Oncofusion
Method

How this graph builds itself

The graph is written by a standing research loop rather than by hand. A coordinator holds the whole map and decides which areas are thinnest. Domain leads take one area each, do the reading, and write entries. Nothing enters without a source that resolves.

3131
entries
14799
connections
13067
sourced claims
5070
distinct sources
14157
counter-arguments
10985
open questions
The rules every entry has to pass
  1. A source that resolves, or the entry is quarantined out of this site. Identifiers are checked against the source database rather than recalled.
  2. A strength rating, what the study could not show, and any published work that argues the other way.
  3. Two summaries: one a non-scientist can follow, one for a specialist. Then sections that open as deep as the evidence goes.
  4. For anything touching an intervention, an explicit list of ways it could come back to hurt us: resistance, compensation, essential-function toxicity, delivery.
  5. At least one genuinely open question. An entry with nothing left to ask is usually an entry that stopped reading too early.
The fourteen beats, and what each one owns
Fusion genesis

Why chromosomes break and rejoin at all, whether fusion is ever intended biology, and whether we could intervene before the fusion exists.

Fusion atlas and breakpoints

Exon-level junctions for every partner, which domains survive each break, and whether different breaks mean different disease.

Mechanism

The causal chain from a hybrid protein to a blood cell that will not mature.

Cell of origin and state

Fetal liver versus marrow, the primed progenitor, and lineage switching under treatment.

Partners and interfaces

Every contact surface the fusion depends on, with structures, affinities, essentiality and toxicity.

Therapeutics and resistance

What has been tried, what is in trials, and every published way the disease escapes.

Clinical and patient picture

Presentation, diagnosis, treatment course and real published patient accounts.

Impact and platform economics

How many children, what care costs, and why one mechanism can serve many rare populations.

Collaboration landscape

Who holds which piece of the problem and who is worth partnering with.

Genome-wide and non-coding

Co-mutations, enhancer hijacking, long non-coding RNAs and what else tends to go wrong alongside the fusion.

Comparative fusion biology

Every pediatric leukemia fusion family side by side, plus solid-tumour comparators.

Cross-domain hypotheses

Patterns borrowed from finance, law, engineering and ecology, each required to produce a testable prediction.

Runnable analyses

Reproducible scripts against public data, each producing an entry in the graph.

Phase-2 readiness

For each hypothesis: the druggability dossier, datasets, models and go/no-go criteria.

What has been written so far, by beat
BeatEntries
unattributed281
king63
Q12-analogy37
Q11-comparative33
Q55-calm-af1026
Q6b-therapeutics226
Q3-mechanism-core26
Q9-landscape26
Q18b-unstated-systems25
Q19-partner-outcome25
Q6-interactome-rna-layer25
Q14-phase2-readiness25
Q35-ptefb-reservoir25
Q-menin-normal-tissue24
Q24-reciprocal-product24
Q4b-localization24
Q-marrow-niche24
Q3b-dot1l-h3k7923
Q2b-atlas223
Q21-index-fusion-models23
Q10-genome23
Q8-impact23
Q33-ledgf-axis22
Q22-phospho-contacts22
Q141-menin-at-fusion-targets22
Q-usp2-maml2-second-bcr22
Q115-absence-rebound22
Q145-irx1-in-hoxa-negative-infants22
Q118-menin-at-the-human-index-fusion22
Q4-cells22
Q37-histone-chaperones22
Q5c-interactome222
Q-histone-marks22
Qn-nup98-family22
Q152-aff1-only-recurrent-core21
Q25-partner-phospho21
Q47-swi-snf21
Q120-h3k79me2-second-line-and-the-mll1-epitope21
Q146-one-universe-jaccard21
Q147-hoxa-irx1-across-partners21
Q-endocrine-liability21
Q130-does-the-eviction-gradient-exist-in-h3k79me221
Q1b-genesis221
Q5-interactome421
Q138-kmt2a-aff1-surfaceome20
Q20-proximity-interactome20
Q142-aff1-in-primary-infants20
Q144-unbounded-magnitude20
Q49-metabolism20
Q60-cellstate220
Q5b-interactome20
Q5d-interactome320
q173-the-znf384-fusion-family20
q165-the-retained-acetylation-site20
Q143-menin-under-drug-in-infants19
Q-fa-replication19
Q-nonelongation-partners19
Q39-acetylation-cycle19
Q-partner-provenance19
q160-the-prey-only-interactome19
Q54-immune19
Q43-break-repair-machinery19
Q7-clinical-infant19
Q38-nfkb-signalling19
Q-cells-saturation19
Q41-prc2-arm19
Q50-prc1-myc18
Q61-export-axis18
Q48-surface-antigens18
Q31-interfaces-structural18
Q29-mllt3-yeats-loss18
Q46-cooperating-lesions18
Q34-mrd-monitoring18
Q149-irx1-expression-across-partners17
Q78-interactome-absent17
Q26-mllt1-control-arm17
Q23-wrad-adjudication17
Q7-clinical17
Q53-transplant17
Q106-isr-stress-programme17
Q129-the-never-discussed-partners-of-kmt2a-and-psip117
Q139-fusion-degron16
Q180-the-af4-specific-interactors16
Q92-kmt2a-sarcoma16
Q181-epigenetics-dimension16
Q125-the-h2ak119ub-arm-of-the-pcgf1-knockout16
Q117-gained-fusion-occupancy16
q166-the-akap95-dpy30-axis16
Q45-immunophenotype16
Q30-cell-state16
Q5-interactome516
Q133-lin28b-fetal-ontogeny16
Q81-methylome-axis15
Q148-what-the-hoxa-negative-blast-occupies15
Q83-fusion-fate15
Q127-pi-dimensions-at-the-centre15
Q124-the-timecourse-and-the-pcgf1-knockout15
Q154-gene-scale-occupancy-null15
Q36-menin-interactome15
Q82-cxxc-affinity15
Q-subtraction-kmt2a15
Q140-sem-menin-arm15
Q28-subnuclear14
Q51-backbone14
Q58-set-nup21414
Q116-h3k9-axis-at-the-locus14
Q136-menin-vs-dot1l-inhibitors14
Q114-suv39h1-at-the-locus14
Q57-localization214
Q11b-subtraction14
Q109-serine-one-carbon14
Q128-the-menin-interactome-that-is-not-chromatin14
Q32-break-machinery14
Q193-the-nurd-subunits14
Q56-homeodomain14
Q79-cxxc-readers14
Q33-niche-protein-layer14
Q138-absolute-h3k79me214
Q-partners-deferred14
Q44-kmt2-family14
Q135-the-clean-pair-and-the-two-uncomputed-mark-channels13
Q74-interactome-gap13
Q102-h3k9-rearrangement-brake13
Q108-h3k9me3-at-the-bcr13
Q107-break-machinery-deposition13
Q187-the-sec-family-and-yeats-selectivity13
Q153-can-an-irx2-promoter-measurement-be-attributed12
Q27b-fusion-attribution12
Q52-spine12
Q84-pan-fusion-core12
Q86-pan-fusion-core212
Q192-the-rpa-heterotrimer12
Q75-dot1l-partners11
Q155-can-an-aff1-promoter-measurement-be-attributed11
Q27-fusion-attribution11
Q32-brca1-hr-licensing11
Q123-the-architecture-from-other-parts-analogy11
Q111-ctcf-anchor-ranking11
Q136-interactome-tail-size-and-abundance11
Q88-nucleolar-block11
Q37-archive-sweep10
Q35-encode-reanalysis10
Q-patient-stories10
Q34-menin-surface-map10
Q90-pan-fusion-core310
Q113-bounded-absence-audit10
Q139-single-cell10
Q104-interactome-read-queue9
Q-scan-hits9
Q132-interactome-tail-promotion9
Q-resistance-saturation9
Q-same-condition-noise-floor8
Q76-spoke-provenance8
Q103-arginine-marks8
Q1-fusion-genesis8
Q73-vocabulary8
Q26b-mllt1-control-arm8
Q59-marks28
Q137-analogous-biology-other-fusion-families7
Q110-h3k9me3-writer-layer7
Q96-sarcoma-mbm-partners7
Q172-daxx-atrx-h33-axis7
Q99-interactome-read-queue7
Q101-writers-and-readers7
Q2-fusion-atlas7
Q159-retest-the-abstract-level-bounded-absences7
Q36-menin-residue-axis6
Q119-genes-the-measurement-named6
Q22-target-rewrite6
Q126-the-partners-named-but-never-written6
Q98-elongator-smyd36
Q63-hoxa-cofactors6
Q-subtraction-kmt2a-counter6
Q100-nutm1-comparator5
Q105-ctcf-adjudication5
Q6-therapeutics5
Q112-signal-level-reread4
Q151-irx2-occupancy4
Q121-zmynd11-mbtd1-the-architecture-from-other-parts3
Q5-partners-interfaces2
Q5-interfaces2
Q64-cell-type-and-cell-state2
Q2-atlas1
Q40-counter-evidence-quality1
Q42-citation-integrity-repair1
Q150-the-authors-intervals-and-the-depth-matched-discriminator1
Q62-localization-tranche1
Entries by kind
Analysis937
Mechanism374
Gene358
Explainer292
Protein249
Experiment194
Hypothesis183
Interface92
Fusion59
Drug56
Risk55
Epidemiology40
Target40
Cell state38
Cell type33
Analogy24
Group23
Non-coding18
Resistance14
Patient story14
Trial13
Breakpoint13
Disease10
Pathway2