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pmid:40093675

Circular RNA contributes to gastric cancer by targeting Wnt family member 2B as a competing endogenous RNA.

World journal of gastroenterology · 2025 doi:10.3748/wjg.v31.i10.99583

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:40093675
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science-record
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sha256:36255f8fed6976fdd999a76de5cf028f493bff9593eeb4ed64df1233e68a5375
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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
2026-11-01T10:25:49Z
generator object · 3 fields
name
corpus-assay-engine
converter
sep_to_sci_v1
source_package_schema
urn:bntrg:sep:1.0.0
paper object · 10 fields
state
partial
title
Circular RNA contributes to gastric cancer by targeting Wnt family member 2B as a competing endogenous RNA.
doi
10.3748/wjg.v31.i10.99583
pmid
40093675
authors
null
journal
World journal of gastroenterology
year
2025
abstract
null
claims array · 1 item
[0] object · 6 fields
id
claim-1
statement
the headline numerical result the paper states for its main finding
kind
qualitative
state
blocked
target object · 4 fields
value
null
unit
null
tolerance
null
source
null
evidence array · 0 items
gaps array · 2 items
[0]
abstract
[1]
authors
experiment object · 8 fields
state
partial
objective
the headline numerical result the paper states for its main finding
steps array · 3 items
[0] object · 13 fields
id
read_published_estimate
order
1
name
Read the published estimate and its interval from the source
kind
other
state
complete
blocked_on
null
description
The number a replication must land on, and the sentence it came from.
parameters object · 0 fields
inputs array · 1 item
[0]
source:pmid:40093675
outputs array · 1 item
[0]
the published estimate, its unit and its interval
instruments array · 0 items
reagents array · 0 items
[1] object · 13 fields
id
obtain_source_data
order
2
name
Obtain the source data behind the published result
kind
data-preparation
state
blocked
blocked_on
data:not_downloaded
description
The published result cannot be recomputed without the data the paper analysed.
parameters object · 0 fields
inputs array · 0 items
outputs array · 1 item
[0]
the source data with its provenance
instruments array · 0 items
reagents array · 0 items
[2] object · 13 fields
id
run_analysis
order
3
name
Run the analysis programme
kind
analysis
state
blocked
blocked_on
no owned computational capability is bound to this experiment
description
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:40093675
parameters object · 0 fields
inputs array · 0 items
outputs array · 1 item
[0]
the registered result
instruments array · 0 items
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[0]
step:obtain_source_data blocked on data:not_downloaded
[1]
step:run_analysis blocked on no owned computational capability is bound to this experiment
[2]
step:run_analysis input 'materials:the source data behind the published result in pmid:40093675' does not resolve to a declared asset
data object · 3 fields
state
partial
assets array · 1 item
[0] object · 15 fields
id
source:pmid:40093675
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manuscript
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xml
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application/xml
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null
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resolved
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null
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reader_required
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10.3748/wjg.v31.i10.99583
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null
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Source read by the package builder: full_text.
structure object · 1 field
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full_text
gaps array · 1 item
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asset:source:pmid:40093675 not verified
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targets
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null
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null
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source:pmid:40093675
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[0]
read_published_estimate
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[0]
xml
capabilities array · 0 items
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[0]
source:pmid:40093675
gaps array · 1 item
[0]
corpus_record_absent
review object · 5 fields
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partial
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passed
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minimax
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MiniMax-M3.1-Flash
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full-text-reading-v1
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provider
minimax_alt
model
MiniMax-M3
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full-text-reading-v1
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198f5ce496798b0a41af4bc6479e0aa8b4475940e3cd910ae87936b7c3b3a104
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minimax
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raw_response
{"parent_value":0,"unit":"","evidence":"","target_result":"The paper states the main finding qualitatively: hsa_circRNA_102415 exacerbates gastric cancer cell malignant behavior by upregulating WNT2B expression as a competing endogenous RNA of miR-4529-5p; no numerical result for this main finding is stated.","number_stated":false}
reading object · 6 fields
parent_value
0
unit
evidence
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The paper states the main finding qualitatively: hsa_circRNA_102415 exacerbates gastric cancer cell malignant behavior by upregulating WNT2B expression as a competing endogenous RNA of miR-4529-5p; no numerical result for this main finding is stated.
number_stated
false
source_locator
null
recorded_at
2026-10-31T15:34:24.648712+00:00
[1] object · 8 fields
provider
minimax_alt
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MiniMax-M3
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replication-target-v2
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source_hash
198f5ce496798b0a41af4bc6479e0aa8b4475940e3cd910ae87936b7c3b3a104
raw_response
<think>We need answer JSON only. Need identify single numerical result headline main finding. Source text perhaps sample size 75 tumor specimens and matched normal samples. But "headline numerical result paper states for main finding" likely numerical target absent. We need infer task patterns. Registered target generic "the headline numerical result the paper states for its main finding". Source contains numbers mostly IDs, dates, methods parameters, sample count, significance P&lt;0.05. Main findings qualitative; no quantitative headline result. Thus number_stated false, parent 0, unit/evidence empty, target_result say no numerical result stated for main finding; paper states qualitative conclusion. Need ensure exact quote? If false evidence empty. target_result can state what text does state instead. Perhaps quote exact conclusion: "This study revealed that hsa_circRNA_102415 exacerbated GC cell malignant behavior as a ceRNA of miR-4529-5p by upregulating WNT2B expression." That contains no number. They request if no number, say in target_result what text does state instead. We can use that exact wording. JSON valid. No markdown.</think> {"parent_value":0,"unit":"","evidence":"","target_result":"This study revealed that hsa_circRNA_102415 exacerbated GC cell malignant behavior as a ceRNA of miR-4529-5p by upregulating WNT2B expression.","number_stated":false}
reading object · 6 fields
parent_value
0
unit
evidence
target_result
This study revealed that hsa_circRNA_102415 exacerbated GC cell malignant behavior as a ceRNA of miR-4529-5p by upregulating WNT2B expression.
number_stated
false
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null
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2026-10-31T15:34:25.301743+00:00
agreement
true
disagreements object · 3 fields
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minimax
unclear; the paper states that hsa_circRNA_102415 had significantly higher expression levels in disease tissues, but provides no headline numerical value for this result
minimax_alt
unclear — the supplied text states no numerical headline result; the main qualitative result is that hsa_circRNA_102415 upregulated WNT2B expression in GC cells as a competing endogenous RNA for miR-4529-5p and exacerbated GC cell malignant behavior.
decisive
false
physical_methods object · 3 fields
minimax array · 7 items
[0]
Quantitative real-time polymerase chain reaction
[1]
Transwell assay
[2]
cell counting kit 8
[3]
argonaute 2-RNA immunoprecipitation
[4]
luciferase reporter gene analysis
[5]
Western blot analysis
[6]
rescue experiments
minimax_alt array · 9 items
[0]
Collection of 75 tumor specimens and matched normal samples from Shanxi Province Cancer Hospital
[1]
Quantitative real-time polymerase chain reaction for detecting differentially expressed genes in GC tissue and adjacent cancer tissue samples
[2]
Transwell invasion assay
[3]
Cell counting kit 8 proliferation assay
[4]
Transfection of GC cells with small interfering RNA and plasmid DNA
[5]
Western blot analysis of WNT2B and β-actin
[6]
Argonaute 2-RNA immunoprecipitation
[7]
Luciferase reporter gene assay
[8]
Rescue experiments using miR-4529-5p mimic or inhibitor and small interfering-WNT2B
decisive
false
analysis_methods object · 3 fields
minimax array · 2 items
[0]
GEO2R analysis
[1]
computer-aided algorithms for circRNA and miR target prediction
minimax_alt array · 5 items
[0]
GEO2R analysis of GSE83521 to identify circRNA differences between normal and GC samples
[1]
Computer-aided target-prediction algorithms for circRNA and miR
[2]
Image J software for western blot band-density analysis
[3]
T-test for comparison of two data sets
[4]
Analysis of variance for comparison between groups
decisive
false
agreement_basis object · 2 fields
policy
decisive_fields
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[0]
work_type
[1]
number_stated
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parent_value
[3]
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true
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null
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null
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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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passed
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The independent readings are incomplete or disagree; the source evidence must resolve the difference.
evidence object · 1 field
provider_errors array · 0 items
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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
status
pending
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null
evidence
null
[4] object · 4 fields
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control_execution
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null
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null
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pending
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null
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null
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null
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null
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[1]
review.machine_critique.passed
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activity:conversion:pmid:40093675
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minimax
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model
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minimax_alt
[2] object · 3 fields
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agent:corpus-assay-engine
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gaps array · 13 items
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abstract
[1]
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authors
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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:40093675' does not resolve to a declared asset
[12]
targets
Complete file
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[{"provider": "minimax", "model": "MiniMax-M3.1-Flash", "prompt_version": "replication-target-v2", "prompt_hash": "bb06b788db1d79ad3cbf166912189e36f13def405ea5b23e244b27e2d89a093a", "source_hash": "198f5ce496798b0a41af4bc6479e0aa8b4475940e3cd910ae87936b7c3b3a104", "raw_response": "{\"parent_value\":0,\"unit\":\"\",\"evidence\":\"\",\"target_result\":\"The paper states the main finding qualitatively: hsa_circRNA_102415 exacerbates gastric cancer cell malignant behavior by upregulating WNT2B expression as a competing endogenous RNA of miR-4529-5p; no numerical result for this main finding is stated.\",\"number_stated\":false}", "reading": {"parent_value": 0, "unit": "", "evidence": "", "target_result": "The paper states the main finding qualitatively: hsa_circRNA_102415 exacerbates gastric cancer cell malignant behavior by upregulating WNT2B expression as a competing endogenous RNA of miR-4529-5p; no numerical result for this main finding is stated.", "number_stated": false, 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Need identify single numerical result headline main finding. Source text perhaps sample size 75 tumor specimens and matched normal samples. But \"headline numerical result paper states for main finding\" likely numerical target absent. We need infer task patterns. Registered target generic \"the headline numerical result the paper states for its main finding\". Source contains numbers mostly IDs, dates, methods parameters, sample count, significance P&lt;0.05. Main findings qualitative; no quantitative headline result. Thus number_stated false, parent 0, unit/evidence empty, target_result say no numerical result stated for main finding; paper states qualitative conclusion. Need ensure exact quote? If false evidence empty. target_result can state what text does state instead. Perhaps quote exact conclusion: \"This study revealed that hsa_circRNA_102415 exacerbated GC cell malignant behavior as a ceRNA of miR-4529-5p by upregulating WNT2B expression.\" That contains no number. They request if no number, say in target_result what text does state instead. We can use that exact wording. JSON valid. No markdown.</think>\n\n{\"parent_value\":0,\"unit\":\"\",\"evidence\":\"\",\"target_result\":\"This study revealed that hsa_circRNA_102415 exacerbated GC cell malignant behavior as a ceRNA of miR-4529-5p by upregulating WNT2B expression.\",\"number_stated\":false}", "reading": {"parent_value": 0, "unit": "", "evidence": "", "target_result": "This study revealed that hsa_circRNA_102415 exacerbated GC cell malignant behavior as a ceRNA of miR-4529-5p by upregulating WNT2B expression.", "number_stated": false, "source_locator": null}, "recorded_at": "2026-10-31T15:34:25.301743+00:00"}], "agreement": true, "disagreements": {"target_result": {"minimax": "unclear; the paper states that hsa_circRNA_102415 had significantly higher expression levels in disease tissues, but provides no headline numerical value for this result", "minimax_alt": "unclear — the supplied text states no numerical headline result; the main qualitative result is that hsa_circRNA_102415 upregulated WNT2B expression in GC cells as a competing endogenous RNA for miR-4529-5p and exacerbated GC cell malignant behavior.", "decisive": false}, "physical_methods": {"minimax": ["Quantitative real-time polymerase chain reaction", "Transwell assay", "cell counting kit 8", "argonaute 2-RNA immunoprecipitation", "luciferase reporter gene analysis", "Western blot analysis", "rescue experiments"], "minimax_alt": ["Collection of 75 tumor specimens and matched normal samples from Shanxi Province Cancer Hospital", "Quantitative real-time polymerase chain reaction for detecting differentially expressed genes in GC tissue and adjacent cancer tissue samples", "Transwell invasion assay", "Cell counting kit 8 proliferation assay", "Transfection of GC cells with small interfering RNA and plasmid DNA", "Western blot analysis of WNT2B and β-actin", "Argonaute 2-RNA immunoprecipitation", "Luciferase reporter gene assay", "Rescue experiments using miR-4529-5p mimic or inhibitor and small interfering-WNT2B"], "decisive": false}, "analysis_methods": {"minimax": ["GEO2R analysis", "computer-aided algorithms for circRNA and miR target prediction"], "minimax_alt": ["GEO2R analysis of GSE83521 to identify circRNA differences between normal and GC samples", "Computer-aided target-prediction algorithms for circRNA and miR", "Image J software for western blot band-density analysis", "T-test for comparison of two data sets", "Analysis of variance for comparison between groups"], "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:987929a36fe4d2e75e41183b6a76b342c2554ef4431950e413ef1af0e03f3161", "type": "sep_package", "label": "SEP v1 package for pmid:40093675"}], "activities": [{"id": "activity:conversion:pmid:40093675", "type": "conversion", "used": ["package:987929a36fe4d2e75e41183b6a76b342c2554ef4431950e413ef1af0e03f3161"], "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": "4d897033-62c8-461b-b797-48ab7cf14262", "parent_hash": "987929a36fe4d2e75e41183b6a76b342c2554ef4431950e413ef1af0e03f3161", "fork_of": null, "generation": 1}, "gaps": ["abstract", "asset:source:pmid:40093675 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:40093675' does not resolve to a declared asset", "targets"]}