A Novel Signature Constructed by RNA-Binding Protein Coding Genes to Improve Overall Survival Prediction of Glioma Patients.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:33634092", "kind": "science-record", "revision": 7, "content_hash": "sha256:ccd6b4640759d1661fc02db19e997d7b4913d421982246916444b545a4be0d0f", "created_at": "2026-11-01T15:41:26Z", "updated_at": "2026-11-01T22:03:12Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "A Novel Signature Constructed by RNA-Binding Protein Coding Genes to Improve Overall Survival Prediction of Glioma Patients.", "doi": "10.3389/fcell.2020.588368", "pmid": "33634092", "authors": ["Zewei Tu", "Lei Shu", "Jingying Li", "Lei Wu", "Chuming Tao", "Minhua Ye", "Xingen Zhu", "Kai Huang"], "journal": "Frontiers in cell and developmental biology", "year": 2020, "abstract": "RNA binding proteins (RBPs) have been reported to be involved in cancer malignancy but related functions in glioma have been less studied. Herein, we screened 14 prognostic RBP genes and constructed a risk signature to predict the prognosis of glioma patients. Univariate Cox regression was used to identify overall survival (OS)-related RBP genes. Prognostic RBP genes were screened and used to establish the RBP-signature using the least absolute shrinkage and selection operator (Lasso) method in The Cancer Genome Atlas (TCGA) cohort. The 14 RBP genes signature showed robust and stable prognostic value in the TCGA training (n = 562) cohort and in three independent validation cohorts (Chinese Glioma Genome Atlas [CGGA]seq1, CGGAseq2, and GSE16011 datasets comprising 303, 619, and 250 glioma patients, respectively). Risk scores were calculated for each patient and high-risk gliomas were defined by the median risk score in each cohort. Survival analysis in subgroups of glioma patients showed that the RBP-signature retained its prognostic value in low-grade gliomas (LGGs) and glioblastomas (GBM)s. Univariate and multivariate Cox regression analysis in each dataset and the meta cohort revealed that the RBP-signature stratification could efficiently recognize high-risk gliomas [Hazard Ratio (HR):3.662, 95% confidence interval (CI): 3.187-4.208, p < 0.001] and was an independent prognostic factor for OS (HR:1.594, 95% CI: 1.244-2.043, p < 0.001). Biological process and KEGG pathway analysis revealed the RBP gene signature was associated with immune cell activation, the p53 signaling pathway, and the PI3K-Akt signaling pathway and so on. Moreover, a nomogram model was constructed for clinical application of the RBP-signature, which showed stable predictive ability. In summary, the RBP-signature could be a robust indicator for prognostic evaluation and identifying high-risk glioma patients.", "claims": [{"id": "claim-method", "statement": "As the training cohort, TCGA dataset was used to conduct univariate Cox regression analysis to screen for OS-related RBP genes in gliomas. A total of 662 OS-related RBP genes were identified (p < 0.05). Next, Lasso Cox regression method, a recommended method for regression of high-dimensional microarray data, was used to fit the OS-related RBPs data and construct a risk signature based on the selected 662 RBP genes.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33634092", "locator": "sections[6] \"Construction of the RBP-Signature\" paragraph 2", "quote": "As the training cohort, TCGA dataset was used to conduct univariate Cox regression analysis to screen for OS-related RBP genes in gliomas. A total of 662 OS-related RBP genes were identified (p < 0.05). Next, Lasso Cox regression method, a recommended method for regression of high-dimensional microarray data, was used to fit the OS-related RBPs data and construct a risk signature based on the selected 662 RBP genes."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Publicly available datasets were analyzed in this study. This data can be found here: The data analyzed in this study can be acquired in the TCGA (http://cancergenome.nih.gov/), CGGA (http://www.cgga.org.cn/), and GEO (https://www.ncbi.nlm.nih.gov/geo/) websites.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33634092", "locator": "sections[20] \"Data Availability Statement\" paragraph 2", "quote": "Publicly available datasets were analyzed in this study. This data can be found here: The data analyzed in this study can be acquired in the TCGA (http://cancergenome.nih.gov/), CGGA (http://www.cgga.org.cn/), and GEO (https://www.ncbi.nlm.nih.gov/geo/) websites."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "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:33634092"], "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": "blocked", "blocked_on": "data:accession_absent", "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": [], "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": [], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": ["step:obtain_source_data blocked on data:accession_absent"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:33634092", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fcell.2020.588368", "sha256": "sha256:be85b9d7dc3ce7962a39d8c0ae2fcc3d31ebe4c72364cefa3f9268c5a6d8d06d", "bytes": 33399, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.3389/fcell.2020.588368", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC7901892", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "asset:table:pmid:33634092:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:6108ddace2d5cff7a6dd995ffdc1891020d14c9eb11012c2c33fbc22ffdbe2ff", "bytes": 2285, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[4]/table-wrap[1]#T1", "version": null, "note": "Clinicopathological and molecular information of glioma patients included 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(64.3%)", "365 (64.9%)", "184 (60.7%)", "383 (61.9%)", "183 (73.2%)"], ["NA", "2 (0.1%)", "0 (0.0%)", "0 (0.0%)", "1 (0.2%)", "1 (0.4%)"], ["Gender"], ["Male", "1,035 (59.7%)", "326 (58.0%)", "187 (61.7%)", "356 (57.5%)", "166 (66.4%)"], ["Female", "699 (40.3%)", "236 (42.0%)", "116 (38.3%)", "263 (43.5%)", "84 (33.6%)"], ["WHO grade"], ["II", "488 (28.1%)", "196 (34.9%)", "97 (32.0%)", "173 (27.9%)", "22 (8.8%)"], ["III", "598 (34.5%)", "212 (37.7%)", "73 (24.1%)", "232 (37.5%)", "81 (32.4%)"], ["IV", "648 (37.4%)", "154 (27.4%)", "133 (43.9%)", "214 (34.6)", "147 (58.8%)"], ["Histology"], ["Astrocytoma", "401 (23.1%)", "150 (26.7%)", "62 (20.5%)", "163 (26.3%)", "26 (10.4%)"], ["Oligoastrocytoma", "414 (23.9%)", "102 (18.1%)", "72 (23.8%)", "213 (34.4%)", "27 (10.8%)"], ["Oligodendroglioma", "271 (15.6%)", "156 (27.8%)", "36 (11.9%)", "29 (4.7%)", "50 (20.0%)"], ["Glioblastoma", "648 (37.4%)", "154 (27.4%)", "133 (43.9%)", "214 (34.6%)", "147 (58.8%)"], ["IDH mutation status"], ["6 Mutant", "823 (47.5%)", "342 (60.9%)", "165 (54.5%)", "316 (51.1%)", "NA"], ["Wild", "304 (17.5%)", "212 (37.7%)", "137 (45.2%)", "258 (41.7%)", "NA"], ["NA", "607 (35.0%)", "8 (1.4%)", "1 (0.3%)", "45 (7.3%)", "NA"], ["1p/19q codeletion status"], ["Non-codeletion", "1,080 (62.3%)", "418 (74.4%)", "235 (77.6%)", "427 (69.0%)", "NA"], ["Codeletion", "329 (19.0%)", "138 (24.6%)", "63 (20.8%)", "128 (20.7%)", "NA"], ["NA", "325 (18.7%)", "6 (1.1%)", "5 (1.7%)", "64 (10.3%)", "NA"]], "row_count": 31, "column_count": 6, "numeric_cells": 116, "header_rows": 2, "locator": "section[4]/table-wrap[1]#T1"}}, {"id": "asset:table:pmid:33634092:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:5a707bb2f8d918ebd5241aaebf23477b7380ed191d019ca0c243c4deb58360a3", "bytes": 1690, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[15]/table-wrap[1]#T2", "version": 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