Construction and validation of a PANoptosis-related lncRNA signature for predicting prognosis and targeted drug response in thyroid cancer.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37671354", "kind": "science-record", "revision": 3, "content_hash": "sha256:a6a7783aacaa39b167fc1c4c7000b10ba674d14ad6c031303129140d8b9817df", "created_at": "2026-11-01T19:02:28Z", "updated_at": "2026-11-01T22:52:39Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Construction and validation of a PANoptosis-related lncRNA signature for predicting prognosis and targeted drug response in thyroid cancer.", "doi": "10.7717/peerj.15884", "pmid": "37671354", "authors": ["Ruowen Li", "Mingjian Zhao", "Min Sun", "Chengxu Miao", "Jinghui Lu"], "journal": "PeerJ", "year": 2023, "abstract": "Thyroid cancer (TC) is the most prevalent malignancy of the endocrine system. PANoptosis, a newly discovered cell death pathway, is of interest in tumor research. However, the relationship between PANoptosis-related lncRNAs (PRlncRNAs) and TC remains unclear. The study aimed to develop a prognostic model based on PRlncRNAs in TC. Gene expression data of PANoptosis-associated genes and clinical information on TC from The Cancer Genome Atlas (TCGA) database were analyzed by Pearson correlation analysis, univariate/multivariate Cox analysis, and Lasso Cox regression analysis. A PRlncRNA signature was constructed and used to develop a nomogram to predict overall survival (OS). We further explored the correlation between the risk score and tumor immune microenvironment, immune checkpoints, and drug sensitivity. Moreover, we verified the expression and biological function of lncRNAs in TC cell lines. Finally, seven PRlncRNAs were used to construct a prognostic model for predicting the OS of TC patients. We found that the risk score was associated with the tumor microenvironment (TME) and the expression of critical immune checkpoints. In addition, we screened for drugs that high- or low-risk TC groups might be sensitive to. Quantitative real-time polymerase chain reaction (qRT-PCR) results showed differential expression of four PRlncRNAs (GAPLINC, IDI2-AS1, LINC02154, and RBPMS-AS1) between tumor and normal tissues. Besides, a GEO database (GSE33630) was used to verify the expression differences of PRLncRNAs in THCA tissues and normal tissues. Finally, RBPMS-AS1 was found to inhibit the proliferation and migration of TC cells. In conclusion, we developed a PANoptosis-related lncRNA prognostic risk model that offers a comprehensive understanding of TME status in patients with TC and establishes a foundation for the choice of sensitive medications and immunotherapy.", "claims": [{"id": "claim-method", "statement": "Gene expression data of PANoptosis-associated genes and clinical information on TC from The Cancer Genome Atlas (TCGA) database were analyzed by Pearson correlation analysis, univariate/multivariate Cox analysis, and Lasso Cox regression analysis.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37671354", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Gene expression data of PANoptosis-associated genes and clinical information on TC from The Cancer Genome Atlas (TCGA) database were analyzed by Pearson correlation analysis, univariate/multivariate Cox analysis, and Lasso Cox regression analysis."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Code and raw data are available in the Supplemental Files.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37671354", "locator": "sections[33] \"Data Availability\" paragraph 2", "quote": "Code and raw data are available in the Supplemental Files."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Finally, seven PRlncRNAs were used to construct a prognostic model for predicting the OS of TC patients.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:37671354", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Finally, seven PRlncRNAs were used to construct a prognostic model for predicting the OS of TC patients."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Finally, seven PRlncRNAs were used to construct a prognostic model for predicting the OS of TC patients.", "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:37671354"], "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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Cell culture and transfection The human thyroid cell lines TPC-1 (RRID: CV", "ispersed in six Well Cell Culture Plates and transfected the following day. The overexpression plasmi", "2,000 ng of negative control or plasmid was transfected into cells using Lipofectamine™ 2000 Transfe", "sfected into cells using Lipofectamine™ 2000 Transfection Reagent (11668019; Invitrogen, Waltham, MA,"], "order_basis": "paper_text_order:2468", "id": "assay:1"}, {"role": "data_generation", "definition_id": "cell_culture", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.77, "evidence": ["et al., 2019). TPC-1 and BHP10-3 cells were cultured in Roswell Park Memorial Institute (RPMI 1640)"], "order_basis": "paper_text_order:2769", "id": "assay:2"}, {"role": "data_generation", "definition_id": "qpcr", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["in BHP10-3 cells and TPC-1 cells detected by qPCR.10.7717/peerj.15884/supp-2Click here for add"], "order_basis": "paper_text_order:4701", "id": "assay:3"}, {"role": "data_generation", "definition_id": "apoptosis_assay", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["al data file. 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