Transcriptomic analysis identifies the shared diagnostic biomarkers and immune relationship between Atherosclerosis and abdominal aortic aneurysm based on fatty acid metabolism gene set.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:38660376", "kind": "science-record", "revision": 4, "content_hash": "sha256:998f891deb823ae59e947a8ed169e35b12335a10dc62be7e108aeb21a5b1eb27", "created_at": "2026-11-01T19:20:38Z", "updated_at": "2026-11-01T22:54:12Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Transcriptomic analysis identifies the shared diagnostic biomarkers and immune relationship between Atherosclerosis and abdominal aortic aneurysm based on fatty acid metabolism gene set.", "doi": "10.3389/fmolb.2024.1365447", "pmid": "38660376", "authors": ["Xuefeng Gu", "Zhongxian Yu", "Tianwei Qian", "Yiqi Jin", "Guoxiong Xu", "Jiang Li", "Jianfeng Gu", "Ming Li", "Ke Tao"], "journal": "Frontiers in molecular biosciences", "year": 2024, "abstract": "Background: Epidemiological research has demonstrated that there is a connection between lipid metabolism disorder and an increased risk of developing arteriosclerosis (AS) and abdominal aortic aneurysm (AAA). However, the precise relationship between lipid metabolism, AS, and AAA is still not fully understood. The objective of this study was to examine the pathways and potential fatty acid metabolism-related genes (FRGs) that are shared between AS and AAA.\nMethods: AS- and AAA-associated datasets were retrieved from the Gene Expression Omnibus (GEO) database, and the limma package was utilized to identify differentially expressed FRGs (DFRGs) common to both AS and AAA patients. Functional enrichment analysis was conducted on the (DFRGs), and a protein-protein interaction (PPI) network was established. The selection of signature genes was performed through the utilization of least absolute shrinkage and selection operator (LASSO) regression and random forest (RF). Subsequently, a nomogram was developed using the results of the screening process, and the crucial genes were validated in two separate external datasets (GSE28829 and GSE17901) as well as clinical samples. In the end, single-sample gene set enrichment analysis (ssGSEA) was utilized to assess the immune cell patterns in both AS and AAA. Additionally, the correlation between key crosstalk genes and immune cell was evaluated.\nResults: In comparison to control group, both AS and AAA patients exhibited a decrease in fatty acid metabolism score. We found 40 DFRGs overlapping in AS and AAA, with lipid and amino acid metabolism critical in their pathogenesis. PCBD1, ACADL, MGLL, BCKDHB, and IDH3G were identified as signature genes connecting AS and AAA. Their expression levels were confirmed in validation datasets and clinical samples. The analysis of immune infiltration showed that neutrophils, NK CD56dim cells, and Tem cells are important in AS and AAA development. Correlation analysis suggested that these signature genes may be involved in immune cell infiltration.\nConclusion: The fatty acid metabolism pathway appears to be linked to the development of both AS and AAA. Furthermore, PCBD1, ACADL, MGLL, BCKDHB, and IDH3G have the potential to serve as diagnostic markers for patients with AS complicated by AAA.", "claims": [{"id": "claim-method", "statement": "We utilized the limma package to conduct a comparative analysis of gene expression between the control (Con) and disease groups.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38660376", "locator": "sections[4] \"Identifying differentially expressed genes (DEGs)\" paragraph 2", "quote": "We utilized the limma package to conduct a comparative analysis of gene expression between the control (Con) and disease groups."}], "state": "complete"}, {"id": "claim-data-access", "statement": "All data used in the present study were available from the GEO database (https://www.ncbi.nlm.nih.gov/geo/).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38660376", "locator": "sections[21] \"Data availability statement\" paragraph 2", "quote": "All data used in the present study were available from the GEO database (https://www.ncbi.nlm.nih.gov/geo/)."}], "state": "complete"}, {"id": "claim-target-result", "statement": "PCBD1, ACADL, MGLL, BCKDHB, and IDH3G were identified as signature genes connecting AS and AAA.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:38660376", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "PCBD1, ACADL, MGLL, BCKDHB, and IDH3G were identified as signature genes connecting AS and AAA."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "PCBD1, ACADL, MGLL, BCKDHB, and IDH3G were identified as signature genes connecting AS and AAA.", "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:38660376"], "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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Quantitative real-time PCR (qRT-PCR) analysis was performed using the S", "Thermo Fisher). We utilized the Roche LC480 Real-Time PCR System to quantify the expression levels of"], "order_basis": "paper_text_order:3426", "id": "assay:1"}, {"role": "analysis", "definition_id": "differential_expression", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["We utilized the limma package to conduct a comparative analysis of gene expression between the control (Con) and disease groups."], "order_basis": "consumes_earlier_output", "id": "assay:2"}]}