Identification of LSM family members as potential chemoresistance predictive and therapeutic biomarkers for gastric cancer.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37007092", "kind": "science-record", "revision": 3, "content_hash": "sha256:752e6e9138e373a6c2270fb81e7ac6e30174d709290c7f25ae5c58a3aff8c0cf", "created_at": "2026-11-01T19:01:39Z", "updated_at": "2026-11-01T22:09:11Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of LSM family members as potential chemoresistance predictive and therapeutic biomarkers for gastric cancer.", "doi": "10.3389/fonc.2023.1119945", "pmid": "37007092", "authors": ["Qianhui Liu", "Qinghai Lian", "Yingqiu Song", "Shangbin Yang", "Changchang Jia", "Jiafeng Fang"], "journal": "Frontiers in oncology", "year": 2023, "abstract": "Introduction: The Like-Smith (LSM) family plays a critical role in the progression of several cancers. However, the function of LSMs in chemoresistance of gastric cancer (GC) is still elusive.\nMethods: The Cancer Genome Atlas (TCGA) database, Gene Expression Omnibus (GEO) database and Tumor Immune Estimation Resource Analysis (TIMER) were utilized to analyze the expression, prognostic value and immune infiltration of LSMs in GC patients. Moreover, qPCR and immunohistochemistry (IHC) experiment were conducted with clinical samples.\nResults: The expression of LSMs was upregulated in GC tissues and most of LSMs were negatively correlated with overall survival of GC patients with 5-fluorouracil (5-FU) treatment. We further revealed that LSM5, 7 and 8 were hub genes of GEO (GSE14210). Besides, the qPCR results demonstrated that a higher level of LSM5 and LSM8 was associated with 5-FU chemoresistance in GC. Moreover, both TIMER and IHC revealed that a lower expression of LSM5 and LSM8 was correlated with high infiltration of T cells, regulatory T cells, B cells, macrophages, and neutrophils.\nDiscussion: Our study systematically investigated the expression pattern and biological features of LSM family members in GC, and identified LSM5 and LSM8 as potential biomarkers in GC with 5-FU chemotherapy.", "claims": [{"id": "claim-method", "statement": "We determined the correlations between LSMs mRNA expression levels and the survival of GC patients using the KM Plotter (http://www.kmplot.com) (accessed on 18 December 2021) databases (15).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37007092", "locator": "sections[9] \"Survival analysis\" paragraph 2", "quote": "We determined the correlations between LSMs mRNA expression levels and the survival of GC patients using the KM Plotter (http://www.kmplot.com) (accessed on 18 December 2021) databases (15)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The original contributions presented in the study are included in the article/ Supplementary Material . Further inquiries can be directed to the corresponding author.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37007092", "locator": "sections[28] \"Data availability statement\" paragraph 2", "quote": "The original contributions presented in the study are included in the article/ Supplementary Material . Further inquiries can be directed to the corresponding author."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The expression of LSMs was upregulated in GC tissues and most of LSMs were negatively correlated with overall survival of GC patients with 5-fluorouracil (5-FU) treatment.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:37007092", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "The expression of LSMs was upregulated in GC tissues and most of LSMs were negatively correlated with overall survival of GC patients with 5-fluorouracil (5-FU) treatment."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The expression of LSMs was upregulated in GC tissues and most of LSMs were negatively correlated with overall survival of GC patients with 5-fluorouracil (5-FU) treatment.", "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:37007092"], "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:GSE14210"], "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:GSE14210"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:37007092", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fonc.2023.1119945", "sha256": "sha256:e3376a18c51bbaad8b0d744d0f0bebbf9f8fd6922f1e6a5abb5293eebccb5823", "bytes": 36147, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.3389/fonc.2023.1119945", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC10064066", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE14210", "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=GSE14210", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE14210", "version": null, "note": "The original contributions presented in the study are included in the article/ Supplementary Material . Further inquiries can be directed to the corresponding author.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The original contributions presented in the study are included in the article/ Supplementary Material . 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Moreover, qPCR and immunohistochemistry (IHC) experiment we", "re hub genes of GEO (GSE14210). Besides, the qPCR results demonstrated that a higher level of"], "order_basis": "paper_text_order:531", "id": "assay:1"}, {"role": "data_generation", "definition_id": "ihc", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["n of LSMs in GC patients. Moreover, qPCR and immunohistochemistry (IHC) experiment were conducted with clinica", "ts. Moreover, qPCR and immunohistochemistry (IHC) experiment were conducted with clinical sam", "moresistance in GC. Moreover, both TIMER and IHC revealed that a lower expression of LSM5 and"], "order_basis": "paper_text_order:540", "id": "assay:2"}, {"role": "analysis", "definition_id": "survival_analysis", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["survival_km"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["We determined the correlations between LSMs mRNA expression levels and the survival of GC patients using the KM Plotter (http://www.kmplot.com) (accessed on 18 December 2021) databases (15)."], "order_basis": "consumes_earlier_output", "id": "assay:3"}]}