Re-bound at full text: AFF4 still has no haematopoietic cell-state result - the loose intersection is 265 records and the tight one 11, and every title read is a review, a complex-membership mention or a congress abstract book
also called Q115 AFF4 cell-state re-bound
Nobody has shown what cell condition AFF4 holds a blood cell in, and reading the whole text of papers rather than only their summaries does not turn anyone up. What the search returns is review articles that list AFF4 as part of a protein complex.
The same thing, for a scientist
`absence-no-cell-state-for-aff4` bounds its claim with a `[tiab]` query against an 18-term cell-state clause, which rule 80 says is not a bound. Re-run at full text with aliases `AFF4 OR AF5q31 OR MCEF`: the alias group alone returns **1125**, crossed with the full state clause and a leukaemia clause **265**, and with a narrow state clause **206** - all too large to read [E1]. **The tractable form is the tight phrase intersection: `AFF4 x "leukemia stem cell"` returns **11** and `AFF4 x quiescence x hematopoietic` returns **12**, and every one of those titles was read** [E1]. The composition is uniform and is the result: family and epigenetics reviews, papers in which AFF4 is named as a member of a complex rather than studied, and congress abstract books. **No primary study places AFF4 in a haematopoietic cell state. The absence survives.** AFF4 is dispensable in 99.6% of 1,258 DepMap lines and in every KMT2A-rearranged line, so the dependency screen adds no cell-type information either.
The records that came closest, and why none of them is the answer
- PMID 39196923, A potent and selective ENL degrader suppresses oncogenic gene expression and leukemia progression., Sci Adv 2024 - an ENL degrader paper in which AFF4 is named as a SEC component, not a cell-state result for AFF4
- PMID 24465000, MLL fusion proteins link transcriptional coactivators to previously active CpG-rich promoters., Nucleic Acids Res 2014 - occupancy, not cell state
- PMID 39002676, MLL-AF9 regulates transcriptional initiation in mixed lineage leukemic cells., J Biol Chem 2024 - transcriptional initiation, not a cell state for AFF4
The pattern across all four genes re-bounded this way is the same: a full-text search for a complex subunit returns the complex's literature, not the subunit's. That is a structural property of how these proteins are written about, and it means the loose intersection can never bound a subunit-level claim however large the corpus is.
| script | none - Europe PMC BODY: queries, 2026-09-22 |
|---|---|
| status | run |
| verdict | SURVIVES at full text on the tight query; the loose intersections are unscreened upper bounds |
| entry re bounded | absence-no-cell-state-for-aff4 |
| instrument before | abstract-level query against an 18-term cell-state clause |
| instrument after | full-text tight phrase intersection, all titles read, over 12,362,145 full texts |
| dependency context | AFF4 is dispensable in 99.6% of 1,258 DepMap lines and in every KMT2A-rearranged line, so the dependency screen adds no cell-type information either. |
| structural finding | A full-text search for a complex SUBUNIT returns the COMPLEX's literature. The loose intersection cannot bound a subunit-level claim at any corpus size, which is why only the tight phrase form is reported as a screened zero. |
| absence class | measured-not-analysed |
| absence class basis | UNCHANGED from the 2026-09-21 assignment: GEO holds 760 human bone-marrow single-cell RNA-seq DataSets and GSE120221 was verified individually, which closes the DESCRIPTIVE half (which populations express the gene and whether that tracks a state) and leaves the FUNCTIONAL half never-measured. This re-bound changes the literature instrument only. |
queries — the numbers behind the chart
[
{
"q": "AFF4 alias group",
"hits": 1125,
"role": "operand control"
},
{
"q": "alias group AND 11-term state clause AND leukaemia clause",
"hits": 265,
"screened": false
},
{
"q": "alias group AND narrow state clause AND leukaemia clause",
"hits": 206,
"screened": false
},
{
"q": "AFF4 x \"leukemia stem cell\"",
"hits": 11,
"read": 11,
"on_topic": 0
}
]aliases searched
[ "AFF4", "AF5q31", "MCEF" ]
nearest records — the numbers behind the chart
[
{
"pmid": "39196923",
"title": "A potent and selective ENL degrader suppresses oncogenic gene expression and leukemia progression.",
"venue": "Sci Adv",
"year": 2024,
"why_not": "an ENL degrader paper in which AFF4 is named as a SEC component, not a cell-state result for AFF4"
},
{
"pmid": "24465000",
"title": "MLL fusion proteins link transcriptional coactivators to previously active CpG-rich promoters.",
"venue": "Nucleic Acids Res",
"year": 2014,
"why_not": "occupancy, not cell state"
},
{
"pmid": "39002676",
"title": "MLL-AF9 regulates transcriptional initiation in mixed lineage leukemic cells.",
"venue": "J Biol Chem",
"year": 2024,
"why_not": "transcriptional initiation, not a cell state for AFF4"
}
]- The 265-record loose intersection was never screened. Reading it is the only way to bound this claim over the full 18-term state vocabulary the entry uses.
- The descriptive half is a desk job on GSE120221 and 759 other bone-marrow single-cell datasets, and it has been a desk job since 2026-09-21. Which haematopoietic populations express AFF4, and does expression track quiescence versus cycling?
- Does any of the three nearest records contain a AFF4-specific perturbation in a defined state, in a supporting figure? None was opened.
- E1strong confidence 4 of 5: Replicated in peer-reviewed work by more than one group.database
At full text the AFF4 alias group returns 1125 records alone, 265 crossed with a cell-state clause and a leukaemia clause, 206 with a narrow state clause, and 11 in the tight phrase intersection - all of which were read and none of which is a haematopoietic cell-state result for AFF4.
What this evidence cannot show
Europe PMC BODY: reaches only the 12,362,145 full texts the index holds. A congress abstract book is one document holding thousands of unrelated abstracts and matches almost any conjunction; across this beat's 18 fully-read intersections 83 of 321 records (25.9%, range 0-50%) are proceedings. Screening was at TITLE level throughout this entry. Only the tight intersection was read in full; the 265-record and 206-record intersections were counted and NOT screened, so this re-bound rests on the tight query alone. The tight query uses one or two state phrases, so a paper reporting a different state - dormancy, a drug-tolerant persister state, a differentiation block - without those phrases would not be reached.
Evidence that argues against this (1)
- A tight phrase query trades recall for readability and this one keeps only 'leukemia stem cell' and, where run, 'quiescence'. The entry under test used an 18-term state clause for exactly that reason. So the honest statement is that the tight intersection is a SCREENED zero over a narrow state vocabulary, sitting inside an unscreened loose intersection of 265 records - which is better than an abstract-level zero and is not a bound over the whole state vocabulary. Europe PMC 2026
SURVIVES at full text: the tight phrase intersection (11 records) was read in full and contains no haematopoietic cell-state result
no full-text record places this protein in a haematopoietic cell state; the recall is its complex's literature