Special role of JUN in papillary thyroid carcinoma based on bioinformatics analysis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:28673327", "kind": "science-record", "revision": 8, "content_hash": "sha256:360de50826ea78fb4997793f9f4e8d973ed3b9e83749bbd60a09b2c5017a6031", "created_at": "2026-11-01T15:40:27Z", "updated_at": "2026-11-01T22:43:02Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Special role of JUN in papillary thyroid carcinoma based on bioinformatics analysis.", "doi": "10.1186/s12957-017-1190-8", "pmid": "28673327", "authors": ["Wenzheng Chen", "Qingfeng Liu", "Yunxia Lv", "Debin Xu", "Wanzhi Chen", "Jichun Yu"], "journal": "World journal of surgical oncology", "year": 2017, "abstract": "BACKGROUND: Papillary thyroid carcinoma (PTC) is the most common malignancy in thyroid tissue, and the number of patients with PTC has been increasing in recent years. Discovering the mechanism of PTC genesis and progression and finding new potential diagnostic biomarkers/therapeutic target genes of PTC are of great significance.\nMETHODS: In this work, the datasets GSE3467 and GSE3678 were downloaded from the Gene Expression Omnibus (GEO) database. Differentially expressed genes (DEGs) were identified with the limma package in R. GO function and KEGG pathway enrichment were conducted with DAVID tool. The interaction network of the DEGs and other genes was performed with Cytoscape plugin BisoGenet, while clustering analysis was performed with Cytoscape plugin ClusterOne.\nRESULTS: A total of 1800 overlapped DEGs were detected in two datasets. Enrichment analysis of the DEGs found that the top three enriched GO terms in three ontologies and four significantly enriched KEGG pathways were mainly concerned with intercellular junction and extracellular matrix components. Interaction network analysis found that transcription factor hepatocyte nuclear factor 4, alpha (HNF4A) and DEG JUN had higher connection degrees. Clustering analysis indicated that two function modules, in which JUN was playing a central role, were highly relevant to PTC genesis and progression.\nCONCLUSIONS: JUN may be used as a specific diagnostic biomarker/therapeutic molecular target of PTC. However, further experiments are still needed to confirm our results.", "claims": [{"id": "claim-method", "statement": "The limma method [19] was used to identify DEGs in both datasets.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:28673327", "locator": "sections[4] \"DEGs analysis\" paragraph 2", "quote": "The limma method [19] was used to identify DEGs in both datasets."}], "state": "complete"}, {"id": "claim-data-access", "statement": "All data generated or analyzed during this study are included in this published article.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:28673327", "locator": "sections[14] \"ack\" paragraph 1", "quote": "All data generated or analyzed during this study are included in this published article."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Using limma on the GSE3467 and GSE3678 expression datasets downloaded from GEO, the study identified 1,800 overlapping differentially expressed genes in papillary thyroid carcinoma.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:28673327", "locator": "sections[0] \"Abstract\" paragraph 2", "quote": "In this work, the datasets GSE3467 and GSE3678 were downloaded from the Gene Expression Omnibus (GEO) database. Differentially expressed genes (DEGs) were identified with the limma package in R."}, {"asset": "source:pmid:28673327", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "A total of 1800 overlapped DEGs were detected in two datasets."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Using limma on the GSE3467 and GSE3678 expression datasets downloaded from GEO, the study identified 1,800 overlapping differentially expressed genes in papillary thyroid carcinoma.", "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:28673327"], "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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