Actionable genomic landscapes from a real-world cohort of localized urothelial carcinoma patients.

Authors

null

Thomas Gerald

University of Texas Southwestern Medical Center, Dallas, TX

Thomas Gerald , Vitaly Margulis , Xiaosong Meng , Suzanne Cole , Qian Qin , Greg Call , Elizabeth Mauer , Yair Lotan , Solomon L. Woldu

Organizations

University of Texas Southwestern Medical Center, Dallas, TX, Tempus Labs, Chicago, IL

Research Funding

No funding received

Background: Recent targeted therapies for advanced and metastatic urothelial cancer have generated enthusiasm, but the actionable genomic landscape of early-stage disease remains largely unknown. Here, we used real-world evidence to investigate differences between somatic and germline mutations in localized, early-stage urothelial cancers and advanced urothelial cancers. Methods: We retrospectively analyzed de-identified NGS data from 1,146 bladder cancer patients (stages I-IV) with formalin-fixed, paraffin-embedded tumor biopsies sequenced using the Tempus|xT solid tumor assay (DNA-seq of 595-648 genes at 500x coverage; whole-exome capture RNA-seq). For the subset of patients with tumor-normal match sequencing (n=758), additional incidental germline alterations in 46 different genes were assessed. Results: A total of 1,146 bladder cancer tumors were investigated: stage I-II (n=124), stage III (n=159), and stage IV (n=863)—summarized in Table. Tumor mutational burden (TMB) was calculated for 1,126 tumors, and TMB-high (TMB-H; ≥10 mutations per megabase) was similar across tumor stages. PD-L1 immunohistochemical staining was performed on 698 tumors, and no significant differences were observed. Microsatellite instability high (MSI-H) status was detected in only 2 (1.6%) stage I-II tumors and 8 (0.9%) stage IV tumors. Alterations—single nucleotide variants, insertions/deletions, and copy number variants—in FGFR2/3, homologous recombination repair genes (18 genes including BRCA1/2 and ATM), additional DNA repair gene mutations (ERCC2, RB1, FANCC) and NTRK fusions were detected at similar frequencies across disease stages. In 758 patients with tumor/normal matched sequencing, we identified a low rate of incidental germline mutations in MUTYH (stage III, 1%; stage IV, 1.9%), BRCA2 (stages I-II, 1.2%; stage III, 1%; stage IV, 0.5%), BRIP1 (stages I-II, 1.2%), ATM (stage III, 1%; stage IV, 0.7%), MSH6 (stage III, 1%; stage IV, 0.2%), and TP53 (stage III, 1%; stage IV, 0.2%). Conclusions: Patients with bladder cancer have similar rates of potentially actionable mutations and genomic landscapes regardless of clinical disease stage. These findings provide a rationale for further investigating targeted therapies among early-stage bladder cancer patients.

Biomarker and Somatic Alterations
Stages I-II (n=124)
Stage III (n=159)
Stage IV (n=863)
p-value
TMB-H
34/124 (27.4%)
33/155 (20.8%)
183/847 (21.2%)
0.33
MSI-H
2/124
(1.6%)
0/157
(0%)
8/857
(0.9%)
0.34
PD-L1 Positive
31/82
(37.8%)
47/113
(41.6%)
168/503 (33.4%)
0.23
FGFR2/3 Mutations/Fusions
22 (17.7%)
28 (17.6%)
158 (18.3%)
>0.99
HRR Gene Mutations
23 (18.5%)
28 (17.6%)
158 (18.3%)
0.97


Additional DNA Repair Genes


ERCC2
3 (2.4%)
3 (1.9%)
11 (1.3%)
0.45
RB1
20 (16.1%)
36 (22.6%)
152 (17.6%)
0.26
FANCC
0 (0%)
0 (0%)
3 (0.3%)
>0.99
NTRK1/2/3 Fusion
0 (0%)
0 (0%)
2 (0.2%)
>0.99

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Abstract Details

Meeting

2022 ASCO Genitourinary Cancers Symposium

Session Type

Poster Session

Session Title

Poster Session B: Urothelial Carcinoma

Track

Urothelial Carcinoma

Sub Track

Translational Research, Tumor Biology, Biomarkers, and Pathology

Citation

J Clin Oncol 40, 2022 (suppl 6; abstr 525)

DOI

10.1200/JCO.2022.40.6_suppl.525

Abstract #

525

Poster Bd #

G12

Abstract Disclosures