Genomic landscape and immune phenotype of malignant pleural mesothelioma.

Authors

null

Meera Patel

Wayne State University/Karmanos Cancer Institute, Detroit, MI

Meera Patel , Andrew Elliott , Stephen V. Liu , Chul Kim , Luis E. Raez , Rebecca Feldman , Sachin Gopalkrishna Pai , Antoinette J. Wozniak , Misako Nagasaka , Gilberto Lopes , Alexander I. Spira , Edward S. Kim , Wolfgang Michael Korn , Hirva Mamdani

Organizations

Wayne State University/Karmanos Cancer Institute, Detroit, MI, CARIS Life Sciences, Irving, TX, Georgetown University, Washington, DC, Room 417 (pod B, second floor), Washington, DC, Memorial Cancer Institute, Florida International University, Miami, FL, Caris Life Sciences, Phoenix, AZ, Robert H. Lurie Cancer Center of Northwestern University, Chicago, IL, Hillman Cancer Center University of Pittsburgh, Pittsburgh, PA, Barbara Ann Karmanos Cancer Institute, Detroit, MI, University of Miami Health System, Miami, FL, Virginia Cancer Specialists, Fairfax, VA, Levine Cancer Institute/Atrium Health, Charlotte, NC, University of California San Francisco, San Francisco, CA

Research Funding

No funding received
None

Background: Malignant pleural mesothelioma (MPM) is a relatively uncommon malignancy with poor prognosis and no major therapeutic breakthroughs over the past decade. Better understanding of the genomic landscape and distribution of immune biomarkers in this disease has the potential to enable development of novel therapies. Methods: We analyzed molecular profiles of 222 MPM tumors using next-generation sequencing of 592 genes utilizing Caris Life Sciences platform. Genes were grouped into pathways: DNA damage repair (DDR) (ATM, BRCA2, BRIP1, BAP1, CHEK2, ERCC2, FANCA/D2/E/L, MLH1, MSH6, MUTYH, NBN, PMS2, RAD50/51B, WRN), cell cycle regulation including TP53 (RB1,CCNE1, CDKN2A, CCND1, CCND3, CDKN1B), chromatin remodeling (CR) (ARID2, ASXL1, DNMT3A, EP300, EZH2, KDM6A, KMT2C, KMT2D, NSD3, PBRM1, SMARCB1/A4, SETD2), RAS/MAPK (KRAS, MAP2K1, NF1, NF2), and PI3K/AKT (AKT, PIK3CA, PIK3R1/R2, PTEN, RICTOR, TSC1, TSC2, ZNF703). Tumor mutational burden (TMB), PD-L1 expression (SP142 IHC, tumor staining), and MSI/MMR were analyzed. Seventy-two cases also had whole transcriptome sequencing data. Differences in alterations were compared for age, gender, and pathways. Results: Median age of patients (pts) was 72 yr (range, 37-90), 73% were male. Gene pathway alterations were seen in 81% of cases. DDR, specifically homologous recombination (HR), was the most commonly mutated pathway (36.9%), followed by RAS (25.2%) and CR (18.9%). Genes mutated in ≥5% of cases included BAP1 (26.3%), NF2 (23.5%), TP53 (15.5%), SETD2 (10.2%). PD-L1 was high (≥50% tumor cells positive) in 11.4% (n = 24), intermediate (1-49%) in 31.4% (n = 66), and negative ( < 1%) in 57.1% (n = 120) pts. TMB was high (≥10 mutations/Mb) in 9.6% of tumors (n = 20). None of the tumors were dMMR/MSI-H. HR gene BAP1 and CR gene SETD2 mutations trended to be more prevalent in pts ≥70 yo (p = 0.02). CR trended to be more commonly mutated in females (p = 0.02). No other significant differences were found in specific gene/pathway alterations, PD-L1 expression, or TMB in the context of age and gender. Distribution of PD-L1 expression was not different among various pathways. No highly recurrent, targetable fusion isoforms were seen among the 85 identified (mean 1.1 fusions/tumor), which have not yet been characterized for pathogenicity. Conclusions: The majority of MPM tumors harbor alteration in one of the key cellular pathways. HR pathway mutations are the most common. The majority of tumors were PD-L1 negative and carry low TMB indicating low immunogenicity. No age and gender specific differences exist except for BAP1 and SETD2 mutations.

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Abstract Details

Meeting

2020 ASCO Virtual Scientific Program

Session Type

Poster Session

Session Title

Lung Cancer—Non-Small Cell Local-Regional/Small Cell/Other Thoracic Cancers

Track

Lung Cancer

Sub Track

Mesothelioma

Citation

J Clin Oncol 38: 2020 (suppl; abstr 9056)

DOI

10.1200/JCO.2020.38.15_suppl.9056

Abstract #

9056

Poster Bd #

249

Abstract Disclosures

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