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pmid:40081214

O-GlcNAc-modified HOXA9 suppresses ferroptosis via promoting UBR5-mediated SIRT6 degradation in nasopharyngeal carcinoma.

Neoplasia (New York, N.Y.) · 2025 doi:10.1016/j.neo.2025.101142

Paper

partial

Experiment

partial

Data

partial

Analysis

absent

Execution

absent

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Record details sci_version · id · kind · revision · content_hash · schema · created_at · updated_at · generator
id
pmid:40081214
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science-record
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https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json
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2026-11-01T10:25:49Z
updated_at
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generator object · 3 fields
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corpus-assay-engine
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sep_to_sci_v1
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urn:bntrg:sep:1.0.0
paper object · 10 fields
state
partial
title
O-GlcNAc-modified HOXA9 suppresses ferroptosis via promoting UBR5-mediated SIRT6 degradation in nasopharyngeal carcinoma.
doi
10.1016/j.neo.2025.101142
pmid
40081214
authors
null
journal
Neoplasia (New York, N.Y.)
year
2025
abstract
null
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claim-1
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the headline numerical result the paper states for its main finding
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null
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null
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null
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null
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[0]
abstract
[1]
authors
experiment object · 8 fields
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the headline numerical result the paper states for its main finding
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kind
other
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complete
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null
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The number a replication must land on, and the sentence it came from.
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[0]
source:pmid:40081214
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[0]
the published estimate, its unit and its interval
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Obtain the source data behind the published result
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The published result cannot be recomputed without the data the paper analysed.
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the source data with its provenance
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no owned computational capability is bound to this experiment
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Re-run the paper's analysis on the source data and produce the registered result. | SEP input not carried into the asset list: materials:the source data behind the published result in pmid:40081214
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[2]
step:run_analysis input 'materials:the source data behind the published result in pmid:40081214' does not resolve to a declared asset
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[0] object · 15 fields
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xml
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10.1016/j.neo.2025.101142
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null
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Source read by the package builder: full_text.
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full_text
[1] object · 16 fields
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qRT-PCR primers.
structure object · 5 fields
pmcid
PMC11932873
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15
section_title
qRT-PCR
row_count
9
column_count
2
table object · 8 fields
label
Table 1
caption
qRT-PCR primers.
rows array · 9 items
[0] array · 2 items
[0]
Genes
[1]
Primer sequences (5′-3′)
[1] array · 2 items
[0]
HOXA9
[1]
Forward: 5’-CCACGCTTGACACTCACACT-3’
[2] array · 2 items
[0]
[1]
Reverse: 5’-TCGTCTTTTGCTCGGTCTTT-3’
[3] array · 2 items
[0]
UBR5
[1]
Forward: 5’-GACGCGAGAACTCTTGGAAC-3’
[4] array · 2 items
[0]
[1]
Reverse: 5’-TTCAAATGGATTTGGGGGTA-3’
[5] array · 2 items
[0]
SIRT6
[1]
Forward: 5’-AGGATGTCGGTGAATTACGC-3’
[6] array · 2 items
[0]
[1]
Reverse: 5’-CCAGTTCCCACACCTTCC-3’
[7] array · 2 items
[0]
GAPDH
[1]
Forward: 5’-GGATTTGGTCGTATTGGG-3’
[8] array · 2 items
[0]
[1]
Reverse: 5’-GGAAGATGGTGATGGGATT-3’
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gaps array · 1 item
[0]
asset:source:pmid:40081214 not verified
analysis object · 4 fields
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[1]
targets
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[1]
asset:table:pmid:40081214:1
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read_published_estimate
must_build object · 5 fields
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xml
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[0]
source:pmid:40081214
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[0]
corpus_record_absent
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partial
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{"parent_value":0,"unit":"","evidence":"","target_result":"The paper states qualitative findings that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thereby accelerating NPC progression; it does not state a numerical headline result for the main finding.","number_stated":false}
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The paper states qualitative findings that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thereby accelerating NPC progression; it does not state a numerical headline result for the main finding.
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raw_response
<think>We need answer JSON only. Need inspect source. Target headline numerical result paper states for main finding. Source abstract/results qualitative, methods numerical reagent amounts and stats, GEO accession, p thresholds, perhaps no headline numerical result. Need determine registered target: "the headline numerical result the paper states for its main finding". They ask single numerical result replication target reproduce. No numerical quantitative result in supplied text for main finding. We must number_stated false parent 0 unit/evidence empty target_result say what text states instead. Need formulate target_result perhaps qualitative main finding. Must exact quote evidence empty. Need not invent. JSON valid. Need perhaps main finding has no number, but source includes "2 µg", "2 hours", p values, dataset. Yet target is headline numerical result. No headline numeric result. Thus false. target_result wording can state: "The text reports that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression, but gives no numerical result for this main finding." Is that okay? "say in target_result what text does state instead." Could quote exact conclusion. Need perhaps avoid claiming exact if target_result need no quote requirement. Use textual statement. Unit and evidence empty. parent 0. Ensure JSON only.</think> {"parent_value":0,"unit":"","evidence":"","target_result":"The text states that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression, but it gives no numerical result for this main finding.","number_stated":false}
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parent_value
0
unit
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The text states that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression, but it gives no numerical result for this main finding.
number_stated
false
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recorded_at
2026-10-31T15:33:34.060580+00:00
agreement
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disagreements object · 3 fields
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minimax
O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression.
minimax_alt
unclear — no headline numerical result is stated in the supplied text. The qualitative headline finding is that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression.
decisive
false
physical_methods object · 3 fields
minimax array · 8 items
[0]
Cell viability assay
[1]
Measurement of MDA, total iron, Fe2+, GSH, and lipid peroxidation
[2]
Immunoprecipitation
[3]
Co-IP assays
[4]
Western blotting
[5]
ChIP assay
[6]
Luciferase assay
[7]
Subcutaneous NPC mouse model
minimax_alt array · 6 items
[0]
Cell viability, MDA, total iron, Fe2+, GSH, and lipid peroxidation measurements for ferroptosis evaluation
[1]
Immunoprecipitation and Western blotting for O-GlcNAcylation and ubiquitination analysis
[2]
ChIP assay
[3]
Luciferase assay
[4]
Co-IP assay
[5]
Subcutaneous NPC mouse model
decisive
false
analysis_methods object · 3 fields
minimax array · 3 items
[0]
Analysis of the GEO dataset GSE68799 for HOXA9 expression in NPC
[1]
Student's test
[2]
One-way analysis of variance (ANOVA)
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[0]
Analysis of HOXA9 expression in NPC using GEO dataset GSE68799
[1]
Student's test
[2]
One-way analysis of variance (ANOVA)
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false
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policy
decisive_fields
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target_materials
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null
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null
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independent_readings
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evidence object · 1 field
provider_errors array · 0 items
[2] object · 4 fields
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source_resolution
status
pending
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null
evidence
null
[3] object · 4 fields
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protocol_reconstruction
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null
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null
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null
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null
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control_comparison
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pending
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null
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null
[6] object · 4 fields
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publication
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null
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null
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[0]
review.human_critique
[1]
review.machine_critique.passed
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[0] object · 4 fields
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[2] object · 3 fields
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lineage object · 4 fields
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gaps array · 13 items
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step:run_analysis blocked on no owned computational capability is bound to this experiment
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step:run_analysis input 'materials:the source data behind the published result in pmid:40081214' does not resolve to a declared asset
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targets
Complete file
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"6510b678e17c4bca064d2adc3dc477dad479dbba13e063858f35b54530107547", "raw_response_sha256": "sha256:b9af17b1a425b411bbafcd371004e14e0a485d4ae5929275bd923f29404586c9", "raw_response_chars": 36244}], "target_providers": [{"provider": "minimax", "model": "MiniMax-M3.1-Flash", "prompt_version": "replication-target-v2", "prompt_hash": "576aadb359f2e571eb51d8501659ded515c284f5ad3a379cc9b129c1eb8631b6", "source_hash": "6510b678e17c4bca064d2adc3dc477dad479dbba13e063858f35b54530107547", "raw_response": "{\"parent_value\":0,\"unit\":\"\",\"evidence\":\"\",\"target_result\":\"The paper states qualitative findings that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thereby accelerating NPC progression; it does not state a numerical headline result for the main finding.\",\"number_stated\":false}", "reading": {"parent_value": 0, "unit": "", "evidence": "", "target_result": "The paper states qualitative findings that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thereby accelerating NPC progression; it does not state a numerical headline result for the main finding.", "number_stated": false, "source_locator": null}, "recorded_at": "2026-10-31T15:33:32.286841+00:00"}, {"provider": "minimax_alt", "model": "MiniMax-M3", "prompt_version": "replication-target-v2", "prompt_hash": "f6b1eef12cd04e61171f630d288f88e0074d7433cd64c9ff96d910cc76ef5018", "source_hash": "6510b678e17c4bca064d2adc3dc477dad479dbba13e063858f35b54530107547", "raw_response": "<think>We need answer JSON only. Need inspect source. Target headline numerical result paper states for main finding. Source abstract/results qualitative, methods numerical reagent amounts and stats, GEO accession, p thresholds, perhaps no headline numerical result. Need determine registered target: \"the headline numerical result the paper states for its main finding\". They ask single numerical result replication target reproduce. No numerical quantitative result in supplied text for main finding. We must number_stated false parent 0 unit/evidence empty target_result say what text states instead. Need formulate target_result perhaps qualitative main finding. Must exact quote evidence empty. Need not invent. JSON valid.\n\nNeed perhaps main finding has no number, but source includes \"2 µg\", \"2 hours\", p values, dataset. Yet target is headline numerical result. No headline numeric result. Thus false. target_result wording can state: \"The text reports that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression, but gives no numerical result for this main finding.\" Is that okay? \"say in target_result what text does state instead.\" Could quote exact conclusion. Need perhaps avoid claiming exact if target_result need no quote requirement. Use textual statement. Unit and evidence empty. parent 0. Ensure JSON only.</think>\n\n{\"parent_value\":0,\"unit\":\"\",\"evidence\":\"\",\"target_result\":\"The text states that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression, but it gives no numerical result for this main finding.\",\"number_stated\":false}", "reading": {"parent_value": 0, "unit": "", "evidence": "", "target_result": "The text states that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression, but it gives no numerical result for this main finding.", "number_stated": false, "source_locator": null}, "recorded_at": "2026-10-31T15:33:34.060580+00:00"}], "agreement": true, "disagreements": {"target_result": {"minimax": "O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression.", "minimax_alt": "unclear — no headline numerical result is stated in the supplied text. The qualitative headline finding is that O-GlcNAc-modified HOXA9 inhibits ferroptosis by enhancing UBR5 expression and ubiquitination and degradation of SIRT6 in NPC cells, thus accelerating NPC progression.", "decisive": false}, "physical_methods": {"minimax": ["Cell viability assay", "Measurement of MDA, total iron, Fe2+, GSH, and lipid peroxidation", "Immunoprecipitation", "Co-IP assays", "Western blotting", "ChIP assay", "Luciferase assay", "Subcutaneous NPC mouse model"], "minimax_alt": ["Cell viability, MDA, total iron, Fe2+, GSH, and lipid peroxidation measurements for ferroptosis evaluation", "Immunoprecipitation and Western blotting for O-GlcNAcylation and ubiquitination analysis", "ChIP assay", "Luciferase assay", "Co-IP assay", "Subcutaneous NPC mouse model"], "decisive": false}, "analysis_methods": {"minimax": ["Analysis of the GEO dataset GSE68799 for HOXA9 expression in NPC", "Student's test", "One-way analysis of variance (ANOVA)"], "minimax_alt": ["Analysis of HOXA9 expression in NPC using GEO dataset GSE68799", "Student's test", "One-way analysis of variance (ANOVA)"], "decisive": false}}, "agreement_basis": {"policy": "decisive_fields", "decisive_fields": ["work_type", "number_stated", "parent_value", "unit"]}, "blinded": true}, "human_critique": {"status": "not_run", "reviewer": null, "signed_at": null, "conflict_checked": false, "commentary": null}, "stages": [{"key": "target_materials", "status": "pending", "reason": null, "evidence": null}, {"key": "independent_readings", "status": "passed", "reason": "The independent readings are incomplete or disagree; the source evidence must resolve the difference.", "evidence": {"provider_errors": []}}, {"key": "source_resolution", "status": "pending", "reason": null, "evidence": null}, {"key": "protocol_reconstruction", "status": "pending", "reason": null, "evidence": null}, {"key": "control_execution", "status": "pending", "reason": null, "evidence": null}, {"key": "control_comparison", "status": "pending", "reason": null, "evidence": null}, {"key": "publication", "status": "pending", "reason": null, "evidence": null}], "gaps": ["review.human_critique", "review.machine_critique.passed"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "package:34bd68598a869941a61266b950f21f3ce2dbfaa3a2934455911eed1fff5b48eb", "type": "sep_package", "label": "SEP v1 package for pmid:40081214"}], "activities": [{"id": "activity:conversion:pmid:40081214", "type": "conversion", "used": ["package:34bd68598a869941a61266b950f21f3ce2dbfaa3a2934455911eed1fff5b48eb"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:minimax", "type": "model", "label": "minimax"}, {"id": "agent:minimax_alt", "type": "model", "label": "minimax_alt"}, {"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}], "source_run_id": "run-20261023T122449232913", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "pmid:40081214", "parent_hash": "sha256:28256a2da62fbe260937574cd4f1d9b69a78c9c750a16676c5d45813242bb35b", "fork_of": null, "generation": 2}, "gaps": ["abstract", "asset:source:pmid:40081214 not verified", "authors", "capability", "corpus_record_absent", "execution.not_run", "method", "review.human_critique", "review.machine_critique.passed", "step:obtain_source_data blocked on data:not_downloaded", "step:run_analysis blocked on no owned computational capability is bound to this experiment", "step:run_analysis input 'materials:the source data behind the published result in pmid:40081214' does not resolve to a declared asset", "targets"]}