Energy metabolism disorder dictates chronic hypoxia damage in heart defect with tetralogy of fallot.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:36741837", "kind": "science-record", "revision": 2, "content_hash": "sha256:5211b13234966e2dde02ea7751388f957d58ceaa3dfd9c82f7b8219a4a05f492", "created_at": "2026-11-01T19:01:18Z", "updated_at": "2026-11-01T21:30:02Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Energy metabolism disorder dictates chronic hypoxia damage in heart defect with tetralogy of fallot.", "doi": "10.3389/fcvm.2022.1096664", "pmid": "36741837", "authors": ["Libao Liu", "Lei Huang", "Lishuai Yao", "Fan Zou", "Jinyuan He", "Xiaodong Zhao", "Lugang Mei", "Shuai Huang"], "journal": "Frontiers in cardiovascular medicine", "year": 2022, "abstract": "Background: Tetralogy of Fallot (TOF) belongs to cyanotic heart damage, which is the most common in clinic. In the chronic myocardial hypoxia injury related to TOF, the potential molecular mechanism of cardiac energy metabolism remains unclear.\nMaterials and methods: In our study, microarray transcriptome analysis and metabonomics methods were used to explore the energy metabolism pathway during chronic hypoxia injury. The gene expression omnibus (GEO) dataset GSE132176 was obtained for analyzing the metabolic pathways. The clinical samples (right atrial tissues) of atrial septal defect (ASD) and TOF were analyzed by metabonomics. Next, we screened important pathways and important differential metabolites related to energy metabolism to explore the pathogenesis of TOF.\nResults: Gene set enrichment analysis (GSEA) indicated that fructose 6-phosphate metabolic process, triglyceride metabolic process, and et al. were significantly enriched. Gene set variation analysis (GSVA) results showed that significant difference of ASD group and TOF group existed in terpenoid metabolic process and positive regulation of triglyceride metabolic process. Pathways with significant enrichment (impact > 0.1) in TOF were caffeine metabolism (impact = 0.69), sphingolipid metabolism (impact = 0.46), glycerophospholipid metabolism (impact = 0.26), tryptophan metabolism (impact = 0.24), galactose metabolism (impact = 0.11). Pathways with significant enrichment (impact > 0.1) in ASD are caffeine metabolism (impact = 0.69), riboflavin metabolism (impact = 0.5), alanine, aspartate and glutamate metabolism (impact = 0.35), histidine metabolism (impact = 0.34) and et al.\nConclusion: Disturbed energy metabolism occurs in patients with TOF or ASD, and further investigation was needed to further clarify mechanism.", "claims": [{"id": "claim-method", "statement": "To determine whether there is a significant difference between 10 patients with TOF and 10 patients with ASD, GSEA was conducted (15, 16).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36741837", "locator": "sections[5] \"2.3. Gene set enrichment analysis (GSEA) and gene set variation analysis (GSVA)\" paragraph 2", "quote": "To determine whether there is a significant difference between 10 patients with TOF and 10 patients with ASD, GSEA was conducted (15, 16)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The original contributions presented in this study are included in the article/Supplementary material, further inquiries can be directed to the corresponding authors.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36741837", "locator": "sections[19] \"Data availability statement\" paragraph 2", "quote": "The original contributions presented in this study are included in the article/Supplementary material, further inquiries can be directed to the corresponding authors."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The results showed that the regulation of triglyceride metabolic process (p = 0.000028), carboxylic acid metabolic process (p = 0.00057), organic acid metabolic process (p = 0.00071), fructose 6-phosphate metabolic process (p = 0.00076), triglyceride metabolic process (p = 0.00094), retinoid metabolic process (p = 0.00097), oxoacid metabolic process (p = 0.00154), aspartate metabolic process (p = 0.00175), positive regulation of triglyceride metabolic process (p = 0.00192) were most significantly enriched (Figure 2A).", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:36741837", "locator": "sections[14] \"3.2. Result of GSEA and GSVA\" paragraph 2", "quote": "The results showed that the regulation of triglyceride metabolic process (p = 0.000028), carboxylic acid metabolic process (p = 0.00057), organic acid metabolic process (p = 0.00071), fructose 6-phosphate metabolic process (p = 0.00076), triglyceride metabolic process (p = 0.00094), retinoid metabolic process (p = 0.00097), oxoacid metabolic process (p = 0.00154), aspartate metabolic process (p = 0.00175), positive regulation of triglyceride metabolic process (p = 0.00192) were most significantly enriched (Figure 2A)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The results showed that the regulation of triglyceride metabolic process (p = 0.000028), carboxylic acid metabolic process (p = 0.00057), organic acid metabolic process (p = 0.00071), fructose 6-phosphate metabolic process (p = 0.00076), triglyceride metabolic process (p = 0.00094), retinoid metabolic process (p = 0.00097), oxoacid metabolic process (p = 0.00154), aspartate metabolic process (p = 0.00175), positive regulation of triglyceride metabolic process (p = 0.00192) were most significantly enriched (Figure 2A).", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:36741837"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. 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the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC9889939", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE132176", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE132176", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE132176", "version": null, "note": "The original contributions presented in this study are included in the article/Supplementary material, further inquiries can be directed to the corresponding authors.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The original contributions presented in this study are included in the article/Supplementary material, further inquiries can be directed to the corresponding authors.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM3852123", "GSM3852124", "GSM3852125", "GSM3852126", "GSM3852127", "GSM3852128", "GSM3852129", "GSM3852130", "GSM3852131", "GSM3852132", "GSM3852133", "GSM3852134", "GSM3852135", "GSM3852136", "GSM3852137", "GSM3852138", "GSM3852139", "GSM3852140", "GSM3852141", "GSM3852142", "GSM3852143", "GSM3852144", "GSM3852145", "GSM3852146", "GSM3852147", "GSM3852148", "GSM3852149", "GSM3852150", "GSM3852151", "GSM3852152", "GSM3852153", "GSM3852154", "GSM3852155", "GSM3852156", "GSM3852157", "GSM3852158", "GSM3852159", "GSM3852160", "GSM3852161", "GSM3852162"], "sample_count": 40, "group_sizes": null, "group_sizes_basis": null, "platform": "13158", "taxon": "Homo sapiens", "title": "Transcriptome analysis defines ToF and ASD myocardial gene signatures and reveals disease-specific gene reprogramming upon surgery with cardiopulmonary bypass", "resolution_checked_at": "2026-11-01T18:06:43Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}], "gaps": ["asset:data:geo:GSE132176 not downloaded", "asset:data:geo:GSE132176 licence not read"]}, "analysis": {"state": "partial", "methods": [{"id": "method-1", "family": "principal_component_analysis", "specific": "pca", "label": "Principal component analysis", "dsl_operations": ["pca_fit"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["wide_numeric_matrix"], "evidence": {"score": 0.8, "band": "high", "quote": "PCA"}}, {"id": "method-2", "family": null, "specific": null, "label": "Gene set enrichment analysis (GSEA)", "dsl_operations": [], "missing_operations": [], "expressible": null, "parameters": {}, "data_shapes": [], "evidence": {"score": 1.0, "band": "verbatim", "quote": "To determine whether there is a significant difference between 10 patients with TOF and 10 patients with ASD, GSEA was conducted (15, 16)."}}], "targets": [], "gaps": ["method.reader_named_unmapped"]}, "capability": {"state": "complete", "requirements": [{"capability_id": "capability:computational_analysis", "label": "Computational analysis platform", "assay_families": ["meta_analysis", "machine_learning", "survival_analysis", "statistical_regression", "pca", "molecular_docking", "network_analysis", "differential_expression", "gwas"], "availability_state": "owned", "tier_unlocked": "R1", "candidate": "Automated Assays Laravel application and simulated adapters"}], "gaps": []}, "readiness": {"state": "complete", "tier": "R1", "blocking_axis": "none", "blocked_on": "nothing:replicable_now", "axes": {"method": {"tier": "R1", "expressible": true, "required_operations": ["pca_fit"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: pca."}, "capability": {"tier": "R1", "capability_id": "capability:computational_analysis", "availability_state": "owned", "basis": "The computational analysis is owned. 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