Cited by 106Lung Cancer Treatments and MutationsProtein Kinase Regulation and GTPase SignalingHippo pathway signaling and YAP/TAZ

Genome-Wide CRISPR Screens Identify Multiple Synthetic Lethal Targets That Enhance KRASG12C Inhibitor Efficacy

Open access
Mukhopadhyay, Suman, Huang, Hsin-Yi, Lin, Ziyan, Ranieri, Michela, Li, Shuai, Sahu, Soumyadip, Liu, Yingzhuo, Ban, Yi +18 more·2023·Cancer Research

Published version of a preprint

Abstract

Non–small lung cancers (NSCLC) frequently (∼30%) harbor KRAS driver mutations, half of which are KRASG12C. KRAS-mutant NSCLC with comutated STK11 and/or KEAP1 is particularly refractory to conventional, targeted, and immune therapy. Development of KRASG12C inhibitors (G12Ci) provided a major therapeutic advance, but resistance still limits their efficacy. To identify genes whose deletion augments efficacy of the G12Cis adagrasib (MRTX-849) or adagrasib plus TNO155 (SHP2i), we performed genome-wide CRISPR/Cas9 screens on KRAS/STK11-mutant NSCLC lines. Recurrent, potentially targetable, synthetic lethal (SL) genes were identified, including serine–threonine kinases, tRNA-modifying and proteoglycan synthesis enzymes, and YAP/TAZ/TEAD pathway components. Several SL genes were confirmed by siRNA/shRNA experiments, and the YAP/TAZ/TEAD pathway was extensively validated in vitro and in mice. Mechanistic studies showed that G12Ci treatment induced gene expression of RHO paralogs and activators, increased RHOA activation, and evoked ROCK-dependent nuclear translocation of YAP. Mice and patients with acquired G12Ci- or G12Ci/SHP2i-resistant tumors showed strong overlap with SL pathways, arguing for the relevance of the screen results. These findings provide a landscape of potential targets for future combination strategies, some of which can be tested rapidly in the clinic. Significance: Identification of synthetic lethal genes with KRASG12C using genome-wide CRISPR/Cas9 screening and credentialing of the ability of TEAD inhibition to enhance KRASG12C efficacy provides a roadmap for combination strategies. See related commentary by Johnson and Haigis, p. 4005

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Crossref · 10.1158/0008-5472.can-23-2729

Cites

76 of 76 references verified0 citation errors · 0 not checkable

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Claims the paper makes

0 of 58 cited sources checked · 0 supported · 0 flagged

  • Findingown data

    RNA-seq of MRTX-849-treated H2030 and H2122 cells separated control and treated groups by unsupervised clustering.

    “Unsupervised clustering clearly separated control and treated groups in both lines”
    Quote in the paperNot a substantial claim
  • Findingown data

    Similar increases in nuclear YAP were observed in H2122, H23, and MiaPaca2 cells.

    “Similar results were obtained with other NSCLC lines (H2122, H23) and with the PDAC cell line MiaPaca2”
    Quote in the paperNot a substantial claim
  • Findingown data

    Genome-wide CRISPR/Cas9 screens identified genes whose inactivation enhances MRTX-849 efficacy alone or with TNO-155 in four KRAS G12C-mutant NSCLC cell lines.

    “we used genomewide CRISPR/Cas9 screening to identify genes whose inactivation enhances the efficacy of MRTX-849 alone or in combination with TNO-155 in four KRAS G12C -mutant NSCLC cell lines.”
    Quote in the paperSubstantial claim
    • Rests on an assumption: The four KRAS G12C-mutant NSCLC cell lines with STK11 and KEAP1 co-mutations are representative of KRAS G12C-mutant NSCLC with these co-mutations.
    • Rests on an assumption: CRISPR/Cas9 dropout under drug treatment in these cell lines identifies genes whose inactivation enhances drug efficacy.
  • Findingown data

    In H2030 cells, TEAD reporter activity increased more than sixfold after MRTX-849 treatment at IC50 for 48 hours.

    “TEAD reporter activity increased by >6-fold in G12Ci-treated cells (Fig. 3A).”
    Quote in the paperSubstantial claim
  • Findingown data

    MRTX-849 treatment increased nuclear YAP in H2030 cells starting at 4 hours and peaking at 24-48 hours.

    “MRTX-849 treatment also increased levels of nuclear YAP in H2030 cells, beginning at 4 hours and peaking at 24-48 hours”
    Quote in the paperSubstantial claim
  • May combine two claims. 46
  • Classified as probably not a substantial claim. 36
  • May combine two claims.

    Findingown data

    More than 40 genes were depleted at FDR<0.1 in at least three of the four cell lines, and about 330 dropped out in at least two.

    “More than 40 genes were depleted (FDR<0.1) in at least three lines (Fig. 1D); even more (~330) “dropped out” in at least two (Supplementary Table 2).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Overexpression of TEAD1, WWTR1, YAP1, or constitutively active YAP S6A in KCL cells caused resistance to MRTX-849.

    “Conversely, overexpression of TEAD1 (Fig. 2D; Supplementary Fig. 2D), WWTR1 (Fig. 2E; Supplementary Fig. 2E), YAP1 (Fig. 2F; Supplementary Fig. 2F), or a constitutively active, nucleus-restricted form of YAP1 (38), YAP S6A (Fig. 2G; left panel; Supplementary Fig. 2G) in “KCL” cells (derived from KRAS G12C ;Stk11-/-mice; see Methods) caused drug resistance.”
    Quote in the paperSubstantial claim0 of 1 sources checked
    • cites [38] Rosenbluh, 2012, beta-Catenin-driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis, Cell source

      Not checked in the free run.

  • May combine two claims.

    Findingown data

    Novel parallel targets among shared synthetic lethal pathways included DNA damage/Fanconi anemia, heparan sulphate metabolism, glycosylation, and translation initiation.

    “Others included potential novel, parallel targets, including DNA damage (Fanconi anemia pathway), heparan sulphate metabolism, glycosylation, and translation initiation pathways”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Hippo (YAP/TAZ) pathway genes were enriched among dropouts from three of four lines; TEAD1 and WWTR1 were each synthetic lethal in two lines, and YAP1 showed significant dropout in H2030.

    “Genes belonging to the Hippo (YAP/TAZ) pathway (colored blue) were enriched in dropouts from 3/4 lines; moreover, TEAD1 and WWTR1 (encoding TAZ) were each SL in two lines, while YAP1 showed significant dropout in H2030”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Expected shared synthetic lethal pathways included MAPK family signaling, PI3K/AKT/mTOR, FGF, PDGF, autophagy, C-MYC, and E2F targets.

    “including MAPK Family Signaling, PI3K/AKT/mTOR Signaling, FGF Signaling, PDGF Signaling, Autophagy, C-MYC Pathway and E2F targets.”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Findingown data

    Enrichr analysis found synthetic lethal pathways shared in at least two lines, with most common to three or four.

    “Enrichr analysis revealed SL pathways (p<0.05)shared in at least two lines, with most common to three or four (Fig. 1E).”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Findingown data

    Genes encoding VRK1, RIOK2, PKN, elongator components ELP2/3/4/5, metabolic genes PGD/PGM3, and EXT1/EXT2 were among the depleted hits.

    “including three serine/threonine kinases (VRK1, RIOK2, PKN), multiple components of the elongator complex (ELP2, ELP3, ELP4, ELP5), metabolic genes (PGD, PGM3), and genes (EXT1, EXT2) involved in heparan sulfate biosynthesis”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    At full doses, MRTX-849 was active against KCL syngeneic tumor grafts and H2030 xenografts, producing complete responses after 30 days.

    “At full doses (100 mg/kg/d), MRTX-849 is quite active against KCL syngeneic tumor grafts and H2030 cell-derived xenografts, resulting in complete responses (no detectable tumor) after 30 days of treatment.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    ELP5 was a significant synthetic lethal gene in the MRTX-849 plus TNO-155 screen, and ELP5 siRNA enhanced the effect of that drug combination.

    “ELP5 also scored as a significant SL gene in the MRTX-849 + TNO-155 screen (Fig. 4A), and ELP5 siRNA enhanced the effect of this combination (Fig. 7F).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Several genes were synthetic lethal with single-agent MRTX-849 and with MRTX-849/TNO-155, while others were unique to one treatment.

    “Several genes were SL with single agent MRTX-849 and with MTRX-849/TNO-155 (indicated in red); others were unique to one treatment”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Adding SHP099 to MRTX-849 after recurrence produced partial responses, but tumors resistant to both agents soon recurred.

    “Addition of SHP099 resulted in partial responses, but tumors resistant to both agents (Combo-resistant tumors) soon recurred”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    TEAD and/or TAZ were induced in RPPAs of nodules from MRTX-849/SHP099-treated mice.

    “Notably, TEAD and/or TAZ were also induced in RPPAs of nodules from MRTX-849/SHP099-treated mice”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Hippo and RHO GTPase signaling genes were enriched in both resistant patient tumors, along with glycolysis, MYC, glycosylation, and mTOR signaling genes.

    “Importantly, Hippo and RHO GTPase signaling genes were enriched in both resistant tumors, along with glycolysis, MYC, glycosylation and mTOR signaling genes.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Shared synthetic lethal pathways in combination screens included PI3K/mTOR signaling, glycolysis, and N-linked glycosylation; pathways unique to combination-treated cells included Signaling by ALK and Central Carbon Metabolism.

    “shared SL pathways (PI3K/mTOR signaling, Glycolysis, N-linked glycosylation) were identified, but those (Signaling by ALK, Central Carbon Metabolism) unique to combination-treated cells also emerged”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    After drug withdrawal, tumors recurred, indicating some malignant cells remained.

    “Some malignant cells remain, however, because after drug withdrawal, tumors recur.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    TEAD1 or TEAD4 were hits in the MRTX849/TNO155 screen, and Hippo signaling genes were enriched as synthetic lethal in the combination screen.

    “Notably, TEAD1 or TEAD4 were hits in the MRTX849/TNO155 screen (Supplementary Fig. 4D), and genes annotated “Hippo signaling” were enriched as SL in the combination screen (Fig. 4B).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingcitation

    Some hits from earlier CRISPR screens overlap with shared dependencies found in this study, including ELP3, ELP4, PKN2 and RPN1 in H358, EXT1, WWTR1 and SHOC2 in MIAPaCa-2, and PGM3 in the 2D component of the 2D versus 3D screen.

    “The “hits” in the earlier papers reveal some shared dependencies with our study (e.g., ELP3, ELP4, PKN2, RPN1 in the H358 screen; EXT1, WWTR1, SHOC2 in MIAPaCa-2 cells, PGM3 in the 2D component of the 2D vs 3D screen; compare with Fig. 1D with References 43,44).”
    Quote in the paperNot a substantial claim0 of 2 sources checked
    • cites [43] Yu, 2015, Hippo pathway in organ size control, tissue homeostasis, and cancer, Cell source

      Not checked in the free run.

    • cites [44] Totaro, 2018, YAP/TAZ upstream signals and downstream responses, Nat Cell Biol source

      Not checked in the free run.

  • May combine two claims.

    Findingown data

    MYF-03-176 and VT-104 showed higher IC50s in YAP1-overexpressing KCL cells, arguing their effects were on-target.

    “MYF-03-176 and VT-104 each showed higher IC50s (combined with MRTX-849 at its IC50 dose) in YAP1 over-expressing KCL cells, arguing that their effects were on-target”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    VRK1, ELP3 and ELP5 expression were significantly increased in the AMG-510-resistant patient sample, while RIOK2 levels were only nominally increased.

    “VRK1, ELP3, and ELP5 expression were significantly increased in the AMG-510-resistant patient sample, while RIOK2 levels were nominally increased (Supplementary Table S10).”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Findingown data

    Inhibiting the RHO effector ROCK blocks MRTX-849-induced YAP nuclear translocation and adaptive resistance.

    “inhibiting the RHO effector ROCK blocks MRTX-849-induced YAP nuclear translocation and adaptive resistance.”
    • Also stated in: § STATEMENT OF SIGNIFICANCE · plain
      “ROCK inhibitor treatment impairs MRTX-849-induced YAP1 nuclear localization.”
    Quote in the paperSubstantial claim
  • Classified as probably not a substantial claim.

    Findingnone given

    VRK2 is expressed in NSCLC.

    “By contrast, VRK2 is expressed in NSCLC.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    The study validated two kinases, VRK1 and RIOK2, and two tRNA-modifying enzymes, ELP3 and ELP5, that scored as G12C inhibitor synthetic lethal genes.

    “we also validated two kinases (VRK1, RIOK2) and two tRNA-modifying enzymes (ELP3, ELP5) that scored as G12Ci SL genes.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    YAP/TAZ pathway activation is a known resistance mechanism to RAF V600E and MEK inhibitors.

    “YAP/TAZ pathway activation is also a known mechanism of resistance to other targeted therapies, including RAF V600E and MEK inhibitors (36).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [36] Nguyen, 2019, YAP/TAZ signaling and resistance to cancer therapy, Trends Cancer source

      Not checked in the free run.

  • May combine two claims.

    Interpretationcitation

    Multiple intrinsic and acquired resistance mechanisms to G12C inhibitors are known, and drug combinations will likely be required to maximize their clinical efficacy in NSCLC and other diseases.

    “Multiple mechanisms of intrinsic and acquired resistance (10,12,13), have been identified; hence, drug combinations will likely be needed to maximize the clinical efficacy of G12Cis (and probably other, emerging KRAS inhibitors) in NSCLC and other diseases.”
    Quote in the paperSubstantial claim0 of 3 sources checked
    • cites [10] Janne, 2022, Adagrasib in non-small-cell lung cancer harboring a KRAS(G12C) mutation, N Engl J Med source

      Not checked in the free run.

    • cites [12] Skoulidis, 2021, Sotorasib for lung cancers with KRAS p.G12C mutation, N Engl J Med source

      Not checked in the free run.

    • cites [13] de Langen, 2023, Sotorasib versus docetaxel for previously treated non-small-cell lung cancer with KRAS(G12C) mutation: a randomised, open-label, phase 3 trial, Lancet source

      Not checked in the free run.

  • May combine two claims.

    Interpretationown data

    The study's results credential TEAD inhibition as a strategy to enhance adagrasib and likely sotorasib response and identify other potentially druggable combination targets.

    “Our results credential TEAD inhibition as a potential strategy for enhancing adagrasib (and likely sotorasib) response and identify multiple other potentially “druggable” targets for combination therapy.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Co-mutations of tumor suppressor genes such as TP53, SMARCA4, STK11, and/or KEAP1 commonly accompany KRAS mutations.

    “Concomitant mutation or deletion (hereafter, “co-mutations”) of different tumor suppressor genes (e.g., TP53, SMARCA4, STK11, and/or KEAP1) typically occur in concert with KRAS mutations (4,5).”
    Quote in the paperNot a substantial claim0 of 2 sources checked
    • cites [4] Arbour, 2018, Effects of co-occurring genomic alterations on outcomes in patients with KRAS-mutant non-small cell lung cancer, Clin Cancer Res source

      Not checked in the free run.

    • cites [5] Skoulidis, 2015, Co-occurring genomic alterations define major subsets of KRAS-mutant lung adenocarcinoma with distinct biology, immune profiles, and therapeutic vulnerabilities, Cancer Discov source

      Not checked in the free run.

  • Classified as probably not a substantial claim. May combine two claims.

    Premisecitation

    RHO/ROCK signaling can promote YAP activation, and Rhoa is required for mutant Kras-induced NSCLC in mice.

    “RHO/ROCK signaling can promote YAP activation; also, Rhoa is required for mutant Kras-induced NSCLC in mice (42).”
    Quote in the paperSubstantial claim0 of 1 sources checked
    • cites [42] Konstantinidou, 2013, RHOA-FAK is a required signaling axis for the maintenance of KRAS-driven lung adenocarcinomas, Cancer Discov source

      Not checked in the free run.

  • May combine two claims.

    Premisecitation

    G12C inhibitor plus SHP2 inhibitor combinations such as TNO155 and RMC-4550 have been validated preclinically and are being explored clinically.

    “For example, combinations of G12Ci and SHP2 inhibitors (SHP2i) such TNO155 (14) and RMC-4550 (15) have been validated pre-clinically and are now being explored in the clinic (NCT04699188, NCT05480865).”
    Quote in the paperNot a substantial claim0 of 2 sources checked
    • cites [14] Weiss, 2022, Discovery, preclinical characterization, and early clinical activity of JDQ443, a structurally novel, potent, and selective covalent oral inhibitor of KRASG12C, Cancer Discov source

      Not checked in the free run.

    • cites [15] Ryan, 2022, KRAS(G12C)-independent feedback activation of wild-type RAS constrains KRAS(G12C) inhibitor efficacy, Cell Rep source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    KRAS driver mutations occur in about 25-30% of NSCLC cases, and roughly half of these are G12C.

    “Mutations in KRAS drive 25-30% of NSCLC cases (1)(2)(3); approximately half of these mutations convert glycine 12 to cysteine (G12C).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites (1)(2)(3)

      Not checked in the free run.

  • May combine two claims.

    Premisecitation

    In NSCLC, G12C inhibitors produce overall response rates of 30-40%, disease control around 60%, and median duration under one year.

    “While these drugs clearly have clinical activity, overall response rates (30-40%) and disease control (~60%) in NSCLC are modest and transient, with median duration less than one year (9,10).”
    Quote in the paperSubstantial claim0 of 2 sources checked
    • cites [9] Dy, 2023, Long-term outcomes and molecular correlates of sotorasib efficacy in patients with pretreated KRAS G12C-mutated non-small-cell lung cancer: 2-year analysis of CodeBreaK 100, J Clin Oncol source

      Not checked in the free run.

    • cites [10] Janne, 2022, Adagrasib in non-small-cell lung cancer harboring a KRAS(G12C) mutation, N Engl J Med source

      Not checked in the free run.

  • May combine two claims.

    Interpretationown data

    The findings indicate that nuclear YAP1 and/or TAZ binding TEAD1 or other TEAD family members can antagonize G12Ci action and cause resistance.

    “Collectively, these findings indicate that YAP1 and/or TAZ, acting in the nucleus by binding TEAD1 (or other TEAD family members), can antagonize G12Ci action and cause resistance.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    TEAD inhibitors are in clinical trials for NF2-mutant mesothelioma and other indications.

    “TEAD inhibitors are in clinical trials for NF2-mutant mesothelioma and other indications (e.g., NCT05228015 and NCT04665206) (35).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [35] Pobbati, 2023, Therapeutic targeting of TEAD transcription factors in cancer, Trends Biochem Sci source

      Not checked in the free run.

  • May combine two claims.

    Interpretationcitation

    RHO levels are probably lower in STK11-deficient than in STK11-replete cells, and therefore too low to drive enough YAP translocation and activation to cause resistance.

    “Hence, RHO levels are likely to be lower in STK11-/-, compared with STK11-replete cells, and thus inadequate to drive sufficient YAP translocation/activation to confer resistance.”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Premisecitation

    SHP2 inhibition enhances G12Ci action in vitro and in mice.

    “We and others reported previously that SHP2 inhibition enhances G12Ci action in vitro and in mice (16,45,46)”
    Quote in the paperSubstantial claim0 of 3 sources checked
    • cites [16] Fedele, 2021, SHP2 inhibition diminishes KRASG12C cycling and promotes tumor microenvironment remodeling, J Exp Med source

      Not checked in the free run.

    • cites [45] Ryan, 2020, Vertical pathway inhibition overcomes adaptive feedback resistance to KRAS(G12C) inhibition, Clin Cancer Res source

      Not checked in the free run.

    • cites [46] Ahmed, 2019, SHP2 drives adaptive resistance to ERK signaling inhibition in molecularly defined subsets of ERK-dependent tumors, Cell Rep source

      Not checked in the free run.

  • Classified as probably not a substantial claim.

    Premisecitation

    LKB1, encoded by STK11, antagonizes YAP activation by activating a PAR1-Scribble-MST2-LATS pathway.

    “previous work showed that LKB1 (encoded by STK11) antagonizes YAP activation by activating a PAR1->Scribble->MST2->LATs pathway”
    Quote in the paperSubstantial claim0 of 1 sources checked
    • cites [58] Adachi, 2023, Scribble mis-localization induces adaptive resistance to KRAS G12C inhibitors through feedback activation of MAPK signaling mediated by YAP-induced MRAS, Nat Cancer source

      Not checked in the free run.

  • May combine two claims.

    Interpretationown data

    The findings suggested that MRTX-849 treatment evokes a transcriptional program leading to increased integrin activation, cytoskeletal reorganization, actomyosin contractility, RHO activation, and YAP/TAZ pathway activation.

    “Collectively, these findings suggested that MRTX-849 treatment evokes a transcriptional program leading to increased integrin activation, cytoskeletal reorganization, actomyosin contractility, RHO activation and, consequently YAP/TAZ pathway activation.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Study design and conductown data

    Mice were randomized to treatment groups when tumor volumes reached about 100 mm3 for syngeneic grafts or about 300 mm3 for xenografts.

    “When tumor volumes reached ~100 mm 3 (for syngeneic grafts) or ~300 mm 3 (for xenografts), mice were randomized to the following groups: vehicle control, MRTX-849 (100 mg/kg/d), VT104 (10 mg/kg/d), and MRTX-849 (100mg/kg/d) and VT104 (10 mg/kg/d).”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    Adachi and colleagues reported that G12C inhibitor treatment causes Scribble mislocalization, which reduces MST2/LATS suppression of YAP nuclear localization.

    “They reported that G12Ci treatment induces Scribble mislocalization, which leads to decreased MST2/LATS suppression of YAP nuclear localizaton.”
    Quote in the paperNot a substantial claim
  • May combine two claims.

    Interpretationreasoning

    These feedback pathways dampen YAP activation in STK11-deficient cells, which helps explain why such cells are not fully resistant to G12C inhibitors.

    “which dampen YAP activation in STK11-deficient cells and help explain this apparent paradox.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Earlier work links the YAP/TAZ/TEAD pathway to resistance to other targeted therapies, including MEK and BRAF V600E inhibitors.

    “These findings comport with previous results implicating the YAP/TAZ/TEAD pathway in resistance to other targeted therapies (40,41) including MEKi and BRAF V600E inhibitors (36,55).”
    Quote in the paperNot a substantial claim0 of 4 sources checked
    • cites [40] Franklin, 2023, Insights into recent findings and clinical application of YAP and TAZ in cancer, Nat Rev Cancer source

      Not checked in the free run.

    • cites [41] Piccolo, 2023, YAP/TAZ as master regulators in cancer: modulation, function and therapeutic approaches, Nat Cancer

      Not checked in the free run.

    • cites [36] Nguyen, 2019, YAP/TAZ signaling and resistance to cancer therapy, Trends Cancer source

      Not checked in the free run.

    • cites [55] Han, 2020, CRISPR screens in cancer spheroids identify 3D growth-specific vulnerabilities, Nature source

      Not checked in the free run.

  • May combine two claims.

    Premiseown data

    VT-104 is a clinical grade, non-covalent, pan-TEAD inhibitor that binds the TEAD palmitate pocket.

    “VT-104 is a clinical grade, non-covalent, pan-TEAD inhibitor that also binds this pocket.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Premisecitation

    MYF-03-69 is a tool compound that covalently binds the conserved TEAD palmitate pocket, irreversibly disrupting YAP-TEAD association and suppressing TEAD1-4 transcriptional activity.

    “MYF-03-69 is a tool compound that binds covalently to the conserved TEAD palmitate pocket, irreversibly disrupting YAP-TEAD association and suppressing TEAD1-4 transcriptional activity (48).”
    Quote in the paperSubstantial claim0 of 1 sources checked
    • cites [48] Fan, 2022, Covalent disruptor of YAP-TEAD association suppresses defective Hippo signaling, eLife source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    Preliminary results indicate that the TEAD inhibitor VT3989 is safe with manageable toxicity.

    “preliminary results indicate that at least one, VT3989, is safe with manageable toxicity (19).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [19] Olivieri, 2021, Genome-scale chemogenomic CRISPR screens in human cells using the TKOv3 library, STAR Protoc source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Other TEAD inhibitors are already being tested in phase 1 clinical trials.

    “Other TEAD inhibitors are already in phase 1 clinical trials (NCT05228015 and NCT04665206)”
    Quote in the paperNot a substantial claim0 of 2 sources checked
    • cites NCT05228015

      Not checked in the free run.

    • cites NCT04665206

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    Hagenbeek and colleagues developed allosteric TEAD inhibitors and showed that they block adaptive resistance to G12C inhibitor treatment.

    “Hagenbeek et al. (56) reported the development of allosteric TEAD inhibitors and demonstrated their ability to block adaptive resistance to G12Ci treatment”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [56] Dey, 2020, Targeting the Hippo pathway in cancer, fibrosis, wound healing and regenerative medicine, Nat Rev Drug Discov source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S2 (checkable). May combine two claims.

    Interpretationreasoning

    The need for combination therapy is especially pressing for NSCLC with STK11 and/or KEAP1 co-mutations and for other KRAS G12C tumor types such as colorectal cancer.

    “This need is particularly acute for the NSCLC subgroups with co-mutations in STK11 and/or KEAP1, as well as for tumors of other histotypes (e.g., CRC) with KRAS G12C mutations.”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Adachi and colleagues observed G12C inhibitor-induced YAP translocation in STK11-replete H358 cells and in the STK11-deficient LU65 line.

    “Adachi et al. also observed G12Ci-induced YAP translocation in STK11-replete H358 cells and in LU65 cells, which are STK11-/-”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Adachi and colleagues found effects of YAP1 deficiency similar to TEAD inhibition in a small number of NSCLC lines and H358 xenografts.

    “Adachi et al. (57) found similar effects of YAP1 deficiency in a limited number of NSCLC lines and H358 xenografts.”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [57] Hagenbeek, 2023, An allosteric pan-TEAD inhibitor blocks oncogenic YAP/TAZ signaling and overcomes KRAS G12C inhibitor resistance, Nat Cancer source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Study design and conductnone given

    Cell lines were tested for mycoplasma contamination by PCR 5-7 days after thawing.

    “Lines were tested for mycoplasma contamination by PCR 5-7 days after thawing.”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Multiple SHP2 inhibitors are in clinical trials for KRAS G12C-mutant tumors and other indications.

    “multiple SHP2i are in clinical trials for KRAS G12C -mutant tumors and other indications (e.g., NCT05480865, NCT03565003, NCT04916236, NCT04699188) (47).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [47] Kerr, 2021, Allosteric SHP2 inhibitors in cancer: Targeting the intersection of RAS, resistance, and the immune microenvironment, Curr Opin Chem Biol source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Study design and conductnone given

    Animal studies were approved by the Institutional Animal Care and Use Committee at New York University Grossman School of Medicine and adhered to the Guide for the Care and Use of Laboratory Animals.

    “All animal studies were approved by the Institutional Animal Care and Use Committee at New York University Grossman School of Medicine and adhered to the guidelines stipulated in the Guide for the Care and Use of Laboratory Animals.”
    Quote in the paperNot a substantial claim
  • Classified as probably not a substantial claim. May combine two claims.

    Interpretationreasoning

    The study's results offer a landscape of candidate targets for future combination strategies, some of which can be tested quickly in the clinic and others of which need new drug development.

    “Our results provide a landscape of potential new targets for future combination strategies, some of which can be tested rapidly in the clinic, others of which will require new drug development.”
    Quote in the paperSubstantial claim
  • Classified as probably not a substantial claim. May combine two claims.

    Study design and conductnone given

    Statistical significance was set at P=0.05 for all analyses except screen data, where genes with FDR<0.1 were considered for further analysis.

    “Significance was set at P = 0.05 for all analyses except screen data, where genes with FDR<0.1 were considered for further analysis.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Study design and conductnone given

    YAP localization in cell populations was quantified by two double-blinded observers.

    “YAP localization in cell populations was quantified by two double-blinded observers.”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Study design and conductown data

    Human lung tumor specimens were collected with written informed consent and IRB approval.

    “Human lung tumor specimens were collected from patients at New York University Langone Hospital (New York, NY) with patient written informed consents and the approval from the Institute Research Ethics Committee and with the approval of the Institutional Review Board, in accordance with the Declaration of Helsinki, CIOMS, Belmont Report, and U.S. Common Rule.”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S2 (checkable).

    Interpretationreasoning

    Because several resistance mechanisms to G12C inhibitors exist, combination therapies will be needed to maximize the benefit of these drugs.

    “The existence of multiple G12Ci resistance mechanisms indicates that combination therapies will be required to maximize the impact of these remarkable drugs.”
    Quote in the paperNot a substantial claim
    • Rests on an assumption: KRAS G12C inhibitors have so far produced only modest efficacy in the clinic.
  • May combine two claims.

    Interpretationown data

    These results suggest TEAD inhibition could augment the MRTX-849/TNO155 combination as well as single-agent MRTX-849.

    “These results suggest that TEAD inhibition could augment this drug combination as well as single agent MRTX-849.”
    Quote in the paperSubstantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    VRK1 was previously described as a collateral lethality in glioblastoma because its paralog VRK2 is methylated and not expressed in that cancer.

    “VRK1 was previously reported as a “collateral lethality” in glioblastoma, owing to methylation and lack of expression of its paralog VRK2 in this malignancy.”
    Quote in the paperNot a substantial claim
  • Classified as probably not a substantial claim.

    Premisecitation

    RHO promotes YAP activation through the actomyosin cytoskeleton.

    “RHO, acting though the actomyosin cytoskeleton, is also known to promote YAP activation (40,41).”
    Quote in the paperSubstantial claim0 of 2 sources checked
    • cites [40] Franklin, 2023, Insights into recent findings and clinical application of YAP and TAZ in cancer, Nat Rev Cancer source

      Not checked in the free run.

    • cites [41] Piccolo, 2023, YAP/TAZ as master regulators in cancer: modulation, function and therapeutic approaches, Nat Cancer

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    RHOA is required for Kras G12D-driven lung adenocarcinoma.

    “and for Kras G12D -driven lung adenocarcinoma (42)”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [42] Konstantinidou, 2013, RHOA-FAK is a required signaling axis for the maintenance of KRAS-driven lung adenocarcinomas, Cancer Discov source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    RHOA is required for transformation induced by mutant KRAS.

    “earlier work found that RHOA is necessary for the transformation induced by mutant KRAS (60)(61)(62)”
    Quote in the paperNot a substantial claim0 of 3 sources checked
    • cites [60] Xu, 2010, LKB1 tumor suppressor protein regulates actin filament assembly through Rho and its exchange factor Dbl independently of kinase activity, BMC Cell Biol source

      Not checked in the free run.

    • cites [61] Khosravi-Far, 1995, Activation of Rac1, RhoA, and mitogen-activated protein kinases is required for Ras transformation, Mol Cell Biol source

      Not checked in the free run.

    • cites [62] Chen, 2003, Oncogenic Ras leads to Rho activation by activating the mitogen-activated protein kinase pathway and decreasing Rho-GTPase-activating protein activity, J Biol Chem source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Adachi and colleagues reported that activated YAP increases MRAS expression, which bypasses adaptive resistance to G12C inhibitors by promoting assembly of the MRAS/SHOC2/PP1 complex.

    “Adachi et al. also reported that, once activated, YAP drives increased expression of MRAS, which, by promoting assembly of the MRAS/SHOC2/PP1 complex, bypasses adaptive resistance to G12Ci.”
    Quote in the paperNot a substantial claim
  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    STK11 is a critical regulator of metabolism through its substrate AMPK.

    “STK11 is also a critical regulator of metabolism via its substrate AMPK (73).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [73] Mukhopadhyay, 2021, The metabolic landscape of RAS-driven cancers from biology to therapy, Nat Cancer source

      Not checked in the free run.

  • May combine two claims.

    Premisecitation

    Depleting VRK1 in VRK2-deficient cells causes G2/M arrest followed by DNA damage.

    “VRK1 depletion in these VRK2-deficient cells levels leads to a G2/M phase arrest, followed by DNA damage (67,68).”
    Quote in the paperNot a substantial claim0 of 2 sources checked
    • cites [67] Kim, 2021, Rho-kinase as a target for cancer therapy and its immunotherapeutic potential, Int J Mol Sci source

      Not checked in the free run.

    • cites [68] Shields, 2022, VRK1 is a synthetic-lethal target in VRK2-deficient glioblastoma, Cancer Res source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Mutant KRAS is a well-known regulator of glycolysis.

    “Mutant KRAS is a well known regulator of glycolysis (72)”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [72] Cruz-Gordillo, 2020, ELP-dependent expression of MCL1 promotes resistance to EGFR inhibition in triple-negative breast cancer cells, Sci Signal source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Suppression of ELP1 or ELP3 can abrogate vemurafenib activity in BRAF V600E melanoma.

    “Previous research showed that suppression of ELP1 or ELP3 can abrogate vemurafenib in BRAF V600E melanoma (70)”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [70] Cerezo, 2021, RIOK2 phosphorylation by RSK promotes synthesis of the human small ribosomal subunit, PLoS Genet source

      Not checked in the free run.

  • May combine two claims.

    Premisecitation

    ROCK inhibitors are not associated with proteinuria and could therefore avoid the main side effect of TEAD inhibition.

    “ROCK inhibitors are not associated with proteinuria, and thus could avoid the major drug-related side effect of TEAD inhibition (65).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [65] Zhao, 2006, Effect of fasudil hydrochloride, a protein kinase inhibitor, on cerebral vasospasm and delayed cerebral ischemic symptoms after aneurysmal subarachnoid hemorrhage, Neurol Med Chir (Tokyo) source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing). May combine two claims.

    Premisecitation

    RIOK2 is a relatively unexplored RSK target whose normal function is to promote maturation of the 40S ribosome.

    “RIOK2 is a relatively unexplored RSK target whose normal function is to promote maturation of the 40S ribosome (69).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [69] So, 2022, VRK1 as a synthetic lethal target in VRK2 promoter-methylated cancers of the nervous system, JCI Insight source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    ELP proteins contribute to EGFR inhibitor resistance in breast cancer cells by promoting MCL1 synthesis.

    “and that ELPs contribute to EGFR inhibitor resistance in breast cancer cells by promoting MCL1 synthesis (71).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [71] Rapino, 2018, Codon-specific translation reprogramming promotes resistance to targeted therapy, Nature source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S3 (load-bearing).

    Premisecitation

    Previous studies have revealed a complex, bidirectional interplay between the Hippo pathway and glucose metabolism.

    “previous studies have revealed complex, bidirectional interplay between the Hippo pathway and glucose metabolism (74).”
    Quote in the paperNot a substantial claim0 of 1 sources checked
    • cites [74] Shackelford, 2009, The LKB1-AMPK pathway: metabolism and growth control in tumour suppression, Nat Rev Cancer source

      Not checked in the free run.

  • Probably not a substantial claim: may not pass S4 (based).

    Interpretationreasoning

    VRK1 must have specific functions in G12C inhibitor-treated NSCLC cells.

    “VRK1 must have specific functions in G12Ci-treated NSCLC cells.”
    Quote in the paperNot a substantial claim
    • The authors state this as an assumption: VRK2 is expressed at the protein level in NSCLC.
71 of 71
  • The paper relies on this without support.

    The four KRAS G12C-mutant NSCLC cell lines with STK11 and KEAP1 co-mutations are representative of KRAS G12C-mutant NSCLC with these co-mutations.

    “we chose lines with co-mutations in STK11; three were also KEAP1-defective.”
  • The paper relies on this without support.

    CRISPR/Cas9 dropout under drug treatment in these cell lines identifies genes whose inactivation enhances drug efficacy.

    “we used genomewide CRISPR/Cas9 screening to identify genes whose inactivation enhances the efficacy of MRTX-849 alone or in combination with TNO-155 in four KRAS G12C -mutant NSCLC cell lines.”
  • The paper relies on this without support.

    The KCL mouse model and H2030 xenografts model human KRAS G12C NSCLC response and resistance.

    “we developed G12Ci-and G12Ci+SHP2i-resistant genetically engineered mouse models (GEMMs, see Methods for details).”
  • The paper relies on this without support.

    Enriched pathways in resistant mouse and patient tumors indicate resistance mechanisms relevant to human KRAS G12C NSCLC.

    “resistance pathways suggested by our CRISPR/ Cas9 SL screens and the resistant GEMMs also were enriched in these patient samples.”
  • The paper relies on this without support.

    KRAS G12C inhibitors have so far produced only modest efficacy in the clinic.

    “yet their efficacy in the clinic has thus far been modest.”
  • The authors state this as an assumption.

    VRK2 is expressed at the protein level in NSCLC.

    “assuming that VRK2 is also expressed at the protein level”
6 of 6

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

Each contradiction between two passages listed here was confirmed by an independent check.

  • TEAD inhibitor identity differs between the results and Figure 5

    Minor

    The results identify MYF-03-69 as the tool compound tested with MRTX-849, but the Figure 5 legend names MYF-03-176 for that combination assay. The text does not establish that these are the same compound.

1 of 1

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Authors
Mukhopadhyay, S., Huang, H.-Y., Lin, Z., Ranieri, M., Li, S., Sahu, S., Liu, Y., Ban, Y., Guidry, K., Hu, H., Lopez, A., Sherman, F., Tan, Y. J., Lee, Y. T., Armstrong, A. P., Dolgalev, I., Sahu, P., Zhang, T., Lu, W., Gray, N. S., Christensen, J. G., Tang, T. T., Velcheti, V., Khodadadi-Jamayran, A., Wong, K.-K., & Neel, B. G.
Affiliations
  • NYU Langone Health (US)
  • New York University (US)
  • Stanford Medicine (US)
  • Mirati Therapeutics (United States) (US)
  • 5Vivace Therapeutics, Inc., San Mateo, California.
  • 2Applied Bioinformatics Laboratories, Office of Science and Research, New York University Grossman School of Medicine, New York, New York.
Corresponding author
  • Mukhopadhyay, Suman
  • Wong, Kwok-Kin
  • Neel, Benjamin G.
Venue
Cancer Research
Published
2023-09-20
Volume
83
Issue
24
Pages
4095-4111
ISSN
  • 0008-5472 (ISSN-L)
  • 1538-7445
OpenAlex
W4386883000
Cited by
105
References
77
Citations by year
2026: 22 · 2025: 44 · 2024: 37 · 2023: 2
FWCI
19.35
Type
journal article
Language
en
Open access
Locations
  • Cancer Research (publishedVersion)
  • PubMed (publishedVersion)
  • PubMed Central (acceptedVersion)
Funders
  • National Institutes of Health (CA248896, P30CA016087, P41 EB017183)
  • National Cancer Institute (5P30CA016087)
Topics
  • Health Sciences › Medicine › Pulmonary and Respiratory Medicine › Lung Cancer Treatments and Mutations
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Kinase Regulation and GTPase Signaling
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Cell Biology › Hippo pathway signaling and YAP/TAZ
Keywords
KRAS G12C, synthetic lethality, non-small cell lung cancer, adagrasib, SHP2 inhibitors, STK11, Keap1, RhoA activation, rocks, drug resistance, combination therapy, serine/threonine kinase, tRNA modification enzymes, proteoglycan synthesis
MeSH terms
Kelch-Like ECH-Associated Protein 1, Acetonitriles, Animals, Humans, Lung Neoplasms, Mutation, Piperazines, Pyrimidines, Proto-Oncogene Proteins p21(ras), Protein Serine-Threonine Kinases, NF-E2-Related Factor 2, Mice

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Claims read by deepseek-v4.1-flash under definition version 3 (extract-v3) on 2026-10-06.

Classified by jev-1.13-20260917 (gold-guideline-v0.2) on 2026-10-06.

Statistics and arithmetic are recomputed, not judged.

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