Identification of Potential Biomarkers Associated with Basal Cell Carcinoma.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:32382535", "kind": "science-record", "revision": 5, "content_hash": "sha256:f36a26e6ebfc3a4752b0e05189befd1beb384ac03defcab855845869a78f5ad6", "created_at": "2026-11-01T15:41:01Z", "updated_at": "2026-11-01T22:44:49Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of Potential Biomarkers Associated with Basal Cell Carcinoma.", "doi": "10.1155/2020/2073690", "pmid": "32382535", "authors": ["Yong Liu", "Hui Liu", "Queqiao Bian"], "journal": "BioMed research international", "year": 2020, "abstract": "PURPOSE: This work is aimed at identifying several molecular markers correlated with the diagnosis and development of basal cell carcinoma (BCC).\nMETHODS: The available microarray datasets for BCC were obtained from the Gene Expression Omnibus (GEO) database, and differentially expressed genes (DEGs) were identified between BCC and healthy controls. Afterward, the functional enrichment analysis and protein-protein interaction (PPI) network analysis of these screened DEGs were performed. An external validation for the DEG expression level was also carried out, and receiver operating characteristic curve analysis was used to evaluate the diagnostic values of DEGs.\nRESULT: In total, five microarray datasets for BCC were downloaded and 804 DEGs (414 upregulated and 390 downregulated genes) were identified. Functional enrichment analysis showed that these genes including CYFIP2, HOXB5, EGFR, FOXN3, PTPN3, CDC20, MARCKSL1, FAS, and PTCH1 were closely correlated with the cell process and PTCH1 played central roles in the BCC signaling pathway. Moreover, EGFR was a hub gene in the PPI network. The expression changes of six genes (CYFIP2, HOXB5, FOXN3, PTPN3, MARCKSL1, and FAS) were validated by an external GSE74858 dataset analysis. Finally, ROC analysis revealed that CYFIP2, HOXB5, PTPN3, MARCKSL1, PTCH1, and CDC20 could distinguish BCC and healthy individuals.\nCONCLUSION: Nine gene signatures (CYFIP2, HOXB5, EGFR, FOXN3, PTPN3, CDC20, MARCKSL1, FAS, and PTCH1) may serve as promising targets for BCC detection and development.", "claims": [{"id": "claim-method", "statement": "A meta-analysis of five microarray datasets from different platforms was carried out according to the guidelines provided by Ramasamy et al. [13].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32382535", "locator": "sections[4] \"2.2. Identification of Differentially Expressed Genes (DEGs)\" paragraph 2", "quote": "A meta-analysis of five microarray datasets from different platforms was carried out according to the guidelines provided by Ramasamy et al. [13]."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32382535", "locator": "sections[14] \"Data Availability\" paragraph 2", "quote": "The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": null, "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:32382535"], "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:GSE103439"], "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:GSE103439"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:32382535", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1155/2020/2073690", "sha256": 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The physical bench the paper used is not, so a physical validation cannot be run here."}, "data": {"tier": "R1", "reachable": true, "accessions": ["GSE103439", "GSE53462", "GSE42109", "GSE39612", "GSE7553", "GSE74858"], "resolved_accessions": ["GSE103439", "GSE53462", "GSE42109", "GSE39612", "GSE7553", "GSE74858"], "statements": ["The datasets used and/or analyzed during the current study are available from the corresponding author on reasonable request."], "basis": "The paper names GSE103439, GSE53462, GSE42109, GSE39612, GSE7553, GSE74858 in NCBI Gene Expression Omnibus (GEO) and the accession resolves in the repository. 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METHODS: The available microarray datasets for BCC were obtained from the Gene", "ostic values of DEGs. RESULT: In total, five microarray datasets for BCC were downloaded and 804 DEG"], "order_basis": "paper_text_order:201", "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": ["A meta-analysis of five microarray datasets from different platforms was carried out according to the guidelines provided by Ramasamy et al. [13]."], "order_basis": "consumes_earlier_output", "id": "assay:2"}]}