Myocardial Posttranscriptional Landscape in Peripartum Cardiomyopathy.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:39513265", "kind": "science-record", "revision": 4, "content_hash": "sha256:251881f1bb732c8b0597bf411ee0ff0de7fe356b7f5cb5b26854c675191ad88a", "created_at": "2026-11-01T20:29:46Z", "updated_at": "2026-11-01T22:55:34Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Myocardial Posttranscriptional Landscape in Peripartum Cardiomyopathy.", "doi": "10.1161/CIRCHEARTFAILURE.124.011725", "pmid": "39513265", "authors": ["Amy Li", "Bernard Fang", "Mengbo Li", "Yen Chin Koay", "Cassandra Malecki", "Benjamin Hunter", "Dylan Harney", "Cristobal G Dos Remedios", "Mark Larance", "John F O'Sullivan", "Sean Lal"], "journal": "Circulation. Heart failure", "year": 2024, "abstract": "BACKGROUND: Pregnancy imposes significant cardiovascular adaptations, including progressive increases in plasma volume and cardiac output. For most women, this physiological adaptation resolves at the end of pregnancy, but some women develop pathological dilatation and ultimately heart failure late in pregnancy or in the postpartum period, manifesting as peripartum cardiomyopathy (PPCM). Despite the mortality risk of this form of heart failure, the molecular mechanisms underlying PPCM have not been extensively examined in human hearts.\nMETHODS: Protein and metabolite profiles from left ventricular tissue of end-stage PPCM patients (N=6-7) were compared with dilated cardiomyopathy (DCM; N=5-6) and nonfailing donors (N=7-18) using unbiased quantitative mass spectrometry. All samples were derived from the Sydney Heart Bank. Data are available via ProteomeXchange with identifier PXD055986. Differential protein expression and metabolite abundance and Kyoto Encyclopedia of Genes and Genomes pathway analyses were performed.\nRESULTS: Proteomic analysis identified 2 proteins, SBSPON (somatomedin B and thrombospondin type 1 domain-containing protein precursor) and TNS3 (tensin 3), that were uniquely downregulated in PPCM. SBSPON, an extracellular matrix protein, and TNS3, involved in actin remodeling and cell signaling, may contribute to impaired tissue remodeling and fibrosis in PPCM. Metabolomic analysis revealed elevated levels of homogentisate and deoxycholate and reduced levels of lactate and alanine in PPCM, indicating disrupted metabolic pathways and glucose utilization. Both PPCM and DCM shared pathways related to inflammation, immune responses, and signal transduction. However, thyroid hormone signaling was notably reduced in PPCM, affecting contractility and calcium handling through altered expression of PLN (phospholamban) and Sarcoendoplasmic Reticulum Calcium ATPase (SERCA). Enhanced endoplasmic reticulum stress and altered endocytosis pathways in PPCM suggested additional mechanisms of energy metabolism disruption.\nCONCLUSIONS: The present study reveals unique posttranslational molecular features of the PPCM myocardium, which mediates cellular and metabolic remodeling, and holds promise as potential targets for therapeutic intervention.", "claims": [{"id": "claim-method", "statement": "Differential expression (DE) analysis for proteins and differential abundance (DA) analysis for metabolites were performed using lmFit and eBayes functions in the limma R package.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39513265", "locator": "sections[11] \"Statistics\" paragraph 2", "quote": "Differential expression (DE) analysis for proteins and differential abundance (DA) analysis for metabolites were performed using lmFit and eBayes functions in the limma R package."}], "state": "complete"}, {"id": "claim-data-access", "statement": "All data and materials have been made publicly available at the ProteomeXchange Consortium via the PRIDE partner repository with identifier PXD055986. Supporting data are available within the article and its Supplemental Material.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39513265", "locator": "sections[7] \"Data Availability\" paragraph 2", "quote": "All data and materials have been made publicly available at the ProteomeXchange Consortium via the PRIDE partner repository with identifier PXD055986. Supporting data are available within the article and its Supplemental Material."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Proteomic analysis identified 2 proteins, SBSPON and TNS3, that were uniquely downregulated in PPCM, while metabolomic analysis revealed elevated homogentisate and deoxycholate and reduced lactate and alanine.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:39513265", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Proteomic analysis identified 2 proteins, SBSPON (somatomedin B and thrombospondin type 1 domain-containing protein precursor) and TNS3 (tensin 3), that were uniquely downregulated in PPCM."}, {"asset": "source:pmid:39513265", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Metabolomic analysis revealed elevated levels of homogentisate and deoxycholate and reduced levels of lactate and alanine in PPCM, indicating disrupted metabolic pathways and glucose utilization."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Proteomic analysis identified 2 proteins, SBSPON and TNS3, that were uniquely downregulated in PPCM, while metabolomic analysis revealed elevated homogentisate and deoxycholate and reduced lactate and alanine.", "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:39513265"], "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. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:PXD055986"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:PXD055986"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:39513265", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1161/CIRCHEARTFAILURE.124.011725", "sha256": "sha256:f7ae768ae667075573a7f03882af921d8b623f0281c263c18137514b6331b35a", "bytes": 66202, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1161/CIRCHEARTFAILURE.124.011725", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC11643137", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:PXD055986", "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=PXD055986", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "PXD055986", "version": null, "note": "All data and materials have been made publicly available at the ProteomeXchange Consortium via the PRIDE partner repository with identifier PXD055986. 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No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "assets": ["source:pmid:39513265", "data:geo:PXD055986"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:PXD055986"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-11-01T19:37:52Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 5, "usage": {"prompt_tokens": 19093, "completion_tokens": 1226, "cached_tokens": 264}}, "human_critique": null, "stages": [{"id": "extraction", "state": "complete", "reader": "MiniMax-M3.1-Flash", "provider": "minimax"}], "gaps": ["review.independent_reader", "review.machine_critique", "review.human_critique"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "pmid:39513265", "type": "paper", "label": "pmid:39513265"}, {"id": "source:pmid:39513265", "type": "manuscript", "label": "PMID 39513265 full text"}, {"id": "data:geo:PXD055986", "type": "dataset", "label": "GEO PXD055986"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:39513265", "type": "paper", "label": "pmid:39513265"}, {"id": "source:pmid:39513265", "type": "manuscript", "label": "PMID 39513265 full text"}, {"id": "data:geo:PXD055986", "type": "dataset", "label": "GEO PXD055986"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-39513265", "type": "extraction", "used": ["source:pmid:39513265"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-PXD055986", "type": "accession_resolution", "used": ["data:geo:PXD055986"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}, {"id": "agent:minimax-reader", "type": "software", "label": "MiniMax literature reader"}], "source_run_id": "reading-sci-2026-11-01", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "pmid:39513265", "parent_hash": "sha256:4a11161cd08489e18218497f71b5178aa225a15620d1f0acaf83463c6fbed8c2", "fork_of": null, "generation": 3}, "gaps": ["asset:data:geo:PXD055986 licence not read", "asset:data:geo:PXD055986 not downloaded", "execution.not_run", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "data_generation", "definition_id": "mass_spectrometry", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["donors (N=7-18) using unbiased quantitative mass spectrometry. 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