OnCo

Transcription and MYC

Cancers run a few genes at deafening volume from super-enhancers, and MYC is the master amplifier. The machinery is shared with normal cells, but tumours depend on it more, and hormone receptors are the oldest transcription drugs.

Diagram

Pick a product above a diagram to see the nodes it hits and the escape routes below the block. Hover or tap any node or arrow for what it is; every node opens its target, glossary entry or the pathway page. Violet boxes are druggable targets.

MYCMYC is the most commonly amplified cancer gene, a master switch that turns on thousands of growth genes. It has no pocket for a conventional drug, so it remained 'undruggable' for 40 years; the first direct MYC drugs finally entered trials in the 2020s.

A conductor who can make every section of the orchestra play louder at once. You cannot take away the baton, so drugs try to silence the score (transcription), tire the conductor (degradation), or exploit the fact that a full-volume orchestra cannot afford a single missing player.

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Lineage TFs (ER, AR, ASCL1) activates Super-enhancerFusion TFs (EWSR1-FLI1) activates Super-enhancerSuper-enhancer activates BRD4, Mediator, p300BRD4, Mediator, p300 activates CDK7 (TFIIH) initiationBRD4, Mediator, p300 activates CDK9 (P-TEFb) elongationCDK7 (TFIIH) initiation activates RNA Pol IICDK9 (P-TEFb) elongation activates RNA Pol IIRNA Pol II activates MYC, MCL-1 (short-lived)Menin-KMT2A (AML) activates RNA Pol IILineage TFs (ER, AR, ASCL1): The hormone switch that drives prostate cancer, attacked by castration and by pills that block the receptor.Lineage TFs (ER, AR, ASCL…Fusion TFs (EWSR1-FLI1): The fused gene that defines Ewing sarcoma: an aberrant transcription factor that has resisted 30 years of drug design.Fusion TFs (EWSR1-FLI1)Super-enhancerSuper-enhancerBRD4, Mediator, p300: BRD4 is a reader protein that docks on acetylated DNA packaging and pulls in the machinery that switches growth genes such as MYC on. BET inhibitors such as pelabresib and ZEN-3694 block that docking;BRD4, Mediator, p300CDK7 (TFIIH) initiationCDK7 (TFIIH) initiationCDK9 (P-TEFb) elongation: CDK9 (Cyclin-dependent kinase 9) is a protein kinase, an enzyme that switches other proteins on by adding phosphate groups.CDK9 (P-TEFb) elongationRNA Pol IIRNA Pol IIMYC, MCL-1 (short-lived): A protein that stops cells from self-destructing. Venetoclax removes that protection and has transformed leukaemia treatment.MYC, MCL-1 (short-lived)Menin-KMT2A (AML): A scaffold protein that certain leukaemias need to keep their genes switched on; the first drug against it was approved in 2024.Menin-KMT2A (AML)activatesinhibitsdruggable target (click)hit by selected productescape route
Transcriptional machinery & addictionCancer cells run a few genes (MYC, their lineage factors, their fusion oncogenes) at extreme volume from giant control regions called super-enhancers. The amplifiers, BRD4, CDK7, CDK9 and Mediator, are the same in every cell, but cancers are unusually dependent on them, and that dependence is druggable.

A concert where a few songs are played at deafening volume through rented amplifiers. Cutting the mains for a moment (BET, CDK7/9 inhibitors) silences the loudest songs first because their sound decays fastest, while the quieter household appliances keep humming.

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Pre-mRNA activates SpliceosomeSF3B1 / SRSF2 / U2AF1 (mutant) activates SpliceosomeSpliceosome activates Aberrant isoforms (AR-V7)Spliceosome activates Splice neoantigensSF3B1 / SRSF2 / U2AF1 (mutant) activates R-loops, replication stressSpliceosome activates PRMT5 dependencePre-mRNAPre-mRNASF3B1 / SRSF2 / U2AF1 (mutant): SF3B1 (Splicing factor 3B subunit 1) is a gene that drives cell growth when it is altered.SF3B1 / SRSF2 / U2AF1 (mu…SpliceosomeSpliceosomeAberrant isoforms (AR-V7): The hormone switch that drives prostate cancer, attacked by castration and by pills that block the receptor.Aberrant isoforms (AR-V7)Splice neoantigensSplice neoantigensR-loops, replication stressR-loops, replication stre…PRMT5 dependencePRMT5 dependenceactivatesinhibitsdruggable target (click)hit by selected productescape route
RNA splicingGenes are cut and pasted into messages before they are used. Blood cancers often carry mutations in the splicing machinery, and the errors create abnormal proteins that could serve as targets or immune flags.

Splicing is film editing. The raw footage (pre-mRNA) is cut into a final movie. Cancer's editor makes odd cuts: some create villains (AR-V7), some create scenes no one has seen before (neoantigens), and the editing room itself becomes a place where the cancer can be attacked.

What happens

In plain words, then the glossary entries the stage rests on. Chapter 3, Replication and growth machinery: Cancer cells use the same engine as normal cells, only stuck at full throttle.

Cancers run a few genes at deafening volume from super-enhancers, and MYC is the master amplifier. The machinery is shared with normal cells, but tumours depend on it more, and hormone receptors are the oldest transcription drugs.

MYC. MYC is the most commonly amplified cancer gene, a master switch that turns on thousands of growth genes. It has no pocket for a conventional drug, so it remained 'undruggable' for 40 years; the first direct MYC drugs finally entered trials in the 2020s.

Transcriptional machinery & addiction. Cancer cells run a few genes (MYC, their lineage factors, their fusion oncogenes) at extreme volume from giant control regions called super-enhancers. The amplifiers, BRD4, CDK7, CDK9 and Mediator, are the same in every cell, but cancers are unusually dependent on them, and that dependence is druggable.

RNA splicing. Genes are cut and pasted into messages before they are used. Blood cancers often carry mutations in the splicing machinery, and the errors create abnormal proteins that could serve as targets or immune flags.

The molecular players

The proteins and genes at this stage, with their role and how many products act on each. Listed players come from the atlas; drawn players sit as nodes in the diagrams above.

Where medicines act

Products grouped by the node they hit, most advanced first, with the cancers an approved product is linked to. Pick one above the diagram to see it light up.

AtEWSR1-FLI1 fusionnode Fusion TFs (EWSR1-FLI1) in Transcriptional machinery & addiction1 product
AtCD47node CD47, PD-L1 (immune evasion) in MYC3 products

How tumours escape

Records tied to this stage that describe resistance, evasion or tolerance. The resistance atlas lists the routes class by class.

Ideas that attack the escape

Measured by

Biomarkers, tests and assays in the corpus that read this stage in a patient.

Open questions

What is not known at this stage: the atlas's own questions, the bottlenecks it bears on, and the ideas in the corpus that try to answer them.

  • Can MYC be drugged directly (degraders, OMOMYC) and will patients tolerate it?
  • Which fusion transcription factors (EWSR1-FLI1) are reachable with glues or degraders?
Ideas 5 linked ideas

Key evidence

Papers in the corpus tied to this stage's pathways, targets and terms, newest first.

How this page is built: the stage is one entry in a curated atlas (src/data/mechanics-atlas.ts). Players, medicines, escape routes, tests, ideas and papers are resolved from the knowledge graph at build time through the stage's pathways, targets and terms, so every item here has its own page and sources. Where a section is missing, the corpus has no record tied to the stage yet. Nothing here is medical advice; see about and methodology. Stage 3.6 of 56.