Oncofusion

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Resistancemoderate confidence 3 of 5: One strong study, or several smaller consistent ones.Q-resistance-saturation

The menin-inhibitor-resistant state has its own address: SMARCA4, BRD4 and CREBBP, with no MEN1 mutation anywhere

also called MITR state · BRG1/BRM dependence of menin-inhibitor-resistant AML · chromatin-remodeller co-dependency after menin inhibitor failure

Leukaemia cells forced to grow through repeated doses of a menin inhibitor end up resistant without any change in the drug's target. When researchers asked what those resistant cells now need to survive, the answer was a short list of chromatin machines — and drugs against two of them killed the resistant cells.

The same thing, for a scientist

By repeatedly shocking MV4-11 and OCI-AML3 cells with the menin inhibitor SNDX-50469 and allowing recovery, menin-inhibitor-resistant (MITR) lines were derived that exhibit an altered epigenome, transcriptome and proteome **without menin mutations**. A CRISPR screen in those cells identified druggable co-enrichments including BRD4, SMARCA4 and CREBBP. Co-treatment with a menin inhibitor plus the SMARCA4/SMARCA2 (BRG1/BRM) inhibitor FHD-286, or plus the BET inhibitor OTX015, synergistically killed MITR cells, cells expressing the mutant menin M327I, and patient-derived AML cells with MLL1 rearrangement or mutant NPM1 that were ex vivo resistant to menin inhibitors; in vivo, revumenib plus FHD-286, or OTX015 plus FHD-286, reduced leukaemia burden and improved survival in xenografts without significant toxicity [E1]. Independently, a BRG1/BRM inhibitor targets AML stem cells and shows superior preclinical efficacy combined with a BET or menin inhibitor [E2]. This entry records the resistant state as an object with a measurable dependency profile, which is what distinguishes it from the more general adaptive non-genetic entry already in the graph.

Go deeper
Why this is worth a separate entry from 'adaptive non-genetic resistance'

resistance-adaptive-nongenetic-menin establishes that escape without a MEN1 mutation happens and names five routes by which it might. It does not say what the resistant cell needs. That is the question a therapeutic programme actually has to answer, and 1 answers it experimentally: derive the resistant state, then screen it.

The answer — SMARCA4, BRD4, CREBBP — is not a restatement of the mechanism. It is an orthogonal handle. A cell can arrive at the MITR state by any of the routes in the adaptive entry and still be killed by a BRG1/BRM inhibitor, because the dependency is a property of the destination rather than of the path. That is a different and more useful kind of fact than a mechanism, and it is why this belongs as its own entry rather than as a fifth bullet in someone else's named_routes list.

The breadth of the rescue is the load-bearing detail

The combination worked in four distinguishable settings 1:

  • MITR cells (acquired, non-genetic resistance, derived in the laboratory)
  • cells expressing the mutant menin M327I (acquired genetic resistance — the recurrent clinical interface mutation)
  • patient-derived AML cells with MLL1 rearrangement that were ex vivo resistant to menin inhibitors (primary, not a line)
  • patient-derived AML cells with mutant NPM1, same condition

That a single combination covers both the genetic and the non-genetic escape route matters, because the rest of this beat is a catalogue of mechanisms that each demand their own countermeasure. If a chromatin-remodeller dependency is common to resistant cells regardless of how they became resistant, then it is the most efficient place to intervene, and it is the strongest argument in this beat for a combination rather than a sequence.

The in vivo arm used revumenib itself, not only the tool compound, and reported improved survival without significant toxicity in immune-depleted mice.

What the derivation method does and does not model

MITR cells were made by repeated drug shocks with recovery in between — a pulsed-exposure protocol, not continuous selection. That is a deliberate and defensible choice, and it is closer to clinical dosing than continuous exposure. But it is still two cell lines (MV4-11, an MLL-rearranged line, and OCI-AML3, an NPM1-mutant line) in vitro, and a state reached by laboratory selection is not guaranteed to be the state a child reaches on therapy.

The primary patient-derived arm partly answers that objection, but note its exact form: those cells were ex vivo resistant, meaning intrinsically insensitive, not taken from a patient who progressed on a menin inhibitor. The study therefore shows the combination works on intrinsically resistant primary cells and on laboratory-derived acquired resistance; it does not show it works on cells from a patient who relapsed on revumenib. That sample type remains the scarcest material in the field.

The essential-function problem, which is severe here

Both proposed partners hit common-essential machinery. BRD4 is broadly essential across cell lines, which is precisely why BET inhibitors have struggled with therapeutic index for fifteen years. SMARCA4 and SMARCA2 are the ATPases of the SWI/SNF complex, required for normal haematopoietic stem cell function, and the same property that lets a BRG1/BRM inhibitor target AML stem cells 2 makes it a threat to normal ones.

This graph's other resistance entries already flag CDK9 and BRD4 as the agents with the worst therapeutic index in an infant. The SWI/SNF ATPases belong on that list. Nothing in 1 or 2 addresses paediatric tolerability and the xenograft toxicity statement concerns immune-depleted adult mice.

Facts and figures
kindresistance
mechanism classcharacterised resistant state with named chromatin co-dependencies (path-independent)
seen in patientspartially — patient-derived AML cells with ex vivo menin-inhibitor resistance responded to the combinations; no samples from patients who progressed on a menin inhibitor
seen in modelstrue
menin mutation presentfalse
derivationrepeated SNDX-50469 shocks with recovery in MV4-11 (MLL-rearranged) and OCI-AML3 (NPM1-mutant) cells
state descriptionaltered epigenome, transcriptome and proteome without menin mutations
covers both escape classesthe same combinations killed both MITR cells (non-genetic) and cells carrying the mutant menin M327I (genetic), which is unusual among the countermeasures in this beat
relationship to existing entriesresistance-adaptive-nongenetic-menin establishes that MEN1-wild-type escape happens and lists candidate routes; this entry records what the resulting cell depends on. The two should be read together and [E1] should probably also be added as evidence to that entry, which this beat did not edit.
affects
[
  "drug-revumenib",
  "drug-ziftomenib",
  "drug-bleximenib",
  "drug-enzomenib",
  "drug-icovamenib"
]
genes
[
  "BRD4",
  "SMARCA4",
  "SMARCA2",
  "CREBBP"
]
countermeasures
[
  {
    "agent": "FHD-286 (dual SMARCA4/SMARCA2, BRG1/BRM ATPase inhibitor)",
    "rationale": "identified as a co-dependency of the resistant state by CRISPR screen; synergistic in vitro and in vivo with revumenib",
    "tier": "preclinical, direct"
  },
  {
    "agent": "OTX015 / birabresib (BET inhibitor)",
    "rationale": "BRD4 co-dependency; synergistic with menin inhibition and with FHD-286",
    "tier": "preclinical, direct"
  },
  {
    "agent": "CREBBP-directed agents",
    "rationale": "third named co-enrichment; no compound was tested in [E1]",
    "tier": "nominated only"
  }
]
pre emption strategies
[
  "screen the resistant state rather than only characterising it — the dependency profile is actionable where the mechanism catalogue is not",
  "test whether a BRG1/BRM inhibitor works in KMT2A-rearranged ALL and in infant material; every result here is adult AML",
  "order the combination options by therapeutic index before by potency: venetoclax before BET or SWI/SNF inhibition in a child, unless a specific reason says otherwise"
]
How this could bite us back
  • The proposed countermeasures are two of the most broadly essential targets in the genome. BRD4 and the SWI/SNF ATPases are required by normal cells, so this route trades a resistance problem for a therapeutic-index problem, and in an infant that trade may not be available at any dose.
  • The resistant state was manufactured. Laboratory pulsed selection in two adult AML lines may or may not be the state a relapsing child is in, and the study's primary human material was intrinsically resistant rather than acquired-resistant.
  • It competes with a safer proposal for the same clinical situation. Venetoclax is already reported to resensitise a menin-resistant state and has an established paediatric safety profile; a preclinical paper showing a BET/SWI-SNF combination works does not establish that it should be used first.
  • Three countermeasure classes, no ranking. This beat now contains venetoclax, MCL-1 inhibition, CDK4/6 inhibition, KAT6/KAT7 inhibition, JNK inhibition and BET/SWI-SNF inhibition, each proposed for menin-inhibitor resistance by a different group, none compared with another. That is a field-level failure and it makes every individual recommendation weaker than it looks.
  • If a path-independent dependency really exists, it also means the mechanism catalogue this beat is building matters less than it appears to — which is a bite-back aimed at this beat's own product.
Still open
  1. Does the MITR dependency profile hold in KMT2A-rearranged ALL? Everything here is adult AML lines, and the infant t(4;11) blast is a different cell with a different chromatin landscape.
  2. Is the SMARCA4 dependency specific to the resistant state or shared with the parental cells? If parental cells depend on it equally, the combination is additive cytotoxicity rather than targeted resensitisation, and the abstract does not say.
  3. Can a SWI/SNF ATPase inhibitor be given to an infant? Normal haematopoietic stem cells require SWI/SNF, and there is no paediatric experience with this class; without an answer the mechanism is interesting and unusable in the population this project cares about.
  4. Which partner first — venetoclax, BET, or BRG1/BRM? Three preclinical studies each propose a different resensitiser for menin-inhibitor resistance, none compares them head to head, and this graph already contains an experiment designed to do exactly that (exp-orthogonality-time-to-resistance-panel).
  5. Does the pulsed-shock derivation produce the same state as continuous exposure? Clinical dosing is continuous twice-daily, not pulsed, and the two selection regimes could reach different destinations.
Every source behind this entry (3)
  1. E1strong confidence 4 of 5: Replicated in peer-reviewed work by more than one group.paper

    Repeated shocks with the menin inhibitor SNDX-50469 followed by recovery produced menin-inhibitor-resistant (MITR) MV4-11 and OCI-AML3 cells that exhibit an altered epigenome, transcriptome and proteome without menin mutations; a CRISPR screen identified druggable menin-inhibitor co-enrichments including BRD4, SMARCA4 and CREBBP; co-treatment with a menin inhibitor plus the SMARCA4/SMARCA2 (BRG1/BRM) inhibitor FHD-286 or the BET inhibitor OTX015 synergistically induced lethality in MITR cells, in menin-inhibitor-resistant cells expressing mutant menin M327I, and in patient-derived AML cells with MLL1 rearrangement or mutant NPM1 showing ex vivo resistance; and revumenib plus FHD-286, or OTX015 plus FHD-286, significantly reduced in vivo AML burden and improved survival in xenograft models without inducing significant toxicity.

    What this evidence cannot show

    Abstract read in full via NCBI efetch; full text not obtained, so the size of the CRISPR screen, the synergy metrics and the number of patient samples are not recorded here. Two cell lines for the derived resistance, both adult AML lines (MV4-11 is MLL-rearranged, OCI-AML3 is NPM1-mutant); no KMT2A-rearranged ALL and no paediatric or infant material. The patient-derived cells were ex vivo resistant rather than taken from patients who progressed on a menin inhibitor. Toxicity was assessed in immune-depleted mice.

    Evidence that argues against this (1)
    • A competing account of the same clinical problem holds that resistant cells become BCL-2-dependent and are resensitised by venetoclax, a drug with a far better therapeutic index than BET or SWI/SNF inhibition. If both are true, the cheaper and safer partner should be tried first, and the SWI/SNF/BET route reserved for venetoclax failures — an ordering question neither study addresses. Zhou X et al. 2024
  2. E2moderate confidence 3 of 5: One strong study, or several smaller consistent ones.paper

    A BRG1/BRM inhibitor targets AML stem cells and exerts superior preclinical efficacy when combined with a BET or menin inhibitor.

    What this evidence cannot show

    Title-level claim only; the abstract was not read in full for this entry and the effect sizes, models and stem-cell assays are therefore not recorded. Same senior group as [E1], so this is partially confirmatory rather than independent. Title, authors and DOI fetched from NCBI on 2026-09-19. Cited to establish that the BRG1/BRM dependency was reported before the MITR work and in a stem-cell context, not as independent replication.

    Evidence that argues against this (1)
    • A BRG1/BRM inhibitor combining well with a menin or BET inhibitor is a preclinical combination result and, as this graph's orthogonality entry records, a NON-orthogonal transcriptional pairing succeeding - which is informative but also means the combination shares a failure mode. No clinical data exist for this pairing in KMT2A-rearranged disease. Cancer Discovery 2025
  3. E3strong confidence 4 of 5: Replicated in peer-reviewed work by more than one group.paper

    Acquired resistance to revumenib in KMT2A-rearranged ALL cells occurs either through acquisition of MEN1 mutations or independently of mutations in MEN1, establishing that a MEN1-wild-type resistant state exists in the lymphoid as well as the myeloid setting.

    What this evidence cannot show

    Title, authors and DOI verified against NCBI on 2026-09-19; the claim text is carried from this graph's existing resistance-adaptive-nongenetic-menin entry, which cites the same paper, and this beat did not independently re-read the abstract. Cited only to establish that MEN1-wild-type resistance is not confined to AML lines, because [E1] and [E2] are both AML.

    Evidence that argues against this (1)
    • Establishing that a MEN1-wild-type resistant state exists is not the same as establishing it is SWI/SNF- or BET-dependent, and the cited work does not assign a mechanism to the non-mutational arm. The alternative candidates are already in this graph - TP53 inactivation, lineage switch, PRC1.1 loss - and nothing here discriminates among them. Experimental Hematology 2026
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