cdk4/6 inhibition with lerociclib enhances response …...ex vivo pdx responses to drug combinations...

1
RESEARCH POSTER PRESENTATION DESIGN © 2015 www.PosterPresentations.com In pancreatic ductal adenocarcinoma (PDAC), mutations in KRAS and deletion or promoter methylation of CDKN2A resulting in deregulation of the p16/CDK4/6/Rb axis each occur in over 90% of cases. Combination therapy approaches targeting KRAS effectors and CDK4/6 may therefore be a promising strategy for treatment in a majority of PDAC patients. Lerociclib (G1T38) is an oral, potent, and selective CDK4/6 inhibitor in clinical development as a potential backbone for multiple combination regimens in cancer. Preclinical and early clinical data have demonstrated that lerociclib is differentiated based on its favorable safety/tolerability profile and ability to be dosed continuously with less dose-limiting neutropenia. The goal of this study was to identify effective lerociclib-based drug combinations and the associated biomarkers for PDAC treatment. Introduction Methods Lerociclib significantly enhances the response to PI3K or ERK inhibition in a substantial proportion of tested PDAC PDXs as measured by AUC analysis in the LTSA platform. Differential gene expression analysis using PDAC PDX RNA-seq data identifies gene enrichment signatures and gene pathways associated with PDX model treatment sensitivity. Validation of effective combinatorial treatment with additional PDX models is underway and may support clinical evaluation of lerociclib-based drug combinations in PDAC. Results Lerociclib enhances the response to ERK inhibition in a KRAS-mutant PDX model in vivo Conclusions O'Leary B, Finn RS, Turner Nat Rev Clin Oncol. 2016 Jul;13(7):417-30. Roife, D., et al. Clinical Cancer Research, Mar. 2016. Bisi JE, Sorrentino JA, Jordan JL, Darr DD, Roberts PJ, Tavares FX, Strum JC. Oncotarget. 2017 Jun 27 Acknowledgements This work was supported by G1 Therapeutics through sponsored research agreement, Viragh Family Foundation, and NCI Cancer Center Support Grant (P30CA016672) We used an ex vivo drug screening platform, the live tissue sensitivity assay (LTSA), to evaluate the ability of lerociclib to synergize with 6 inhibitors of KRAS effectors across a panel of 24 well-characterized PDAC patient-derived xenografts (PDXs), including 20 PDXs with KRAS mutations and 5 PDXs with co-occurring KRAS and CDKN2A mutations. Ex vivo PDX responses to drug combinations were analyzed alongside RNA-seq data to identify gene signatures associated with tumor responses. Drug combination synergies were further validated with in vivo PDX models. Bioinformatic analyses were conducted through correlation of gene expression with treatment responses. GSEA-preranked pathway analysis was conducted using ranked lists of genes from correlation analyses. Bingbing Dai 1 , Daniel M. Freed 2 , Jessica A. Sorrentino 2 , Jithesh Jose Augustine 1 , Christopher A. Bristow 3 , Caleb A. Class 3 , Tara G. Hughes 1 , Ya’an Kang 1 , Patrick J. Roberts 2 , Jason B. Fleming 4 , and Michael P. Kim 1 1 Department of Surgical Oncology, UT MD Anderson Cancer Center, Houston TX; 2 G1 Therapeutics, Research Triangle Park, NC; 3 Center for Co-clinical Trials, UT MD Anderson Cancer Center, 4 Department of Gastrointestinal Medical Oncology, Moffitt Cancer Center, Tampa, FL. CDK4/6 inhibition with lerociclib enhances response to PI3K or ERK inhibitors in high-throughput, ex vivo pancreatic PDX screens References Identification of responder and non-responder PDX models to Lerociclib-based combinatorial treatments Figure 2. Tumor tissue slices were treated with 0.3 μM, 1 μM, and 3 μM of lerociclib, alone and in combination with identical concentrations of a PI3K (pictilisib), mTOR (AZD2014), MEK (trametinib), ERK (ulixertinib), BRAF (vemurafenib) or EGFR (erlotinib) inhibitor for 72 hours. The responses of each PDX to different treatments were evaluated by assessing the reduction of area under the dose-response curve (AUC) for the combination treatment compared to the single-agent KRAS effector inhibitor treatment. Top 3 responders and bottom 3 non-responders are shown as representative examples. Figure 1. PDX tumors were sectioned into uniform tissue slices at 200 μm thickness and arrayed in 96-well plates. For each PDX model, tumor tissue slices were treated with multiple doses of inhibitors for 72 hours. The viabilities of individual tissue slices were measured with PrestoBlue® and fluorescence readings were normalized to non-treatment controls. Figure 6. PATX179 model (KRAS G12V) was used for an in vivo experiment in which PDX-bearing mice (n = 4-5 per group) were treated with vehicle, lerociclib (50 mg/kg, qd), ulixertinib (50 mg/kg, bid), or lero + uli combination for 38 days. All drugs were given by oral gavage. Tumor volume changes (%) were calculated and plotted as mean ± SEM. Figure 4. Differential gene expression analysis identified gene signatures associated with responses to lerociclib + ulixertinib, and GSEA preranked identified pathways associated with non-responsive (red) and responsive (blue) PDX models. Gene set membership in top panel, correlation with AUC (in middle panel, and median-centered log2-expression data in bottom panel. Side panel presents the “pathway ratio” (the log2-ratio of gene expression for pathways associated with non-responsive vs. responsive PDX models) and the measured AUC ratios for non-responsive (brown) and responsive (purple) PDX models. Ex Vivo Tissue Slice Assay (LTSA) Gene Signatures associated with tumor responses to Lerociclib + Ulixertinib treatment REACTOME_SRP_DEPENDENT_COTRANSLATIONAL_PROTEIN_TARGETING_TO_MEMBRANE REACTOME_PEPTIDE_CHAIN_ELONGATION KEGG_RIBOSOME REACTOME_INFLUENZA_VIRAL_RNA_TRANSCRIPTION_AND_REPLICATION KEGG_SYSTEMIC_LUPUS_ERYTHEMATOSUS R NR REACTOME_RNA_POL_I_PROMOTER_OPENING REACTOME_RNA_POL_I_TRANSCRIPTION R NR REACTOME_INTEGRIN_ALPHAIIB_BETA3_SIGNALING Correlation with AUC PATX179 PATX137 PATX110 PATX147 PATX122 PATX66 PATX69 PATX70 PATX153 PATX43 PATX102 PATX124 PATX53 PATX39 PATX126 PATX55 PATX204 PATX136 PATX118 PATX148 PATX155 PATX142 SHC1 SOS1 VWF FGG GTF2H3 TAF1B GTF2H2 GTF2H1 POLR1B MNAT1 HIST2H2BF HIST1H2AI HIST1H2AK HLA.DMA HIST1H2AG FCGR3B CD86 HLA.DRB5 HLA.DRA HLA.DPA1 ACTN4 CD28 H2BFWT HIST2H2AB HLA.DOB CD40 C3 HLA.DQB1 HLA.DQA1 HIST1H2BN HIST2H3C HIST2H3A HIST1H3H HIST2H4A HIST1H2BD HIST1H2AC HIST1H2BK HIST1H3B HIST2H2AA4 HIST1H2BO HIST1H2BJ HIST1H4I HIST1H2BC HIST2H4B HIST2H3D HIST1H3J HIST1H4D HIST4H4 HIST2H2AA3 HIST1H3D HIST1H2AD POLR2F IPO5 POLR2H POLR2E POLR2D GTF2F1 GRSF1 RPL22L1 RSL24D1 RPL36AL EEF2 EEF1A1 RPL29 RPS24 SRPRB SSR4 RPN1 SPCS1 SSR2 SRP9 SRP68 SRP14 SEC11A SEC61B SEC61A1 SRP72 SEC11C RPS14 RPL27 RPS7 RPS18 FAU RPL35A RPL27A RPL3 RPL21 RPL22 RPS12 RPL10 RPS8 RPL34 RPS23 RPL39 RPL23 RPL31 RPL10A RPS11 RPL32 RPL4 RPL26 RPL37A RPL12 RPL38 RPL14 RPL13A RPS25 RPSA RPL19 RPS28 RPS15 RPS10 RPS3A RPL23A RPS27 RPL36 RPS5 RPL18A RPS4Y1 RPS17 UBA52 Pathway Ratio AUC Figure 3. Heat map plotting the AUC ratio of combination treatment compared to single agent KRAS effector to illustrate the intensity and frequency of response enhancements across each drug combination. Combinatorial drug treatment enhances the antitumor effects of Lerociclib Responders Non-responders Gene signature enrichments associated with response or resistance to Lerociclib-based combinations Figure 5. Pathway analysis with GSEA preranked identified enriched pathways associated with response or non-response of PDXs to drug combinations.

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Page 1: CDK4/6 inhibition with lerociclib enhances response …...Ex vivo PDX responses to drug combinations were analyzed alongside RNA-seq data to identify gene signatures associated with

RESEARCH POSTER PRESENTATION DESIGN © 2015

www.PosterPresentations.com

In pancreatic ductal adenocarcinoma (PDAC), mutations in

KRAS and deletion or promoter methylation of CDKN2A –

resulting in deregulation of the p16/CDK4/6/Rb axis – each

occur in over 90% of cases. Combination therapy approaches

targeting KRAS effectors and CDK4/6 may therefore be a

promising strategy for treatment in a majority of PDAC

patients. Lerociclib (G1T38) is an oral, potent, and selective

CDK4/6 inhibitor in clinical development as a potential

backbone for multiple combination regimens in cancer.

Preclinical and early clinical data have demonstrated that

lerociclib is differentiated based on its favorable

safety/tolerability profile and ability to be dosed continuously

with less dose-limiting neutropenia. The goal of this study

was to identify effective lerociclib-based drug combinations

and the associated biomarkers for PDAC treatment.

Introduction

Methods

• Lerociclib significantly enhances the response to PI3K or

ERK inhibition in a substantial proportion of tested

PDAC PDXs as measured by AUC analysis in the LTSA

platform.

• Differential gene expression analysis using PDAC PDX

RNA-seq data identifies gene enrichment signatures and

gene pathways associated with PDX model treatment

sensitivity.

• Validation of effective combinatorial treatment with

additional PDX models is underway and may support

clinical evaluation of lerociclib-based drug combinations

in PDAC.

Results

Lerociclib enhances the response to ERK

inhibition in a KRAS-mutant PDX model in vivo

Conclusions

• O'Leary B, Finn RS, Turner Nat Rev Clin Oncol. 2016

Jul;13(7):417-30.

• Roife, D., et al. Clinical Cancer Research, Mar. 2016.

• Bisi JE, Sorrentino JA, Jordan JL, Darr DD, Roberts PJ,

Tavares FX, Strum JC. Oncotarget. 2017 Jun 27

AcknowledgementsThis work was supported by G1 Therapeutics through sponsored

research agreement, Viragh Family Foundation, and NCI Cancer

Center Support Grant (P30CA016672)

We used an ex vivo drug screening platform, the live tissue

sensitivity assay (LTSA), to evaluate the ability of lerociclib

to synergize with 6 inhibitors of KRAS effectors across a

panel of 24 well-characterized PDAC patient-derived

xenografts (PDXs), including 20 PDXs with KRAS

mutations and 5 PDXs with co-occurring KRAS and

CDKN2A mutations. Ex vivo PDX responses to drug

combinations were analyzed alongside RNA-seq data to

identify gene signatures associated with tumor responses.

Drug combination synergies were further validated with in

vivo PDX models. Bioinformatic analyses were conducted

through correlation of gene expression with treatment

responses. GSEA-preranked pathway analysis was

conducted using ranked lists of genes from correlation

analyses.

Bingbing Dai1, Daniel M. Freed2, Jessica A. Sorrentino2, Jithesh Jose Augustine1, Christopher A. Bristow3, Caleb A. Class3, Tara G. Hughes1, Ya’an Kang1, Patrick J. Roberts2, Jason B. Fleming4,

and Michael P. Kim1

1Department of Surgical Oncology, UT MD Anderson Cancer Center, Houston TX; 2G1 Therapeutics, Research Triangle Park, NC; 3 Center for Co-clinical Trials, UT MD Anderson Cancer

Center, 4Department of Gastrointestinal Medical Oncology, Moffitt Cancer Center, Tampa, FL.

CDK4/6 inhibition with lerociclib enhances response to PI3K or ERK inhibitors in high-throughput, ex vivo pancreatic PDX screens

References

Identification of responder and non-responder PDX models to Lerociclib-based combinatorial treatments

Figure 2. Tumor tissue slices

were treated with 0.3 µM, 1

µM, and 3 µM of lerociclib,

alone and in combination with

identical concentrations of a

PI3K (pictilisib), mTOR

(AZD2014), MEK (trametinib),

ERK (ulixertinib), BRAF

(vemurafenib) or EGFR

(erlotinib) inhibitor for 72

hours. The responses of each

PDX to different treatments

were evaluated by assessing

the reduction of area under the

dose-response curve (AUC) for

the combination treatment

compared to the single-agent

KRAS effector inhibitor

treatment. Top 3 responders

and bottom 3 non-responders

are shown as representative

examples.

Figure 1. PDX tumors were sectioned into uniform tissue

slices at 200 µm thickness and arrayed in 96-well plates. For

each PDX model, tumor tissue slices were treated with

multiple doses of inhibitors for 72 hours. The viabilities of

individual tissue slices were measured with PrestoBlue® and

fluorescence readings were normalized to non-treatment

controls.

Figure 6. PATX179 model (KRAS G12V) was used for an in

vivo experiment in which PDX-bearing mice (n = 4-5 per

group) were treated with vehicle, lerociclib (50 mg/kg, qd),

ulixertinib (50 mg/kg, bid), or lero + uli combination for 38

days. All drugs were given by oral gavage. Tumor volume

changes (%) were calculated and plotted as mean ± SEM.

Figure 4. Differential gene expression analysis identified gene signatures associated with responses to lerociclib + ulixertinib, and GSEA preranked

identified pathways associated with non-responsive (red) and responsive (blue) PDX models. Gene set membership in top panel, correlation with

AUC (in middle panel, and median-centered log2-expression data in bottom panel. Side panel presents the “pathway ratio” (the log2-ratio of gene

expression for pathways associated with non-responsive vs. responsive PDX models) and the measured AUC ratios for non-responsive (brown) and

responsive (purple) PDX models.

Ex Vivo Tissue Slice Assay (LTSA)

Gene Signatures associated with tumor responses to Lerociclib + Ulixertinib treatmentREACTOME_SRP_DEPENDENT_COTRANSLATIONAL_PROTEIN_TARGETING_TO_MEMBRANE

REACTOME_PEPTIDE_CHAIN_ELONGATION

KEGG_RIBOSOME

REACTOME_INFLUENZA_VIRAL_RNA_TRANSCRIPTION_AND_REPLICATION

KEGG_SYSTEMIC_LUPUS_ERYTHEMATOSUS R NR

REACTOME_RNA_POL_I_PROMOTER_OPENING

REACTOME_RNA_POL_I_TRANSCRIPTION R NR

REACTOME_INTEGRIN_ALPHAIIB_BETA3_SIGNALING

Correlation with AUC

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Figure 3. Heat map plotting the AUC ratio of

combination treatment compared to single

agent KRAS effector to illustrate the intensity

and frequency of response enhancements

across each drug combination.

Combinatorial drug treatment enhances the antitumor effects of Lerociclib

Responders Non-responders

Gene signature enrichments associated with response

or resistance to Lerociclib-based combinations

Figure 5. Pathway analysis with GSEA preranked identified

enriched pathways associated with response or non-response of

PDXs to drug combinations.