The relationship between protein modified folding molecular network and Alzheimer's disease pathogenesis based on BAG2-HSC70-STUB1-MAPT expression patterns analysis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37251806", "kind": "science-record", "revision": 3, "content_hash": "sha256:7308db6c32ef8e3aff6538fb8f91392f13b09030183bbe5262f3c69ffa03b255", "created_at": "2026-11-01T19:01:58Z", "updated_at": "2026-11-01T22:09:35Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "The relationship between protein modified folding molecular network and Alzheimer's disease pathogenesis based on BAG2-HSC70-STUB1-MAPT expression patterns analysis.", "doi": "10.3389/fnagi.2023.1090400", "pmid": "37251806", "authors": ["Xiaolong Yang", "Wenbo Guo", "Lin Yang", "Xuehui Li", "Zhengkun Zhang", "Xinping Pang", "Ji Liu", "Chaoyang Pang"], "journal": "Frontiers in aging neuroscience", "year": 2023, "abstract": "Background: Alzheimer's disease (AD) is the most common cause of dementia and cognitive decline, while its pathological mechanism remains unclear. Tauopathies is one of the most widely accepted hypotheses. In this study, the molecular network was established and the expression pattern of the core gene was analyzed, confirming that the dysfunction of protein folding and degradation is one of the critical factors for AD.\nMethods: This study analyzed 9 normal people and 22 AD patients' microarray data obtained from GSE1297 in Gene Expression Omnibus (GEO) database. The matrix decomposition analysis was used to identify the correlation between the molecular network and AD. The mathematics of the relationship between the Mini-Mental State Examination (MMSE) and the expression level of the genes involved in the molecular network was found by Neural Network (NN). Furthermore, the Support Vector Machine (SVM) model was for classification according to the expression value of genes.\nResults: The difference of eigenvalues is small in first three stages and increases dramatically in the severe stage. For example, the maximum eigenvalue changed to 0.79 in the severe group from 0.56 in the normal group. The sign of the elements in the eigenvectors of biggest eigenvalue reversed. The linear function of the relationship between clinical MMSE and gene expression values was observed. Then, the model of Neural Network (NN) is designed to predict the value of MMSE based on the linear function, and the predicted accuracy is up to 0.93. For the SVM classification, the accuracy of the model is 0.72.\nConclusion: This study shows that the molecular network of protein folding and degradation represented by \"BAG2-HSC70-STUB1-MAPT\" has a strong relationship with the occurrence and progression of AD, and this degree of correlation of the four genes gradually weakens with the progression of AD. The mathematical mapping of the relationship between gene expression and clinical MMSE was found, and it can be used in predicting MMSE or classification with high accuracy. These genes are expected to be potential biomarkers for early diagnosis and treatment of AD.", "claims": [{"id": "claim-method", "statement": "We performed a Weighted Gene Co-expression Network Analysis (WGCNA) to investigate the expression patterns and coordination of BAG2, STUB1, HSC70, and MAPT in Alzheimer’s disease (AD) patients.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37251806", "locator": "sections[12] \"WGCNA network construction and identification of genes\" paragraph 2", "quote": "We performed a Weighted Gene Co-expression Network Analysis (WGCNA) to investigate the expression patterns and coordination of BAG2, STUB1, HSC70, and MAPT in Alzheimer’s disease (AD) patients."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets presented in this study can be found in online repositories. The names of the repository/repositories and accession number(s) can be found in the article/Supplementary material.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37251806", "locator": "sections[17] \"Data availability statement\" paragraph 2", "quote": "The datasets presented in this study can be found in online repositories. The names of the repository/repositories and accession number(s) can be found in the article/Supplementary material."}], "state": "complete"}, {"id": "claim-target-result", "statement": "This study shows that the molecular network of protein folding and degradation represented by “BAG2-HSC70-STUB1-MAPT” has a strong relationship with the occurrence and progression of AD, and this degree of correlation of the four genes gradually weakens with the progression of AD.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:37251806", "locator": "sections[0] \"Abstract\" paragraph 4", "quote": "This study shows that the molecular network of protein folding and degradation represented by “BAG2-HSC70-STUB1-MAPT” has a strong relationship with the occurrence and progression of AD, and this degree of correlation of the four genes gradually weakens with the progression of AD."}, {"asset": "source:pmid:37251806", "locator": "sections[0] \"Abstract\" paragraph 4", "quote": "The mathematical mapping of the relationship between gene expression and clinical MMSE was found, and it can be used in predicting MMSE or classification with high accuracy."}, {"asset": "source:pmid:37251806", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "For the SVM classification, the accuracy of the model is 0.72."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "This study shows that the molecular network of protein folding and degradation represented by “BAG2-HSC70-STUB1-MAPT” has a strong relationship with the occurrence and progression of AD, and this degree of correlation of the four genes gradually weakens with the progression of AD.", "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:37251806"], "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:GSE1297"], "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:GSE1297"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:37251806", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fnagi.2023.1090400", "sha256": "sha256:55782f920843351e11a43c1b0ae8cf13820be8f75cc22fa7afe6e98bfe6df8a0", "bytes": 53040, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.3389/fnagi.2023.1090400", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC10213342", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE1297", "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=GSE1297", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE1297", "version": null, "note": "The datasets presented in this study can be found in online repositories. 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