TP53/NPM1-mutated acute myeloid leukemia as a molecularly distinct disease entity.

Authors

null

Frank J Scarpa

NeoGenomics Laboratories, Aliso Viejo, CA

Frank J Scarpa , Rachel Daringer , Wendy A. Wolfson , Fernando Lopez Diaz , Sally Agersborg , Vincent Anthony Funari , Lawrence Martin Weiss , Forrest Blocker , Madhuri Paul

Organizations

NeoGenomics Laboratories, Aliso Viejo, CA, NeoGenomics Laboratories, Inc., Aliso Viejo, CA, NeoGenomics, Aliso Viejo, CA, Genoptix, Carlsbad, CA

Research Funding

No funding received
None

Background: TP53-mutated acute myeloid leukemia (AML) is a distinct disease entity associated with a dismal prognosis. This disease group is distinguishable by its low frequency of SNVs, unremarkable transcriptional signatures, and lower leukocyte and myeloblast counts compared to TP53 wildtype disease. Response to gold-standard hypomethylating agents is typically transient. NPM1 mutations in this disease subset are rare despite the fact that NPM1c has been shown to negatively regulate the tumor suppressive functions of p53.Methods: Bone marrow, peripheral blood, or FFPE tissue samples from 10,118 patients with suspected myeloid disease were sequenced using a dual DNA/RNA 297 gene myeloid panel. Results were validated in a separate independent dataset using a 54 gene TruSight myeloid panel (N = 2463). FISH/cytogenetic data was analyzed across myeloid disease. Patients with confirmed AML (n = 460) were included in the NGS portion of this study. Statistics were performed using Fisher’s exact test for categorical variables and two-tailed T-test for continuous variables. Results: All TP53-mutated myeloid disease (n = 1282 / 10,118) was associated with fewer co-mutations except DNMT3A (13.4%; n = 172), and complex cytogenetics (36.4%; n = 134/381). TP53+/NPM1+ status across all myeloid disease was not associated with a complex karyotype (7.6% vs 38.5%; 1/13 vs. 133/368, p = 0.02). Among AML patients, NPM1+/TP53+ patients (n = 18) were more co-mutated with DNMT3A (33.3% vs. 10.3%, P = 0.01), FLT3 (33.33% vs. 2.5%, P < 0.0001), IDH1 (27.8% vs. 4.4%, P = 0.002), IDH2 (22.2% vs. 6.4%, P = 0.03); and PTPN11 (22.2% vs. 2.5%, P = 0.003) when compared to TP53+/NPM1- patients. NPM1+/TP53+ AML had more mutations in recurrently mutated genes (4.5 vs 2.1; P < 0.0001) than TP53+/NPM1- AML. Conclusions: TP53+/NPM1+ AML harbors molecular signatures which clearly distinguish it from ordinary TP53-mutated AML, and is more reflective of de novo and NPM1+ AML. Further clinical outcome studies are needed to determine the therapeutic and prognostic implications of this subset, and whether other TP53-mutated patients can be better risk stratified.

Cohort:TP53+/NPM1-
TP53+/NPM1+
TP53-/ NPM1+
297
panel
(n = 203)TruSight
(n = 215)297 panel(n = 18)TruSight
(n = 14)297
panel
(n = 239)TruSight(n = 272)
Prevalence:
 DNMT3A10.3% (21)-12.6% (27)-33.33% (6)P < 0.0157.1% (8)P = 0.000247.3% (113)P = 0.000146.3% (126)P = 0.0001
 FLT32.5% (5)-1.4% (3)-33.33% (6)P = 0.000121.4% (3)P = 0.00354.4% (130)P = 0.000129.0% (79)P = 0.0001
 IDH14.4% (9)-2.3% (5)-27.8% (5)P = 0.00214.3% (2)P = 0.0614.6% (35)P = 0.000414.0% (38)P = 0.0001
 IDH26.4% (13)-4.2% (9)-22.2% (4)P = 0.037.1% (1)P = 0.0525.1% (60)P = 0.000121.0% (57)P = 0.0001
 PTPN112.5% (5)-1.4% (3)-22.2% (4)P = 0.00314.3% (2)P = 0.0614.6% (35)P = 0.000113.6% (37)P = 0.0001
 MUTATION COUNT2 - 2.6-2-2.1-4.6 - 5P = 0.00014.5 – 5P = 0.00014 – 4.3P = 0.00013 – 3.1P = 0.0001

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Abstract Details

Meeting

2021 ASCO Annual Meeting

Session Type

Poster Session

Session Title

Hematologic Malignancies—Leukemia, Myelodysplastic Syndromes, and Allotransplant

Track

Hematologic Malignancies

Sub Track

Acute Leukemia

Citation

J Clin Oncol 39, 2021 (suppl 15; abstr 7030)

DOI

10.1200/JCO.2021.39.15_suppl.7030

Abstract #

7030

Poster Bd #

Online Only

Abstract Disclosures

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