Pandya, Susan

Abstract Purpose: Mutant IDH1 (mIDH1) defines a therapeutically targetable subtype of intrahepatic cholangiocarcinoma (ICC), with the mIDH1 inhibitor ivosidenib approved for advanced disease. A subset of patients experiences prolonged disease stabilization; however, the molecular basis for eventual progression remains poorly defined. Experimental Design: We performed molecular profiling of matched baseline and postprogression circulating tumor DNA (ctDNA) samples from patients with mIDH1 ICC enrolled in the ClarIDHy phase III trial. Functional studies were conducted to characterize candidate resistance mechanisms. Results: Longitudinal ctDNA analysis of 18 patients treated with ivosidenib for >6 months revealed emergent genomic alterations in multiple cases. Acquired mutations in mitogen-activated protein kinase (MAPK) pathway genes (KRAS, NRAS, MAP2K1, NF1) were identified in five cases, with instances of concurrent alterations and/or high variant allele fractions (VAF). Additional candidate resistance events included a secondary IDH1 mutation and a hotspot IDH2 mutation, detected at low VAF in the same patient. Functional studies showed that these IDH mutations conferred sustained 2-hydroxyglutarate production and ivosidenib resistance, whereas MAPK activation blunted gene expression induced by ivosidenib plus IFNγ, a key therapeutic output of mIDH1 inhibition. In parallel, baseline ctDNA profiling of 81 patients revealed that ARID1A mutations and elevated mIDH1 VAF were associated with reduced clinical benefit. Conclusions: MAPK pathway alterations represent a recurrent mechanism of resistance to mIDH1 inhibition in ICC, whereas emergent IDH1/IDH2 mutations appear infrequent. Functional data suggest that MAPK-mediated resistance may involve impaired IFN signaling. These results support MAPK-directed combination strategies and highlight the utility of ctDNA profiling to identify predictive and resistance biomarkers in mIDH1-driven ICC.

Abstract Background: Ivosidenib (IVO) is a first-in-class oral inhibitor of the IDH1 mutant (mIDH) enzyme. In the ClarIDHy phase 3 study of previously treated patients with mIDH cholangiocarcinoma (CCA), IVO treatment led to improved progression-free survival (PFS) and overall survival (OS) vs placebo (median PFS: 2.7 vs. 1.4 months and OS 10.3 vs. 5.1 months, when adjusted for the 70% crossover rate; HR, 0.49 [95% CI, 0.34-0.70]; 1-sided P<0.001. Here, we studied the dynamics of mutations emerging after 6 months of IVO treatment using ctDNA analyses. Methods: Prior to enrollment, all subjects in ClarIDHy had IDH1 R132 mutations confirmed by a central NGS panel utilizing tumor biopsy tissue. Since post-progression tissue samples were unavailable, discovery of emerging mutations was limited to plasma ctDNA assessments. To explore molecular changes associated with acquired resistance, an analysis was performed on 18 subjects treated with IVO for ≥6 months (4 partial response; 12 stable disease, 2 NA) using matched baseline and end of treatment (EOT) samples (PGDx elioTM plasma complete, 521 gene panel). A subset of the oncogenic alterations identified were selected for confirmation by ddPCR analysis in ctDNA samples collected longitudinally. Longitudinal plasma 2HG levels were also evaluated. Results: This analysis identified several EOT mutations not present at baseline. The most common mutations were in the MAPK pathway, including activating KRAS, NRAS, and MAP2K1 mutations and loss-of-function NF1 mutations (6/18 patients, 33%). In 2/6 patients, multiple MAPK pathway mutations were detected. There was a range of variant allele frequencies (VAFs) of RAS alterations, including some that had comparable levels to the truncal mIDH, suggesting that MAPK activation may have made a major contribution to the burden of resistant disease. ddPCR analyses from longitudinal plasma samples from selected cases confirmed these findings. In addition, 2 patients had mutations affecting transcription/epigenetics (WT1 and KMT2C). Finally, only 1 patient had acquired mutations in IDH genes (IDH2-R172K and IDH1-G131V). The WT1, KMT2C, and IDH variants had a low VAF. Accordingly, EOT plasma 2HG levels were reduced vs pre-treatment levels in the patient with secondary mIDH, indicating a limited role in the overall emergence of resistance. Conclusion: Analyses of paired baseline/EOT samples suggest that multiple acquired mutations could contribute to IVO resistance, with oncogenic MAPK pathway alterations being the most common. Consistent with previous clinical studies conducted in AML, IDH1 second site mutations and isotype switching to IDH2, rarely emerge during IVO treatment. The lack of detectable mutations in the majority of patients could reflect the sensitivity of the NGS assay or a role for non-genetic mechanisms of resistance. Citation Format: Hatice Duygu Saatcioglu, Haley Ellis, Jinkai Wan, Sam Lubner, Milind Javle, Ghassan K. Abou-Alfa, James M. Cleary, Robin Kate Kelley, Mitesh J. Borad, Teresa Macarulla, Do Youn Oh, Camelia Gliser, Susan Pandya, Sung Chloe, Nabeel Bardeesy, Adriana Tron. Circulating tumor DNA analysis demonstrates newly emerging alterations in previously treated IDH1 mutated cholangiocarcinoma patients enrolled in the ClarIDHy study [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2025; Part 1 (Regular Abstracts); 2025 Apr 25-30; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2025;85(8_Suppl_1):Abstract nr 4648.

Abstract Purpose: To evaluate safety (primary endpoint), tolerability, pharmacokinetics, pharmacodynamic profile, and preliminary activity of the intravenous, pan-class I isoform PI3K/mTOR inhibitor PF-05212384 in patients with advanced solid tumors. Experimental Design: Part 1 of this open-label phase I study was designed to estimate the maximum-tolerated dose (MTD) in patients with nonselected solid tumors, using a modified continual reassessment method to guide dose escalation. Objectives of part 2 were MTD confirmation and assessment of preliminary activity in patients with selected tumor types and PI3K pathway dysregulation. Results: Seventy-seven of the 78 enrolled patients received treatment. The MTD for PF-05212384, administered intravenously once weekly, was estimated to be 154 mg. The most common treatment-related adverse events (AE) were mucosal inflammation/stomatitis (58.4%), nausea (42.9%), hyperglycemia (26%), decreased appetite (24.7%), fatigue (24.7%), and vomiting (24.7%). The majority of patients treated at the MTD experienced only grade 1 treatment-related AEs. Grade 3 treatment-related AEs occurred in 23.8% of patients at the MTD. No treatment-related grade 4–5 AEs were reported at any dose level. Antitumor activity was noted in this heavily pretreated patient population, with two partial responses (PR) and an unconfirmed PR. Eight patients had long-lasting stable disease (>6 months). Pharmacokinetic analyses showed a biphasic concentration–time profile for PF-05212384 (half-life, 30–37 hours after multiple dosing). PF-05212384 inhibited downstream effectors of the PI3K pathway in paired tumor biopsies. Conclusions: These findings demonstrate the manageable safety profile and antitumor activity of the PI3K/mTOR inhibitor PF-05212384, supporting further clinical development for patients with advanced solid malignancies. Clin Cancer Res; 21(8); 1888–95. ©2015 AACR.