Molecular characteristics of advanced colorectal cancer and multi-hit PIK3CA mutations.

Authors

null

Michael Cecchini

Yale Cancer Center, New Haven, CT

Michael Cecchini , Ethan Sokol , Neil Vasan , Dean C. Pavlick , Richard S.P. Huang , Maureen Pelletier , Mia Alyce Levy , Lajos Pusztai , Jill Lacy , Joseph Paul Eder , Janie Yue Zhang , Jeffrey S. Ross

Organizations

Yale Cancer Center, New Haven, CT, Foundation Medicine, Inc., Cambridge, MA, Massachusetts General Hospital, Boston, MA, Yale School of Medicine, New Haven, CT, Smilow Cancer Hospital, Yale University, New Haven, CT, Yale University, New Haven, CT, Yale New Haven Health System, New Haven, CT, Foundation Medicine, Cambridge, MA

Research Funding

Pharmaceutical/Biotech Company

Background: Approximately 20% of colorectal cancer (CRC) has an activating mutation in the PIK3CA oncogene. PIK3CA codes for the catalytic subunit of phosphoinositide 3-kinase alpha (PI3Kα), which ultimately activates the AKT and mammalian target of rapamycin (mTOR) pathway. The PI3Kα inhibitor alpelisib has been approved for breast cancer where a single PIK3CA activating mutation is sufficient for response. However, two activating mutations (multi-hit) in the PIK3CA allele substantially increases PI3Kα signaling compared to single hot spot mutations and results in exceptional response to PI3Kα inhibition. We aimed to identify the prevalence of PIK3CA multi-hit mutations in CRC to identify patients potentially susceptible to PI3K inhibitors. Methods: Tissue-based comprehensive genomic profiling (CGP) was performed in a Clinical Laboratory Improvement Amendments (CLIA)-certified, CAP (College of American Pathologists)-accredited laboratory (Foundation Medicine Inc., Cambridge, MA, USA) on all-comers during the course of routine clinical care from 2013-2021. Approval was obtained from the Western Institutional Review Board (Protocol No. 20152817). Hybrid capture was carried out for at least 324 cancer-related genes, including PIK3CA.Results: We identified 48,836 patients with advanced CRC who underwent Foundation Medicine testing and 846 (1.7%) patients with multi-hit PIK3CA mutations. Additional clinical and molecular data was available for 41,154 of these patients of which 710 (1.7%) had multi-hit PIK3CA and 7627 (19%) had any deleterious PIK3CA mutation. The local colon tumor was used for sequencing in 70% of cases and a separate site in 30% of cases. Patients with PIK3CA multi-hit mutations were 53% male with a median age of 60 (interquartile range 50-70). The microsatellite status was available for 697 of 710 patients with multi-hit PIK3CA and 123/697 (18%) were microsatellite instability-high. The Table outlines the genes with cooccurring mutations of >10% prevalence for multi-hit PIK3CA CRC, including the clinically relevant mutations in KRAS (65%) and BRAF (13%). The four most common PIK3CA variants were H1047R (9.8%), E545K (9.2%), E542K (9.0%) and R88Q (7.1%). The most common variant pair was E542K with E545K in 4.7% of multi-hit cases. Conclusions: Double-hit mutations in PIK3CA are seen in 1.7% of advanced CRC patients and may represent a subset of patients that may have enhanced sensitivity to PI3K inhibitors. Given the high prevalence of CRC in the United States and worldwide this represents a clinically meaningful prevalence of multi-hit PIK3CA. Future investigation on the clinical utility of PI3K inhibitors may be warranted in multi-hit PIK3CA CRC.

Co-occurring variants with > 10% prevalence in multi-hit PIK3CA CRC.

Gene
Variant Frequency (n=709)
APC
81%
KRAS
65%
TP53
42%
FBXW7
23%
SOX9
21%
SMAD4
20%
ARID1A
19%
PTEN
17%
AMER1
15%
BRAF
13%
ASXL1
13%
ATM
12%
KMT2D
12%
CTNNB1
12%
MSH3
12%

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Abstract Details

Meeting

2022 ASCO Annual Meeting

Session Type

Poster Session

Session Title

Gastrointestinal Cancer—Colorectal and Anal

Track

Gastrointestinal Cancer—Colorectal and Anal

Sub Track

Epidemiology/Outcomes

Citation

J Clin Oncol 40, 2022 (suppl 16; abstr 3535)

DOI

10.1200/JCO.2022.40.16_suppl.3535

Abstract #

3535

Poster Bd #

329

Abstract Disclosures

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