Transcription factor NFKB1 mediates TUBB6 to promote the proliferation and suppress apoptosis in glioma via Wnt/β-catenin signaling pathway.

{"sci_version": "1.0", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:40169445", "kind": "science-record", "revision": 2, "content_hash": "sha256:2f074d457f3744def47dcf4fc599781ff52f11a9ca2402aa87b64d29960b2e2d", "created_at": "2026-11-01T10:25:50Z", "updated_at": "2026-11-01T14:01:39Z", "generator": {"name": "corpus-assay-engine", "converter": "sep_to_sci_v1", "source_package_schema": "urn:bntrg:sep:1.0.0"}, "paper": {"state": "partial", "title": "Transcription factor NFKB1 mediates TUBB6 to promote the proliferation and suppress apoptosis in glioma via Wnt/β-catenin signaling pathway.", "doi": "10.1007/s12672-025-02268-x", "pmid": "40169445", "authors": null, "journal": "Discover oncology", "year": 2025, "abstract": null, "claims": [{"id": "claim-1", "statement": "the headline numerical result the paper states for its main finding", "kind": "qualitative", "state": "blocked", "target": {"value": null, "unit": null, "tolerance": null, "source": null}, "evidence": []}], "gaps": ["abstract", "authors"]}, "experiment": {"state": "partial", "objective": "the headline numerical result the paper states for its main finding", "steps": [{"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.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:40169445"], "outputs": ["the published estimate, its unit and its interval"], "instruments": [], "reagents": []}, {"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.", "duration_hours": null, "parameters": {}, "inputs": [], "outputs": ["the source data with its provenance"], "instruments": [], "reagents": []}, {"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:40169445", "duration_hours": null, "parameters": {}, "inputs": [], "outputs": ["the registered result"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": ["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:40169445' does not resolve to a declared asset"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:40169445", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1007/s12672-025-02268-x", "sha256": "sha256:9f95fa3c0bdb2979ee62363a069502542714967b36261a92b5ce600067957f16", "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1007/s12672-025-02268-x", "version": null, "note": "Source read by the package builder: full_text.", "structure": {"access_state": "full_text"}}, {"id": "asset:table:pmid:40169445:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:28640aa0ad4d6683624e6b7d8430b0e6a45afaef361708815dafebce06bcac9f", "bytes": 971, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[3]/table-wrap[1]#Tab1", "version": null, "note": "Correlation between TUBB6 expression with clinicopathologic features of glioma", "structure": {"pmcid": "PMC11961833", "section_index": 3, "section_title": "Samples and datasets", "row_count": 18, "column_count": 4}, "table": {"label": "Table 1", "caption": "Correlation between TUBB6 expression with clinicopathologic features of glioma", "rows": [["Characteristics", "Low expression of TUBB6", "High expression of TUBB6", "P value"], ["n", "265", "266", ""], ["WHO grade, n (%)", "", "", "< 0.001"], ["G2", "139 (29.6%)", "85 (18.1%)", ""], ["G3", "97 (20.7%)", "148 (31.6%)", ""], ["IDH status, n (%)", "", "", "< 0.001"], ["WT", "22 (4.2%)", "75 (14.2%)", ""], ["Mut", "243 (46%)", "188 (35.6%)", ""], ["Age, n (%)", "", "", "0.208"], ["< = 40", "125 (23.5%)", "140 (26.4%)", ""], ["> 40", "140 (26.4%)", "126 (23.7%)", ""], ["Gender, n (%)", "", "", "0.241"], ["Female", "126 (23.7%)", "113 (21.3%)", ""], ["Male", "139 (26.2%)", "153 (28.8%)", ""], ["Histological type, n (%)", "", "", "< 0.001"], ["Astrocytoma", "64 (12.1%)", "132 (24.9%)", ""], ["Oligoastrocytoma", "59 (11.1%)", "76 (14.3%)", ""], ["Oligodendroglioma", "142 (26.7%)", "58 (10.9%)", ""]], "row_count": 18, "column_count": 4, "numeric_cells": 31, "header_rows": 1, "locator": "section[3]/table-wrap[1]#Tab1"}}], "gaps": ["asset:source:pmid:40169445 not verified"]}, "analysis": {"state": "absent", "methods": [], "targets": [], "gaps": ["method", "targets"]}, "capability": {"state": "absent", "requirements": [], "gaps": ["capability"]}, "readiness": {"state": "partial", "tier": null, "blocking_axis": null, "blocked_on": null, "axes": {}, "can_run": {"dsl_operations": [], "assets": ["source:pmid:40169445", "asset:table:pmid:40169445:1"], "steps": ["read_published_estimate"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": ["xml"], "capabilities": [], "data_gaps": ["source:pmid:40169445"]}, "gaps": ["corpus_record_absent"]}, "review": {"state": "partial", "machine_critique": {"status": "blocked", "providers": [{"provider": "minimax", "model": "MiniMax-M3.1-Flash", "prompt_version": "full-text-reading-v1", "prompt_hash": "8fe93951011f847219a4ffbeacc15beb3ae67a053e3340c6f78d115ba3f34540", "source_hash": "9f95fa3c0bdb2979ee62363a069502542714967b36261a92b5ce600067957f16", "raw_response_sha256": "sha256:3a8630f2371fa554c8e6e88d60f3fae72cd4f69fc96a578b8cde27647fe4d0f3", "raw_response_chars": 3105}, {"provider": "minimax_alt", "model": "MiniMax-M3", "prompt_version": "full-text-reading-v1", "prompt_hash": "eadcd0074030f70e4e1b10a0719d66252bd523bff084b722d4d6c147c62cd9af", "source_hash": "9f95fa3c0bdb2979ee62363a069502542714967b36261a92b5ce600067957f16", "raw_response_sha256": "sha256:b197e6f3bc9ae0f24dc6ac59d05b97955ee8399b31726cf22d482b95ddbe9ee9", "raw_response_chars": 49891}], "target_providers": [], "agreement": false, "disagreements": {"target_result": {"minimax": "The diagnostic value of TUBB6 was demonstrated with an area under the curve (AUC) of 0.702.", "minimax_alt": "The diagnostic value of TUBB6 was demonstrated with an area under the curve (AUC) of 0.702, suggesting that it could be used as a biomarker to differentiate gliomas", "decisive": false}, "work_type": {"minimax": "analysis_only_for_target", "minimax_alt": "analysis_plus_physical_validation", "decisive": true}, "physical_methods": {"minimax": [], "minimax_alt": ["In vitro experiments in glioma cells", "TUBB6 knockdown", "NFKB1 knockdown"], "decisive": false}, "analysis_methods": {"minimax": ["Analysis of the GSE42656 and TCGA datasets", "Survival analysis using the log-rank test", "Cox proportional hazards regression analysis"], "minimax_alt": ["area under the curve (AUC) analysis", "correlation analysis", "median-expression-based grouping into high- and low-TUBB6 expression groups", "survival analysis using the log-rank test", "Cox proportional hazards regression analysis", "differential analysis", "Metascape functional enrichment analysis", "Gene Ontology (GO) analysis", "KEGG pathway analysis", "Disease Ontology (DO) analysis", "pan-cancer analysis"], "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": "blocked", "reason": "The independent readings are incomplete or disagree; the source evidence must resolve the difference.", "evidence": {"provider_errors": [{"provider": "minimax", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}, {"provider": "minimax_alt", "model": null, "reason": "HTTP Error 429: Too Many Requests", "raw_response": null}]}}, {"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.blocked"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "package:8a7109046666e14cbf9e4c8e99decdd9780291b6c6bf5c3462116e72a1715d69", "type": "sep_package", "label": "SEP v1 package for pmid:40169445"}], "activities": [{"id": "activity:conversion:pmid:40169445", "type": "conversion", "used": ["package:8a7109046666e14cbf9e4c8e99decdd9780291b6c6bf5c3462116e72a1715d69"], "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:40169445", "parent_hash": "sha256:06709e86bc4f8330165dd2d7e6744ec10fcf37466a5b0ebf12340525d3eb6062", "fork_of": null, "generation": 2}, "gaps": ["abstract", "asset:source:pmid:40169445 not verified", "authors", "capability", "corpus_record_absent", "execution.not_run", "method", "review.human_critique", "review.machine_critique.blocked", "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:40169445' does not resolve to a declared asset", "targets"]}