osgood
April Osgood
Contributions
Abstract

Abstract: PB1689

Type: Publication Only

Background
Acute myeloid leukemia (AML) in general has a poor prognosis. Assessment of the mutation status of the FLT3 (fms related tyrosine kinase 3) receptor gene in AML is the most important prognostic indicator of disease outcome, which is often substantial, as many studies in AML have shown that the presence of FLT3 activating mutations portends a poor prognosis. The LeukoStrat® CDx FLT3 Mutation Assay targets regions of the FLT3 gene to identify internal tandem duplication (ITD) mutations and tyrosine kinase domain (TKD) mutations. Since this assay is a signal ratio (SR) assay with a validated cutoff of 0.05, demonstration of international harmonization of results is paramount.

FLT3 ITD mutations are caused by duplication and insertion of a portion of the FLT3 gene that includes the region in and around the juxtamembrane region of the FLT3 gene. These mutations vary in both the location and the length of the inserted duplicated DNA sequence. ITD mutations result in constitutive autophosphorylation and activation of FLT3.
FLT3 TKD mutations are caused by nucleic acid substitutions and/or deletions that result in a change in the amino acid sequence in this highly-conserved catalytic center. TKD mutations, such as D835 and I836 substitutions and deletions, result in constitutive autophosphorylation and activation of FLT3.

Aims
To assess the performance of the Invivoscribe® LeukoStrat® CDx FLT3 Mutation Assay.

Methods

White blood cells were removed from peripheral blood after 30 minutes of centrifugation at 2000 xg to create leukocyte depleted blood (LDB). Various ratios of four ITD positive cell lines, with insert sizes from 21 bp to 279 bp, and one TKD positive cell line, with a D835 substitution mutation, were created over a wide range of signal ratios (0.02 to 1.83) and added to the LDB.
Mononuclear cells were isolated from the contrived LDB samples. DNA was extracted and amplified via PCR. The amplicons were analyzed via capillary electrophoresis. The assay measured the ratio of signals from mutation against a background of signal from wild type. A FLT3 mutation was detected (and reported as positive) if the mutant:WT type SR met or exceeded the clinical cut-off of 0.05. Proprietary software calculated the SR and reported positive or negative.
Clinical specimens were de-identified by LabPMM in San Diego. DNA from twenty specimens was tested by three laboratories: LabPMM LLC in San Diego, LabPMM GmbH in Germany and LabPMM Gk in Japan.

Results
The analytical performance of the LeukoStrat® CDx FLT3 Mutation Assay was evaluated using contrived LDB samples, with known FLT3 mutations. For limit of blank (LoB), the SR was 0.00 in the ITD assay and 0.00 to 0.01 in the TKD assay, which is well below the clinical cutoff SR of 0.05. The limit of detection in the ITD assay detected allelic ratios of 0.03, 0.05, and 0.33 above the LoB SR in more than 95% of samples for insertions sized at 30 bp, 126 bp and 279 bp, respectively. The limit of detection in the TKD assay detected an allelic ratio of 0.05 above the LoB. For precision and reproducibility, the SR %CV was within 3-14% across ITD and TKD mutation types regardless of reagent lots, equipment, or operator.

There was 100% agreement between all three clinical LabPMM laboratory sites.

Conclusion
This robust assay produced a SR %CV less than 15% regardless of reagent lot, equipment or operator. The high reproducibility between the three laboratories on three different continents provides evidence that the Invivoscribe® LeukoStrat® CDx FLT3 Mutation Assay is an internationally standardized assay.

Session topic: 4. Acute myeloid leukemia - Clinical

Keyword(s): Tyrosine kinase, Flt3-ITD, Acute Myeloid Leukemia

Abstract: PB1689

Type: Publication Only

Background
Acute myeloid leukemia (AML) in general has a poor prognosis. Assessment of the mutation status of the FLT3 (fms related tyrosine kinase 3) receptor gene in AML is the most important prognostic indicator of disease outcome, which is often substantial, as many studies in AML have shown that the presence of FLT3 activating mutations portends a poor prognosis. The LeukoStrat® CDx FLT3 Mutation Assay targets regions of the FLT3 gene to identify internal tandem duplication (ITD) mutations and tyrosine kinase domain (TKD) mutations. Since this assay is a signal ratio (SR) assay with a validated cutoff of 0.05, demonstration of international harmonization of results is paramount.

FLT3 ITD mutations are caused by duplication and insertion of a portion of the FLT3 gene that includes the region in and around the juxtamembrane region of the FLT3 gene. These mutations vary in both the location and the length of the inserted duplicated DNA sequence. ITD mutations result in constitutive autophosphorylation and activation of FLT3.
FLT3 TKD mutations are caused by nucleic acid substitutions and/or deletions that result in a change in the amino acid sequence in this highly-conserved catalytic center. TKD mutations, such as D835 and I836 substitutions and deletions, result in constitutive autophosphorylation and activation of FLT3.

Aims
To assess the performance of the Invivoscribe® LeukoStrat® CDx FLT3 Mutation Assay.

Methods

White blood cells were removed from peripheral blood after 30 minutes of centrifugation at 2000 xg to create leukocyte depleted blood (LDB). Various ratios of four ITD positive cell lines, with insert sizes from 21 bp to 279 bp, and one TKD positive cell line, with a D835 substitution mutation, were created over a wide range of signal ratios (0.02 to 1.83) and added to the LDB.
Mononuclear cells were isolated from the contrived LDB samples. DNA was extracted and amplified via PCR. The amplicons were analyzed via capillary electrophoresis. The assay measured the ratio of signals from mutation against a background of signal from wild type. A FLT3 mutation was detected (and reported as positive) if the mutant:WT type SR met or exceeded the clinical cut-off of 0.05. Proprietary software calculated the SR and reported positive or negative.
Clinical specimens were de-identified by LabPMM in San Diego. DNA from twenty specimens was tested by three laboratories: LabPMM LLC in San Diego, LabPMM GmbH in Germany and LabPMM Gk in Japan.

Results
The analytical performance of the LeukoStrat® CDx FLT3 Mutation Assay was evaluated using contrived LDB samples, with known FLT3 mutations. For limit of blank (LoB), the SR was 0.00 in the ITD assay and 0.00 to 0.01 in the TKD assay, which is well below the clinical cutoff SR of 0.05. The limit of detection in the ITD assay detected allelic ratios of 0.03, 0.05, and 0.33 above the LoB SR in more than 95% of samples for insertions sized at 30 bp, 126 bp and 279 bp, respectively. The limit of detection in the TKD assay detected an allelic ratio of 0.05 above the LoB. For precision and reproducibility, the SR %CV was within 3-14% across ITD and TKD mutation types regardless of reagent lots, equipment, or operator.

There was 100% agreement between all three clinical LabPMM laboratory sites.

Conclusion
This robust assay produced a SR %CV less than 15% regardless of reagent lot, equipment or operator. The high reproducibility between the three laboratories on three different continents provides evidence that the Invivoscribe® LeukoStrat® CDx FLT3 Mutation Assay is an internationally standardized assay.

Session topic: 4. Acute myeloid leukemia - Clinical

Keyword(s): Tyrosine kinase, Flt3-ITD, Acute Myeloid Leukemia

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