(SCCOHT) Through Multikinase Inhibition Jessica D

Published OnlineFirst February 9, 2018; DOI: 10.1158/1078-0432.CCR-17-1928

Cancer Therapy: Preclinical Clinical Cancer Research Ponatinib Shows Potent Antitumor Activity in Small Cell Carcinoma of the Ovary Hypercalcemic Type (SCCOHT) through Multikinase Inhibition Jessica D. Lang1,William P.D. Hendricks1, Krystal A. Orlando2, Hongwei Yin1, Jeffrey Kiefer1, Pilar Ramos1, Ritin Sharma3, Patrick Pirrotte3, Elizabeth A. Raupach1,3, Chris Sereduk1, Nanyun Tang1, Winnie S. Liang1, Megan Washington1, Salvatore J. Facista1, Victoria L. Zismann1, Emily M. Cousins4, Michael B. Major4, Yemin Wang5, Anthony N. Karnezis5, Aleksandar Sekulic1,6, Ralf Hass7, Barbara C. Vanderhyden8, Praveen Nair9, Bernard E. Weissman2, David G. Huntsman5,10, and Jeffrey M. Trent1

Abstract

Purpose: Small cell carcinoma of the ovary, hypercalcemic type three SWI/SNF wild-type ovarian cancer cell lines. We further (SCCOHT) is a rare, aggressive ovarian cancer in young women identified ponatinib as the most effective clinically approved that is universally driven by loss of the SWI/SNF ATPase subunits RTK inhibitor. Reexpression of SMARCA4 was shown to confer SMARCA4 and SMARCA2. A great need exists for effective targeted a 1.7-fold increase in resistance to ponatinib. Subsequent therapies for SCCOHT. proteomic assessment of ponatinib target modulation in Experimental Design: To identify underlying therapeutic vul- SCCOHT cell models confirmed inhibition of nine known nerabilities in SCCOHT, we conducted high-throughput siRNA ponatinib target kinases alongside 77 noncanonical ponatinib and drug screens. Complementary proteomics approaches pro- targets in SCCOHT. Finally, ponatinib delayed tumor dou- filed kinases inhibited by ponatinib. Ponatinib was tested for bling time 4-fold in SCCOHT-1 xenografts while reducing efficacy in two patient-derived xenograft (PDX) models and one final tumor volumes in SCCOHT PDX models by 58.6% and cell-line xenograft model of SCCOHT. 42.5%. Results: The receptor tyrosine kinase (RTK) family was Conclusions: Ponatinib is an effective agent for SMARCA4- enriched in siRNA screen hits, with FGFRs and PDGFRs being mutant SCCOHT in both in vitro and in vivo preclinical models overlapping hits between drug and siRNA screens. Of multiple through its inhibition of multiple kinases. Clinical investigation potent drug classes in SCCOHT cell lines, RTK inhibitors were of this FDA-approved oncology drug in SCCOHT is warranted. only one of two classes with selectivity in SCCOHT relative to Clin Cancer Res; 1–12. 2018 AACR.

1Division of Integrated Cancer Genomics, Translational Genomics Research Introduction Institute (TGen), Phoenix, Arizona. 2Department of Pathology and Laboratory Medicine, Lineberger Cancer Center, University of North Carolina, Chapel Hill, Small cell carcinoma of the ovary, hypercalcemic type North Carolina. 3Collaborative Center for Translational Mass Spectrometry, (SCCOHT), a rare and aggressive form of ovarian cancer, is Translational Genomics Research Institute (TGen), Phoenix, Arizona. 4Depart- diagnosed in women at a median age of 24 years (range, 14 ment of Cell Biology and Physiology, Lineberger Cancer Center, University of months–47 years; ref. 1). Meta-analysis of 257 clinically anno- North Carolina, Chapel Hill, North Carolina. 5Department of Pathology and tated SCCOHT cases has shown a dismal 2-year survival rate Laboratory Medicine, University of British Columbia and Department of Molec- ular Oncology, British Columbia Cancer Research Centre, Vancouver, British less than 35%. The most effective treatment regimen based on this Columbia, Canada. 6Department of Dermatology, Mayo Clinic, Scottsdale, assessment is surgery, followed by aggressive high-dose chemo- Arizona. 7Department of Obstetrics and Gynecology, Hannover Medical School, therapy, radiation, and stem cell rescue (1, 2). The poor response Hannover, Germany. 8Department of Cellular and Molecular Medicine, University rates and extreme toxicity of this regimen necessitate identiﬁca- of Ottawa, and Cancer Therapeutics Program, Ottawa Hospital Research Insti- tion of effective, targeted treatments for these young patients. tute, Ottawa, Ontario, Canada. 9Molecular Response, San Diego, California. SCCOHTs are characterized by inactivating germline and somatic 10Department of Obstetrics and Gynaecology, University of British Columbia, Vancouver, British Columbia, Canada. mutations in the tumor suppressor SMARCA4 (also known as BRG1), resulting in concomitant protein loss in nearly Note: Supplementary data for this article are available at Clinical Cancer – Research Online (http://clincancerres.aacrjournals.org/). all cases (3 8). These SMARCA4 alterations occur amidst other- wise diploid SCCOHT genomes and very rare secondary muta- J.D. Lang and W.P.D. Hendricks contributed equally to this article. tions in other cancer genes (4, 8). SMARCA4 is one of two Corresponding Author: Jeffrey M. Trent, Translational Genomics Research mutually exclusive ATPase subunits of the SWI/SNF chromatin Institute (TGen), 445 North 5th Street, Phoenix, AZ 85004. Phone: 602-343- remodeling complex that plays a central role in regulation of 8419; Fax: 602-343-8448; E-mail: [email protected] transcriptional programs associated with differentiation. The doi: 10.1158/1078-0432.CCR-17-1928 alternative SWI/SNF ATPase, SMARCA2 (also known as BRM), 2018 American Association for Cancer Research. is also absent in SCCOHT due to epigenetic silencing (3, 7). Thus,

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by class, only RTK inhibitors (PD-161570) and metal chelators Translational Relevance (ammonium pyrrolidine dithiocarbamate) were selective hits Pathogenic mutations in SWI/SNF chromatin-remodeling in SMARCA4-mutant SCCOHT cells relative to three SWI/SNF complex members occur in approximately 20% of cancers, but wild-type ovarian cancer cell lines. Subsequent evaluation of a no targeted therapies that exploit a tumor's dependence on panel of FGFR/PDGFR–selective RTK inhibitors highlighted SWI/SNF dysfunction have yet shown clinical effect. Small cell ponatinib as the most potent tested agent in SCCOHT cell lines, carcinoma of the ovary, hypercalcemic type (SCCOHT) is a and an inducible SMARCA4 SCCOHT cell line demonstrates that rare and aggressive form of ovarian cancer affecting young restoration of SMARCA4 expression reduces the sensitivity of women. It is characterized by mutational inactivation of SCCOHT cells to ponatinib. These observations align with prior SMARCA4 and epigenetic silencing of SMARCA2, the mutually data in SWI/SNF–mutant rhabdoid tumor models in which exclusive ATPases of the SWI/SNF complex. Here, we demon- expression of the ponatinib target FGFR was shown to be asso- strate potency of the FDA-approved oncology drug ponatinib, ciated with SMARCB1 and SMARCA4 loss, conveying sensitivity a receptor tyrosine kinase (RTK) inhibitor whose targets to RTK inhibitors including ponatinib (26, 27). Furthermore, include PDGFRs, FGFRs, and EphAs, in SMARCA4-mutant activation of downstream AKT was shown to be elevated in SCCOHT cell and animal models. This work suggests that SMARCB1-deficient tumor models (28, 29) and dual inhibition ponatinib exploits SCCOHT's dependence on RTK signaling in of PDGFRa and FGFR1 in MRT cell lines was more effective than the context of SWI/SNF dysregulation and that ponatinib may specific inhibitors (30). Here, we additionally show via proteomic be effective in SCCOHT treatment. Preclinical identification of assessment of target engagement and downstream signaling that an effective, approved oncology drug holds promise for rap- ponatinib's effects in SCCOHT are also mediated by dependence idly improving outcomes for these young patients and war- on signaling of multiple RTKs. Finally, we show the ability of rants clinical investigation. ponatinib to significantly delay tumor progression in a cell line xenograft model of SCCOHT and markedly reduce tumor growth of patient-derived xenograft (PDX) models of SCCOHT, thereby prioritizing ponatinib for a clinical trial in SCCOHT patients. these tumors are driven by a unique genotype that fuels broad transcriptional dysregulation through SWI/SNF dysfunction. Several other tumor types are also universally characterized by Materials and Methods inactivation of SWI/SNF complex members, including thoracic Cell lines sarcomas bearing SMARCA4 mutation and SMARCA2 loss (9), BIN67 and SCCOHT-1 (SCCOHT), G401 and G402 (MRT), malignant rhabdoid tumors (MRT) that are universally charac- H522 (lung adenocarcinoma), and OVCAR-3, OVCAR-5, and terized by SMARCB1 (also known as SNF5) mutations alongside OVCAR-8 (SWI/SNF-wildtype high-grade serous ovarian cancer) SMARCA2 silencing and expression loss in 70% of cases (10, 11), cells were maintained in RPMI1640 (Thermo Fisher Scientific) and renal medullary cancers also characterized by SMARCB1 loss supplemented with 10% FBS (Thermo Fisher Scientific) and 1% (12, 13). Other cancers with a significant proportion of SWI/SNF penicillin/streptomycin (Thermo Fisher Scientific). A427 (lung mutations include ovarian clear cell carcinomas and endome- adenocarcinoma) and HepG2 (hepatocellular carcinoma) cells trioid carcinomas (50% and 30% with ARID1A loss, respec- were maintained in EMEM (Thermo Fisher Scientific) supple- tively; refs. 14, 15) and non–small cell lung cancers (NSCLC; mented with 10% FBS and 1% penicillin/streptomycin. COV434 10% of primary tumors with dual SMARCA4 and SMARCA2 cells, previously identified as derived from a juvenile granulosa loss; refs. 16, 17). Overall, an estimated 20% of human cancers cell tumor, have now been recategorized as SCCOHT based on bear potentially oncogenic mutations in one or more SWI/SNF SMARCA4 mutation and lack of SMARCA2 expression (24). complex subunits (18, 19). Thus, identification of therapeutic COV434 (SCCOHT) cells were maintained in DMEM (Thermo vulnerabilities in SWI/SNF–mutant cancers with relatively simple Fisher Scientific) supplemented with 10% FBS and 1% penicillin/ genomes, such as SCCOHT, may hold broader relevance for more streptomycin. SVOG3e (SV40-transformed ovarian cells) cells diverse cancers. were maintained in DMEM/F12 (Thermo Fisher Scientific) sup- Preclinical studies to date have suggested that several experi- plemented with 10% FBS and 1% penicillin/streptomycin. All mental agents such as foretinib (c-Met inhibitor), epothilone B cells were maintained at 37C in a humidified incubator contain- (tubulin inhibitor), or oncolytic viruses may be effective in ing 5% CO2. All cell lines were routinely monitored for myco- SCCOHT (20–22). We and others have also shown that investi- plasma testing and STR profiled for cell line verification. gational epigenetic agents, such as bromodomain and EZH2 Inducible SMARCA4 COV434 cells (COV434 pIND20 BRG1- inhibitors, may hold promise for treatment of these cancers 2.1 and 2.7) were established by lentiviral infection of COV434 (23–25). Yet, despite the prevalence of pathogenic SWI/SNF cells with pInducer20-Brg1. Resulting G418-resistant clones mutations in cancer, no approved targeted cancer drugs have yet were further subcloned and screened for doxycycline-inducible shown activity in the setting of loss of these tumor suppressors. To SMARCA4. Optimization of SMARCA4 induction by doxycy- identify novel therapeutic vulnerabilities conferred by SWI/SNF cline is shown in Supplementary Fig. S1. dysfunction in SCCOHT with a focus on identification of targeted FDA-approved oncology drugs, we performed high-throughput Western blotting siRNA and drug screens in SCCOHT cell lines. We identified Whole-cell extracts from cell lines were prepared using RIPA dependence on receptor tyrosine kinase (RTK) signaling both via buffer (Santa Cruz Biotechnology) with protease and phospha- enrichment for RTK hits in the siRNA screen as well as discovery of tase inhibitors using standard protocols. Thirty micrograms of SCCOHT hypersensitivity to the class-representative RTK inhib- protein was loaded per well on NuPage 4% to 12% Bis-Tris gels itor (RTKi) PD-161570 in the chemical screen. Of drug screen hits and subsequently transferred to PVDF membranes. Blots were

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preblocked in 5% nonfat dry milk in TBST or BSA in TBST for Tumor suspension in 50% Matrigel/50% media in a final volume 1 hour and probed using primary antibody overnight. Blots were of 100 mL were subcutaneously inoculated into the backs of NOG incubated with secondary antibody (anti-rabbit IgG-HRP, Cell (NOD.Cg-Prkdcscid Il2rgtm1Sug/JicTac) mice. Mice were random- Signaling Technology; anti-mouse IgG-HRP, Santa Cruz Biotech- ized to treatment arms (n ¼ 8) once the average tumor volume nology) at 1:5,000 for 2 hours and developed using Pierce ECL reached 100 to 400 mm3 (SCCOHT-1 model) or 75-125 mm3 Western Blotting Substrate or SuperSignal West Femto Substrate (PDX models). Ponatinib [Selleckchem or Activebiochem (Thermo Fisher Scientific). Primary antibodies (Cell Signaling (SCCOHT-1)] was formulated in 25 mmol/L citrate buffer (pH Technology) used were phospho-p38, total p38, phospho-Akt 2.75). Vehicle or ponatinib (15 or 30 mg/kg for SCCOHT-1 or T308, phospho-Akt S473, total Akt, and GAPDH. PDX models, respectively) was administered by oral gavage daily for 30 days or until humane endpoint (tumor reaches 1,000 Phospho-RTK profiling mm3). Tumor size and body weight were measured twice weekly For cell lines, BIN67 and SCCOHT-1 cells were treated with until endpoint. Tumors were excised upon necropsy and either m ponatinib at respective IC30,IC50, and 1 mol/L for 1 hour. For frozen or formalin fixed/paraffin embedded. pharmacodynamic studies on PDX tumor tissues, flash-frozen Chemical library, siRNA screens, activity-based protein profil- tumors following a 6-hour treatment with ponatinib or tumors ing (ABPP), MIB-MS, and RNA sequencing (RNA-Seq) methods collected at the efficacy study endpoint (>30 days) were used. are described in Supplementary Materials and Methods. Phospho-RTK profiling was performed using the Proteome Pro- filer Human Phospho-RTK Array Kit (R&D Systems) according to the manufacturer's recommendations. Briefly, cells were lysed and Results the BCA assay was performed to quantify protein concentration. A RTK dependency identified by an siRNA screen in the SCCOHT total of 300 mg of lysate was incubated on each blot overnight, and cell line BIN67 bound phosphorylated protein was detected using HRP-conju- In an effort to identify genetic dependencies in SCCOHT, high- gated anti–phospho-tyrosine antibody. Arrays were developed throughput siRNA libraries were used to test necessity of clinically using Pierce ECL Western Blotting Substrate (Thermo Fisher actionable genes or growth of the SCCOHT cell line BIN67. We Scientific) and images were quantified using ImageJ software transfected siRNAs targeting over 7,000 genes in both Druggable (NIH, Bethesda, MD) using built-in gel quantification and back- Genome (DGv3) and also custom kinome (vKINv4) libraries. ground subtraction tools. Duplicate spots were averaged for each Hits were determined on the basis of measurement of cell viability RTK, and ponatinib-treated samples were normalized to vehicle- reduction using CellTiter Glo measurements analyzed via a com- treated samples. bination of redundant siRNA activity score (RSA) P value ranking with ranking by mean signal intensity and utilizing a P value Animal studies cutoff of 0.05 (see Supplementary Materials and Methods for All procedures were carried out under the institutional guide- further detail). Of 246 genes from the DGv3 library and 81 genes lines of Translational Drug Development's Institutional Animal from the vKINv4 library identified as hits based on these criteria, Care and Use Committee or the Animal Care Committee of the 109 were also validated through independent confirmation that University of British Columbia (British Columbia, Canada; two of four siRNAs inhibited viability by >50% (See Supplemen- SCCOHT-1 model, A14-0290). For SCCOHT-1 xenograft experi- tary Materials and Methods and Supplementary Table S1). ments, 1 107 cells in 50% Matrigel/50% media (Corning) in a The ReactomeFI Cytoscape plugin was used to identify path- final volume of 200 mL were subcutaneously inoculated into the ways enriched in these validated hits (Table 1; ref. 31). Top backs of NRG (NOD.Cg-Rag1tm1Mom Il2rgtm1Wjl/SzJ) mice. For enriched gene sets were dominated by RTK signaling, including PDX experiments, histologically confirmed SMARCA4-mutant FGFRs, PDGFRs, and EGFRs alongside the AKT and MAPK sig- SCCOHT tumors PDX-465 and PDX-040 were acquired from naling cascades downstream of these RTKs. In the protein inter- Molecular Response (MRL) and serially passaged in mice (3). action network generated from gene hits using ReactomeFI, RTK

Table 1. Top pathways enriched in siRNA screen gene hits using ReactomeFI (Cytoscape) Ratio of proteins Number of proteins Proteins from Gene set in gene set in gene set network P FDR PIP3 activates AKT signaling (R) 0.0093 95 8 1.56E06 2.72E04 Signaling by FGFR4 (R) 0.0269 275 12 3.49E06 2.72E04 Signaling by FGFR3 (R) 0.0269 275 12 3.49E06 2.72E04 Signaling by FGFR2 (R) 0.027 276 12 3.62E06 2.72E04 Signaling by FGFR1 (R) 0.027 276 12 3.62E06 2.72E04 Signaling by ERBB2 (R) 0.0272 278 12 3.89E06 2.72E04 Signaling by interleukins (R) 0.0274 280 12 4.19E06 2.72E04 Signaling by EGFR (R) 0.029 296 12 7.32E06 3.91E04 DAP12 interactions (R) 0.0292 298 12 7.83E06 3.91E04 Signaling by PDGF (R) 0.0296 302 12 8.94E06 4.02E04 Regulation of actin cytoskeleton (K) 0.021 214 10 1.35E05 5.54E04 Signaling by SCF-KIT (R) 0.0259 265 11 1.46E05 5.55E04 Signaling by ERBB4 (R) 0.0263 269 11 1.68E05 5.87E04 NCAM signaling for neurite outgrowth (R) 0.0218 223 10 1.92E05 6.15E04 Calcium signaling pathway (K) 0.0175 179 9 2.13E05 6.38E04 Signaling by NGF (R) 0.0382 390 13 2.34E05 6.54E04 RAF/MAP kinase cascade (R) 0.0184 188 9 3.11E05 8.09E04 Signaling by type I insulin-like growth factor 1 receptor (IGF1R; R) 0.0236 241 10 3.69E05 9.23E04

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Figure 1. High-throughput screen network analysis. A, Protein interaction network constructed for RNAi validated screen hits using ReactomeFI network resources, as further described in the Supplementary Materials and Methods. Curated interactions are represented by solid edges with arrows for interactions involved in catalysis or activation and edges with "T" bar for inhibitory connections. Dotted edges are those interactions that are computationally predicted. Nodes in the network represent validated RNAi hits. Nodes with no edges are not pictured here (full validated hit list in Supplementary Table S3). Genes that were identiﬁed as PDGFR pathway members by ReactomeFI are highlighted in yellow; all other genes are colored in blue. B, Chemical hit entity association network for veriﬁed chemical hits and their targets and associated biological concepts in SCCOHT cell line, BIN67. RTK-associated hits are highlighted in the box.

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signaling similarly emerged as the central connected network, as driver mutations in SWI/SNF genes (Fig. 2C; portals.broadinsti- demonstrated by the PDGFR signaling pathway (Fig. 1A). tute.org/ccle). Responses of OVCAR-3, OVCAR-5, and OVCAR-8 All kinase hits from the two BIN67 siRNA screens were also cells in DDR assays were tested. OVCAR-3 was, on average, more plotted on a kinome tree to identify key kinase families on which resistant to the drugs, while OVCAR-5 and OVCAR-8 showed SCCOHT cells are reliant for growth (Supplementary Fig. S2). similar sensitivities to most drugs as the SCCOHT cell lines. Tyrosine kinases, particularly RTKs, were most strongly identified However, SCCOHT cell lines demonstrated unique sensitivity to among the kinase hits. A second pathway analysis method, only two drugs: PD-161570, an RTK inhibitor, and ammonium ClueGO, was used to visualize the biological concepts represented pyrrolidine dithiocarbamate, a metal chelator. in the top hits (Supplementary Fig. S3). This method also identified interaction between RTKs in top hits through functions in Targeted RTKi screens prioritize ponatinib as an FDA-approved cancer signaling, regulation of actin cytoskeleton, and cell adhe- oncology drug with selective potency in SCCOHT cell lines sion. Together, these data suggest a broad dependency of To further explore RTK dependence in the siRNA and chemical SCCOHT cells on RTK signaling networks. screens, we assessed sensitivity of BIN67 and SCCOHT-1 to 11 RTKi. We selected a subset of RTKi, particularly those targeting A high-throughput drug screen identifies selective potency of FGFRs and PDGFRs. DDR assays were performed (Fig. 2A and B) RTKi in SMARCA4-mutant SCCOHT cells relative to SWI/SNF in an expanded panel of cell lines with known defects in SWI/SNF wild-type ovarian cancers complex members, including SMARCB1- and SMARCA2-defi- In an effort to identify novel candidate drugs for targeted cient MRTs (G401 and G402) and SMARCA4- and SMARCA2- treatment of SCCOHT in an unbiased manner, high-throughput deficient lung cancer cell lines (A427 and H522), as well as the drug screens were performed in BIN67 cells using the LOPAC and SWI/SNF wild-type human granulosa cell line, SVOG3e. Although Prestwick libraries of a combined approximately 2,300 small IC50 values were variable across cell lines and RTK inhibitors, these molecules. All of these compounds are pharmacologically active lines were most sensitive to the broad-spectrum RTKi PD-166285 with well-annotated drug targets from a breadth of signaling and ponatinib. As ponatinib is an approved oncology drug for use pathways, and over half are approved for at least one clinical in leukemias, whereas PD-166285 is a tool compound, we fol- indication. We first identified compounds active in BIN67 lowed up on ponatinib for the remainder of our studies. SCCOHT cells, filtering out broadly cytotoxic drugs that also To determine specificity of ponatinib for SMARCA4-mutant showed effect in HepG2 cells. Hits were defined as agents that SCCOHT, we compared the IC50 values from DDR assays in reduced viability of BIN67 cells by >50% relative to HepG2 SCCOHT cell lines (BIN67, SCCOHT-1, and COV434) to SWI/ according to CellTiter Glo measurements at 72 hours posttreat- SNF wild-type ovarian cancer cell lines (OVCAR-3, OVCAR-5, ment (see Supplementary Materials and Methods for further and OVCAR-8) as described above for drug screen hits. SCCOHT detail). Sixty-four compounds reduced growth of BIN67 but not cell lines were on average 9-fold more sensitive to ponatinib HepG2 cells (Supplementary Table S2). Of these hits, 51 were next than SWI/SNF wild-type ovarian cancer cell lines, and the validated in 12-point drug dose–response (DDR) format in the most sensitive SWI/SNF wild-type ovarian cancer cell line was SCCOHT cell lines BIN67, SCCOHT-1, and COV434 as well as a 2-fold less sensitive than the least sensitive SCCOHT cell line (Fig. SMARCA4-wild-type human granulosa cell line SVOG3e and 2C). We then assessed the role of SMARCA4 loss in SCCOHT HepG2 cells. Of the 51 compounds tested, 42 were confirmed sensitivity to ponatinib by utilizing a SMARCA4-mutant SCCOHT to have IC50 values >10-fold lower in BIN67 cells than HepG2 cells cell line, COV434, with inducible reexpression of SMARCA4. (Supplementary Table S3). Generally, IC50 values from BIN67 COV434 pIND20-BRG1 clones and parental COV434 cells cells were similar to those in SCCOHT-1, COV434, and SVOG3e. were treated with or without doxycycline, and ponatinib sensi- The 42 validated drug hits were annotated on the basis of their tivity was assayed by DDR. Both inducible clones showed a 1.7- reported targets in preclinical literature and vendor database fold increase in ponatinib IC50 following SMARCA4 induction for annotations. This information was incorporated into a chemical 48 hours (Fig. 2D), demonstrating that restoration of SMARCA4 target/entity bipartite network and visualized using Cytoscape induces ponatinib resistance and supporting the hypothesis that (Fig. 1B). Network cliques with the highest number of connected SMARCA4 loss in SCCOHT is sufficient to confer ponatinib compounds were associated with microtubule targeting or DNA sensitivity. damage induction. These network cliques are representative of As ponatinib is known to be a broad RTKi, we sought to current standard treatments for SCCOHT, which include vinblas- determine whether we could infer the ponatinib target from tine, doxorubicin, and etoposide (2). An additional clique iden- overlap with the siRNA screen hits. Of known ponatinib targets, tified was cardiac glycosides, which is an interesting finding and including FLT3, KIT, FGFRs, PDGFRs, RET, and ABL (32–34), only have not been used previously for SCCOHT. The chemical librar- FGFR4, PDGFRA, and PDGFRB were validated siRNA screen hits in ies also included 27 RTKi, of which nine were EGFR inhibitors, BIN67 cells (Fig. 2E). two were IGF1R inhibitors, two were FGFR inhibitors, one was a PDGFR inhibitor, and the remaining targeted miscellaneous or Known RTK targets of ponatinib are expressed in SCCOHT unannotated RTKs. Two of these RTKi were identified as hits in the tumors, and downstream signaling is inhibited in response to validation set: PD-161570 and Tyrphostin A9. Although these ponatinib treatment agents are multi-RTK inhibitors, they have been shown to dem- Because ponatinib is known to broadly target several RTKs, onstrate some selectivity for FGFR1 and PDGFRs. we sought to determine which RTKs are widely expressed in Next, to determine selectivity of these drug screen hits for SCCOHT tumors. The expression of RTKs from RNA-Seq data SMARCA4-mutant SCCOHT among ovarian cancers, 20 drugs on four SCCOHT primary tumors was hierarchically clustered were chosen to represent the network cliques defined in Fig. 1B to identify the top expressed RTKs in these cancers (Fig. 3A). and were further screened in three ovarian cancer cell lines lacking The top expressed genes across the tumors included two known

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IC50 (μmol/L) A B RTK BIN67 Inhibitor BIN67 SCCOHT -1 G401 H522 SVOG3e A427 150 G402 PD-166285 PD166285 0.0648 0.004 0.094 0.033 0.097 0.251 0.010 y Ponatinib Ponatinib 0.333 0.005 0.233 0.046 0.098 0.457 0.108 BGJ398 Nintedanib 1.365 0.128 1.027 100 Dasatinib Dovitinib Pazopanib 2.203 0.035 0.404 BGJ398 3.6765 0.002 2.0405 0.011 0.003 3.553 0.441 50 Lucitanib 8.395 0.015 Dasatinib 8.650 1.300 0.025

v iabilit % Normalized Lenvatinib 11.542 0.069 5.110 0 Pazopanib 0.0001 0.01 1 100 10,000 11.690 0.110 3.953 µmol/L PD173074 12.3005 0.0005 9.271 0.247 0.006 7.071 AZD4547 14.540 0.002 0.876 C D E 150 4 Fold DOX IC ) 50 change ty 3 - 180.3 100

(μmol/L) Parental 1.03

50 + 185.8 2 50 - 1,060 Cell viabili pIND20- 1.63 control (% of G FP 1 Brg1.2.1 + 1,727 0

Ponatinib IC - 388.5 0 pIND20- 1.78 FGFR4 SWI/SNF wild-type Brg1.2.7 PDGFRAPDGFRB SCCOHT + 690 ovarian cancer siRNA Target

Figure 2. Sensitivity of SCCOHT and other SWI/SNF–mutant cell lines to RTK inhibition. A, DDR curves for various RTKi in BIN67 cells. Cell viability was assayed after 72-hour

treatment. B, Summary of IC50 values for RTKi tested in SCCOHT cell lines, along with selected agents tested in SWI/SNF–mutant MRT cell lines (G401 and G402) and lung cancer cell lines (A427 and H522) versus SWI/SNF-wild type immortalized granulosa cells (SVOG3e). Conditions not tested are in gray. C, Comparison

of IC50 values for ponatinib in SCCOHT cell lines (BIN67, SCCOHT-1, and COV434) versus ovarian cancer cell lines selected for their wild-type SWI/SNF status (OVCAR-3, OVCAR-5, and OVCAR-8). D, Fold change in ponatinib IC50 value following doxycycline treatment in parental COV434 cells and two COV434 pIND20 BRG1 clones (inducible SMARCA4). E, Cell viability of BIN67 cells following knockdown of ponatinib target genes. Known ponatinib target genes that were initial hits in the siRNA screen (FGFR4, PDGFRA, and PDGFRB) were validated in a secondary siRNA screen. Data shown are mean cell viability of three independent replicates of four distinct siRNAs relative to internal GFP-targeting siRNA control. All three target genes were considered validated hits based on criteria described in Materials and Methods.

ponatinib targets, PDGFRA and FGFR1,inadditiontoother in BIN67 and SCCOHT-1. This assay is a membrane-based sand- RTKs such as CSF1R, EPH5A, NTRK2,andERBB3.Tofunction- wich immunoassay that captures key RTKs and detects differ- ally confirm that ponatinib inhibits signaling downstream of ential pan-tyrosine phosphorylation in cell lysates across con- RTK activation, phosphorylation of p38 and Akt was examined ditions. The quantitation of these arrays is shown in Fig. 4A. Of in BIN67 cells (Fig. 3B), which demonstrated a reduction in the known ponatinib targets (highlighted in yellow), PDGFRa phosphorylation of p38, Akt S473, and Akt T308 following phosphorylation was both detected at a high level relative treatment with IC50 ponatinib (Fig. 3B). to other RTKs and also strongly inhibited by ponatinib in BIN67 cells only, but not in SCCOHT-1 cells. This discordance Functional characterization of ponatinib action reveals broad between BIN67 and SCCOHT-1 would suggest that ponatinib kinase targeting in SCCOHT cells inhibits unidentified kinases in SCCOHT cells to affect cell Because ponatinib is a broad RTKi, several orthogonal growth. Among previously unreported targets of ponatinib, approaches were undertaken to identify kinases inhibited by phosphorylation of EGFR in BIN67 and SCCOHT-1 cells was ponatinib in SCCOHT cells. First, RTK profiler arrays were greatly inhibited by ponatinib, which represented the only employed to screen for top RTKs inhibited by ponatinib treatment common candidate between the two cell lines. Other RTKs

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AB0 20 40 60 80 100 FPKM

RET MST1R NTRK1 NTRK3 STYK1 Ponatinib LMTK3 Vehicle EPHA8 INSRR AATK EPHA1 Phospho-p38 Figure 3. EPHA10 FGFR2 RTK expression in SCCOHT primary EPHB3 LTK ALK tumors and downstream RTK signaling FGFR4 Total-p38 FLT4 ROR1 inhibited by ponatinib in SCCOHT cells. KIT FGFR3 A, Expression of all RTK genes in four TYRO3 EPHB6 MUSK Phospho-Akt T308 SCCOHT primary tumors from RNA-Seq. ROR2 FLT3 FLT1 Expression is displayed in FPKM, and EPHA2 EPHA7 genes are hierarchically clustered. The six EGFR Phospho-Akt S473 EPHB2 DDR2 most highly expressed RTKs are in the TIE1 EPHB1 KDR inset. B, Phosphorylation of signaling EPHA3 Total-Akt IGF1R components downstream of RTKs is AXL TEK EPHB4 inhibited by ponatinib within INSR MERTK ErbB3 GAPDH DDR1 30-minute treatment in BIN67 cells at LMTK2 PTK7 NTRK2 IC (333 nmol/L). MET 50 ErbB2 EPHA5 PDGFRB ErbB4 PDGFRA EPHA6 EPHA4 RYK FGFR1 ROS1 ErbB3 CSF1R NTRK2 EPHA5 PDGFRA FGFR1 CSF1R TGEN-A TGEN-B TGEN-C TGEN-D strongly inhibited by ponatinib treatment in BIN67 cells alone kinases in the vehicle control–treated cells (Fig. 4C). Only include RYK, CSF1R, ALK, and TEK (Fig. 4A). seven differentially expressed kinases in BIN67 cells were iden- Given the divergent results of the RTK array assay between tified (Fig. 4C). Two overlapping kinases were identified in ponatinib sensitivity in SCCOHT-1 and BIN67, two additional both BIN67 and SCCOHT-1 cells: tyrosine kinase EphA7 and proteomic approaches (MIB-MS and ABPP) were undertaken STE-family kinase LOK (Fig. 4C). Interestingly, no RTK was to more fully characterize functional inhibition of kinases by significantly altered with ponatinib treatment in either cell line, ponatinib. Multiplexed kinase inhibitor bead-mass spectrometry which might represent a bias of this assay due to exclusion of (MIB-MS) uses beads to pull down kinases from a cell lysate in the active-site peptides via complementarity to other RTKs. Gen- presence or absence of an inhibitor such as ponatinib (35, 36). erally, tyrosine kinases and STE kinases were well represented in Binding of ponatinib to the kinase inhibits kinase binding to both cell lines. All kinase hits from phospho-RTK array, MIB- MIBs. Therefore, peptides corresponding to kinase targets are lost MS, and APBB approaches across cell lines and PDX models in the subsequent mass spectrometry analyses and thereby con- tested, as well as RNA expression levels in SCCOHT tumors are sidered hits. Because of ponatinib hypersensitivity in SCCOHT-1 summarized in Supplementary Table S7, which reiterates the cells, this line was tested using MIB-MS to identify additional conclusion of no common kinases being targets of ponatinib candidates for ponatinib targeting (full data in Supplementary across cell lines. Table S4). Kinase hits from most of the major kinase families were identified in SCCOHT-1 by this approach (Fig. 4B). Kinases were Ponatinib is effective in animal models of SCCOHT considered targets in this experiment if, in the vehicle control, they To determine ponatinib's promise as a potential therapy, we were overexpressed (19 kinases) or uniquely detected (24 tested its efficacy in animal xenograft models of SCCOHT. Mice kinases; Fig. 4B). FGFR1, FGFR2, and Src are known ponatinib bearing subcutaneous SCCOHT-1 xenograft tumors demonstrat- targets and were among the differentially expressed genes. These ed an initial inhibition of tumor growth following ponatinib kinases similarly displayed reduced phosphorylation in the RTK treatment, delaying tumor progression (Fig. 5A). Tumor doubling array, but only at a high dose comparable with that used for the times from 200 to 400 mm3 in each group were 1.88 0.64 days MIB-MS analysis, suggesting that other kinases might be more in vehicle-treated mice and 7.38 1.06 days in ponatinib-treated strongly inhibited by ponatinib at the relevant dose for cell death. mice (P < 0.0001). Treatment of SCCOHT-1 tumor-bearing mice Of the RTKs highly expressed in SCCOHT tumors (Fig. 3A), EphA5 with ponatinib similarly improved median survival by 44% (Fig. was also identified as a target of ponatinib in the MIB-MS 5B). To further assess the efficacy of ponatinib in patient-derived experiment (Fig. 4B). tumor models, we used two SCCOHT PDX models: PDX-465 and A complementary approach to determination of those kinase PDX-040. After 30 days of treatment, tumor growth rate was upon which ponatinib operates in SCCOHT, ABPP, uses chem- slowed in both PDX models, with statistically significant ical probes that covalently bind to the ATP-binding pocket of 58.6% and 42.5% decreases in tumor size relative to vehicle kinases and therefore can tag kinases with accessible and treatment in PDX-465 and -040, respectively (Fig. 5C and D). To conformationally active ATP-binding pocket in a protein lysate determine the pharmacodynamic effects of ponatinib in these in prior to mass spectrometry (full data in Supplementary Tables vivo models, RTK phosphorylation following ponatinib treatment S5 and S6; ref. 37). The same cutoff parameters described above for 6 hours and at the experimental endpoint (>30 days) was for MIB-MS were used for this dataset to determine unique and determined (Fig. 5E). Similarly to findings in SCCOHT cell lines, differentially expressed active kinases. In SCCOHT-1 cells, we RTK phosphorylation was broadly reduced in each PDX model. identified 13 differentially expressed kinases and 4 unique Some RTKs overlapped PDX models (i.e., IGF1R and EGFR) and

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AB MIB-MS EphA5 KHS1 Yes *GCK Src *TAO3 CSK *MAP2K5 EphA2 *CaMK2

A FGFR1 *SIK verage spot intensity FGFR2 p38 *EphB3 PCTAIRE2 *EphA3 *p38 *FYN *CLK1 *ABL1 IKK *ABL2 IKK *JAK3 GAK IRAK LIMK1 BRAF *RIPK2 *ZAK *TAK1 *TGF R2 MEKK3 HGK/ZC1 LOK

Unique in SCCOHT-1 DE in SCCOHT-1 DE in BIN67 C ABPP DE in SCCOHT-1 and BIN67 BIN67 SCCOHT-1 EphA7 EphA2 EphB2 EphA7 SLK CSK LOK FER VRK1 *IRAK4 PRP4 *ZAK NEK9 BRAF ILK KHS1 KHS2 TAO1 *GCK LOK CK1 LATS2 SGK1 *RSKL1 CHK2 ULK3 *ATM

Figure 4. RTK signaling inhibited by ponatinib in SCCOHT cells. A, Phospho-RTK array performed on lysates from BIN67 and SCCOHT-1 cells treated with ponatinib for 1 hour.

BIN67 IC30 ¼ 135 nmol/L, IC50 ¼ 333 nmol/L; SCCOHT-1 IC30 ¼ 2.37 nmol/L, IC50 ¼ 4.75 nmol/L. Background-normalized spot intensity relative to vehicle-treated control is represented as a heatmap, where blue indicates an increase in phosphorylation and red indicates a decrease. RTKs are arranged from top to bottom based on mean basal dot intensity. Known ponatinib targets are highlighted in yellow, kinases inhibited in both cell lines are outlined in orange, and kinases inhibited in one cell line only are outlined in green. B and C, Kinases identiﬁed from MIB-MS assay (B) and ABPP assay (C) in SCCOHT-1 cells (blue circles, 2 mmol/L,

biological triplicates) and BIN67 cells (red circles, IC50, 333 nmol/L technical replicates) or in both cell lines (yellow circles) mapped to kinase dendrogram. The gene lists are color-coded based on corresponding kinase family in the dendrogram. Atypical protein kinases are listed in black. Differentially expressed kinases are shown in lighter shaded circles. Uniquely expressed kinases are shown in darker shaded circles and are marked with an asterisk in the gene list.

SCCOHT cell lines (i.e., EGFR and EPHA5), whereas others were motherapy and radiation necessitate the identiﬁcation of effective unique to each PDX. targeted therapies for this disease. Discovery of universal disrup- tion of SWI/SNF complex function in SCCOHT through the loss of ATPase subunits SMARCA4 and SMARCA2 has made identi- Discussion ﬁcation of targeted therapeutic vulnerabilities possible. Further- High recurrence rates, extreme toxicity, and poor overall sur- more, several novel approaches to selective killing of SWI/SNF– vival in SCCOHT patients treated with standard high-dose che- mutant cancers have recently been explored. The SWI/SNF

OF8 Clin Cancer Res; 2018 Clinical Cancer Research

Average spot intensity Clin Cancer Res; 2018 ) growth with treatment with D Survival of SCCOHT-1 xenograft- B, ash-frozen PDX tumor tissues ﬂ ) or `040 ( C and analyzed as in Fig. 4A. Data represent the D and C Ponatinib Is Potent in Small Cell Carcinoma of the Ovary cacy studies in ﬁ Phospho-RTK array performed on lysates from on September 25, 2021. © 2018 American Association for E, E Tumor volumes of SCCOHT PDX model `465 ( Cancer Research. D, and 15 0 C Vehicle Ponatinib Vehicle Ponatinib SCCOHT-1 xenograft growth with treatment with vehicle or ponatinib. P = 0.0064 A, P = 0.0068 03 10 show tumor volumes at day 30. D 0 clincancerres.aacrjournals.org 02 5 and 3

PDX’465 PDX’040

C Ponatinib

Treatment time (days) Treatment time (days) Treatment Treatment time (days) Treatment Day 30 Ponatinib SCCOHT-1 Xenograft SCCOHT-1 Day Treatment time (days) Treatment P = 0.0023 P = 0.0333 Vehicle Ponatinib

Vehicle P = 0.0462 Ponatinib

SCCOHT-1 Xenograft SCCOHT-1

Published OnlineFirst February 9, 2018; DOI: 10.1158/1078-0432.CCR-17-1928 10.1158/1078-0432.CCR-17-1928 DOI: 2018; 9, February OnlineFirst Published Vehicle Vehicle = 0.0172 0 0

500 P

500

1,500 1,000

) Tumo m (m me volu r Tumor volume (mm volume Tumor )

3 3 01 0102030 0 0 5 10 15 20 25 0 0 0 0 50

500 500

100

500

Percent survival Percent 2,000 1,500 1,000 1,500 1,000 Tumor volume (mm ) (mm volume Tumor

Tumor volume (mm ) (mm volume Tumor 1,500 1,000

3 Tumor volume (mm ) (mm volume Tumor 3 D 3 C B A Downloaded from cacy of ponatinib in animal models of SCCOHT. ﬁ following treatment with ponatinib for 6 hours or at the experimental endpoint for the ef average of two tumors per group. vehicle or ponatinib. Insets in Figure 5. Ef bearing mice following treatment with vehicle or ponatinib. www.aacrjournals.org Published OnlineFirst February 9, 2018; DOI: 10.1158/1078-0432.CCR-17-1928

Lang et al.

complex normally functions to catalyze the movement and ejec- strated that top enriched pathways in the screen hits were FGFR tion of histones to regulate the accessibility of chromatin to gene and PDGFR signaling pathways. Although this screen did not expression machinery. Antagonism between SWI/SNF and the include a comparator line such as a SWI/SNF wild-type ovarian Polycomb Repressive Complex 2 (PRC2) described in Drosophila cancer cell line, this comparative approach would have had a high (38) has been recapitulated in human cells, where it has been likelihood of eliminating real therapeutic targets. RTKs and specifically shown that loss of SWI/SNF function leads to a downstream kinase signaling are frequently altered in cancer, and dependence on the repressive functions of PRC2 (39). For this thus, finding an appropriate comparator lacking kinase depen- reason, inhibitors of the PRC2 catalytic subunit, EZH2, have been dence through a separate mechanism would be challenging to examined in SMARCB1-mutant rhabdoid tumors, ARID1A- determine ahead of the screen. The role of the loss of SMARCA4, mutant ovarian clear cell carcinomas, SMARCA4-mutant NSCLCs, which is a defining feature of SCCOHTs for RTK dependence, was and SMARCA4-mutant SCCOHTs (24, 25, 39–42). Such agents demonstrated by the reduction in sensitivity of a SMARCA4- are now being examined in phase I and II clinical trials in inducible SCCOHT cell line, COV434, to ponatinib. SMARCB1-negative or rhabdoid-like tumors, such as MRTs and In addition to the overlap seen within our high-throughput SCCOHTs, but have not yet been approved for these indications. screens, previous work has demonstrated sensitivity of SWI/SNF– The SWI/SNF complex itself has also been identified as the major mutant MRTs to ponatinib (30). Mechanistically, our work sup- target of bromodomain inhibitors through direct interaction with ports data reported in SMARCB1-mutant MRTs, in which loss of bromodomain-containing SWI/SNF ATPases SMARCA2 and the core SWI/SNF subunit SMARCB1 results in elevated FGFR or SMARCA4 (43). This is a particularly attractive target in some PDGFR expression (26, 30). We similarly observed sensitivity of SMARCA4-deficient cancers in which residual SMARCA2 com- SCCOHT cell lines to ponatinib, a broad RTKi, as well as other RTK pensates in the absence of SMARCA4 as the functional SWI/SNF inhibitors with more specific drug profiles, such as PD-166285. ATPase (44). Such an approach has been shown to be ineffective PD-166285, a Pfizer compound developed 20 years ago (47), has in SCCOHT, however, where expression of both SWI/SNF shown limited promise in preclinical animal models (48) and ATPases has been lost (3). in vitro efficacy in other cancer models (49), but has not been The effects of PRC2 dependence on tumor suppressor silencing further developed toward clinical use. Despite PD-166285 being in SWI/SNF–mutant cancers are well studied. However, little is yet the most effective RTKi tested, the promise of this agent toward known about the effects of SWI/SNF dysfunction on the over- clinical development in a rare cancer precludes its clinical utility expression of oncogenes, such as RTKs, which might cause a tumor and was therefore not further studied in the context of a SCCOHT to develop unique and targetable dependencies. Here, we show therapeutic agent. Ponatinib was further prioritized on the basis data supporting that targeting RTK activation in tumors driven by of existing oncology approval for clinical use in chronic myeloid epigenetic defects may provide clinical benefit. Using high- leukemia and acute lymphoblastic leukemia. throughput siRNA and drug screens, our work has charted novel Multiple methods were integrated in an attempt to functionally therapeutic vulnerabilities in SCCOHT cells. These studies have identify a common target of ponatinib responsible for efficacy of not only confirmed in vitro sensitivity to cytotoxic drug classes this drug in SCCOHT. Criteria considered included (i) expression already utilized in SCCOHT treatment (e.g., tubulin inhibitors in SCCOHT primary tumors; (ii) requirement of expression for and DNA-damaging agents), but they have also pinpointed novel cell growth; and (iii) functional inhibition in the presence of drug classes, such as cardiac glycosides, not previously implicated ponatinib. Using these criteria, however, no common target was in treatment of SWI/SNF–mutant cancers. Overall, these data identified, both between the extensive methods described here converge on identification of hypersensitivity to the FDA- and the two SCCOHT cell lines. Furthermore, the sensitivity of approved multikinase inhibitor ponatinib and thereby empha- SCCOHT cells to other RTKi is inversely related to the specificity of size the importance of RTK signaling in these epigenetically the RTKi to its intended target. Together, this evidence suggests dysregulated tumors. general reliance of SCCOHT on multiple kinases such that a broad We generally observed a striking similarity in drug sensitivity kinase inhibitor such as ponatinib is effective. across the SCCOHT cell lines and SVOG3e. Although this obser- Similar findings of broad RTK inhibition were found in the vation strengthens the case for the sensitivity of SCCOHT tumors pharmacodynamics analysis of the two PDX models treated with to these agents, the similar sensitivity of SWI/SNF wild-type ponatinib. Within 6 hours of treatment in vivo, 17 and five RTKs SVOG3e cells indicates that most of these agents do not selectively were inhibited by greater than 2-fold in PDX-040 and PDX-465, target SWI/SNF–mutant cells. The cell of origin of SCCOHT respectively. The phosphorylation of many additional RTKs was remains unclear, but current understanding suggests derivation reduced to intermediate levels as well. Following >30 days of from a germ cell lineage (45) distinct from the cells from which treatment with ponatinib, tumor growth was significantly inhib- SVOG3e cells were derived. Further work must expand cell models ited, but was not completely blocked. This might be partially for each agent to better understand the relationship between cell explained by lack of a sustained inhibition of RTK signaling, as 3 lineage and drug response. Interestingly, previous reports have of 17 (18%) and 0 of 5 (0%) of these initially inhibited RTKs shown expression of PDGFRs and c-kit, known ponatinib targets, also demonstrated reductions in phosphorylation of greater than in granulosa cell tumors (46), suggesting convergent signaling 2-fold at the efficacy endpoint. Future studies will be needed to dependencies that may account for sensitivity to this drug in determine whether this lack of sustained RTK inhibition is the SCCOHT and SVOG3e cell lines. Additional work is required to cause of incomplete tumor growth inhibition and whether drug more completely characterize vulnerability of cancers with SWI/ dosing changes, such as more intermittent dosing, might improve SNF loss to the agents identified in this screen. drug response. In examining overlap between the 42 hits in the drug screen and When taken in combination with similar findings previously the 109 hits in the siRNA screen, RTKs were the primary point of reported in MRTs (26, 27, 30) and the observations in other SWI/ intersection. Network analysis of the siRNA screen data demon- SNF–mutant lung cancer cell lines reported here, we believe

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findings on ponatinib in SCCOHT and MRT models might be P. Ramos, P. Pirrotte, E.A. Raupach, N. Tang, M. Washington, M.B. Major, more broadly applicable to a larger set of "SWI/SNF-omas," or Y. Wang, B.E. Weissman, D.G. Huntsman cancers with mutations in the SWI/SNF complex. This group Writing, review, and/or revision of the manuscript: J.D. Lang, W.P.D. Hendricks, K.A. Orlando, H. Yin, R. Sharma, P. Pirrotte, M.B. Major, Y. Wang, accounts for up to 20% of all cancers and therefore has potential A.N. Karnezis, A. Sekulic, R. Hass, B.C. Vanderhyden, B.E. Weissman, for broader translational relevance. Our work also demonstrates D.G. Huntsman, J.M. Trent the efficacy of ponatinib in SCCOHT preclinical animal models. Administrative, technical, or material support (i.e., reporting or organizing Ponatinib was granted accelerated approval by the FDA in 2012 data, constructing databases): J.D. Lang, W.P.D. Hendricks, K.A. Orlando, for use in leukemias, but was briefly taken off the market after C. Sereduk, N. Tang, V.L. Zismann, R. Hass observation of serious vascular events. The FDA granted full Study supervision: W.P.D. Hendricks, H. Yin approval at the end of 2016 after completion of the phase II Acknowledgments PACE clinical trial. Ponatinib is currently being assessed for This work was supported by research funds from the Canadian Cancer fi ef cacy in a number of other cancers, including solid tumors, in Society Research Institute (#703458 to D.G. Huntsman), the NIH (R01 ongoing clinical trials. This work demonstrates significant prom- CA195670-01 to B.E. Weissman, D.G. Huntsman, and J.M. Trent, and T32 ise for ponatinib in improving SCCOHT patient outcomes and HL007106-39 to E.M. Cousins), the Terry Fox Research Institute Initiative warrants clinical investigation. New Frontiers Program in Cancer (#1021 to D.G. Huntsman), the British Columbia Cancer Foundation (to D.G. Huntsman), the VGH & UBC Founda- tion (to D.G. Huntsman), the Anne Rita Monahan Foundation (to P. Ramos), Disclosure of Potential Conflicts of Interest the Marsha Rivkin Center for Ovarian Cancer Research (to J.M. Trent), the No potential conflicts of interest were disclosed. Ovarian Cancer Alliance of Arizona (to J.M. Trent), the Small Cell Ovarian Cancer Foundation (to P. Ramos, J.D. Lang, B.C. Vanderhyden, and J.M. Trent), Authors' Contributions and philanthropic support to the TGen Foundation (to J.M. Trent). The authors thank Drs. Michael Humphries and Joseph Gozgit at ARIAD Pharmaceuticals Conception and design: J.D. Lang, W.P.D. Hendricks, K.A. Orlando, H. Yin, for their thoughtful discussions on ponatinib. They also thank the SCCOHT P. Ramos, N. Tang, A. Sekulic, B.E. Weissman, D.G. Huntsman, J.M. Trent patients, their families and communities, and the clinicians who have contrib- Development of methodology: W.P.D. Hendricks, H. Yin, P. Ramos, N. Tang, uted significantly to the motivation and feasibility of this work. B.C. Vanderhyden Acquisition of data (provided animals, acquired and managed patients, provided facilities, etc.): J.D. Lang, H. Yin, P. Ramos, R. Sharma, P. Pirrotte, The costs of publication of this article were defrayed in part by the payment of E.A. Raupach, C. Sereduk, N. Tang, W.S. Liang, S.J. Facista, V.L. Zismann, page charges. This article must therefore be hereby marked advertisement in E.M. Cousins, Y. Wang, B.C. Vanderhyden, P. Nair, B.E. Weissman, accordance with 18 U.S.C. Section 1734 solely to indicate this fact. D.G. Huntsman Analysis and interpretation of data (e.g., statistical analysis, biostatistics, Received July 5, 2017; revised November 27, 2017; accepted February 2, 2018; computational analysis): J.D. Lang, W.P.D. Hendricks, H. Yin, J. Kiefer, published first February 9, 2018.

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OF12 Clin Cancer Res; 2018 Clinical Cancer Research

Ponatinib Shows Potent Antitumor Activity in Small Cell Carcinoma of the Ovary Hypercalcemic Type (SCCOHT) through Multikinase Inhibition

Jessica D. Lang, William P.D. Hendricks, Krystal A. Orlando, et al.

Clin Cancer Res Published OnlineFirst February 9, 2018.

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