CMTM6 overexpression is associated with molecular and clinical characteristics of malignancy and predicts poor prognosis in gliomas.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:30131308", "kind": "science-record", "revision": 8, "content_hash": "sha256:4107400ede194f50e035aeff78cc921d22022a1b1633edcd7f6ac3a0c5bd9531", "created_at": "2026-11-01T15:40:36Z", "updated_at": "2026-11-01T22:00:00Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "CMTM6 overexpression is associated with molecular and clinical characteristics of malignancy and predicts poor prognosis in gliomas.", "doi": "10.1016/j.ebiom.2018.08.012", "pmid": "30131308", "authors": ["Xiudong Guan", "Chuanbao Zhang", "Jingyan Zhao", "George Sun", "Qingkun Song", "Wang Jia"], "journal": "EBioMedicine", "year": 2018, "abstract": "CMTM6, a previously uncharacterized protein, was identified as a critical regulator of PD-L1, which is reported as an immune checkpoint inhibitor, to modulate the T cell activities both in vitro and in vivo of other tumors. However, the role of CMTM6 has so far remained unclear in glioma. To investigate the role of CMTM6 in gliomas, we analyzed the transcriptome level, genomic profiles and its relationship with clinical practice. 1862 glioma samples with transcriptome data were enrolled in this study, including CGGA RNA-seq, TCGA RNA-seq, CGGA-microarray, GSE16011 and IVY GBM databases. Clinical information and genomic profiles containing somatic mutations and DNA copy numbers were also obtained. We found that CMTM6 expression was highly correlated with major clinical and molecular characteristics. Cases with high CMTM6 expression were more likely to be predicted as malignant entities and frequent with genomic aberrations of driver oncogenes. Moreover, gene ontology analysis based on significantly correlated genes of CMTM6 expression exhibited that CMTM6 was associated with immune responses and inflammatory activities. CMTM6 was synthetic with other immune checkpoint inhibitors. Additionally, CMTM6 was involved in immune functions via modulating T-lymphocyte-mediated anti-tumor immunity. Finally, high CMTM6 expression was associated with reduced survival time and may serve as a strong indicator of poor prognosis in gliomas. In brief, High level of CMTM6 expression is closely related to high malignant gliomas. Meanwhile, CMTM6 plays an important role in regulating T cell activation and antitumor responses. Therefore, CMTM6 is a promising target for developing immunotherapy of gliomas.", "claims": [{"id": "claim-method", "statement": "The survival distributions were described by the Kaplan – Meier survival curve and the log-rank test was used to test the statistical significance. The prognostic value of CMTM6 was estimated by Univariate and multivariate Cox proportional hazard model analysis. In CGGA dataset, we collected transcriptome sequencing data of 325 samples generated by Illumina HiSeq platform. Clinical and molecular information was obtained from the CGGA database. The Cancer Genome Atlas (TCGA) mRNAseq data of 698 gliomas, ranging from WHO grade II to grade IV, and 5 normal brain tissues were downloaded from public databases (https://portal.gdc.cancer.gov/).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30131308", "locator": "sections[6] \"Statistical analysis\" paragraph 2", "quote": "The survival distributions were described by the Kaplan – Meier survival curve and the log-rank test was used to test the statistical significance."}, {"asset": "source:pmid:30131308", "locator": "sections[6] \"Statistical analysis\" paragraph 2", "quote": "The prognostic value of CMTM6 was estimated by Univariate and multivariate Cox proportional hazard model analysis."}, {"asset": "source:pmid:30131308", "locator": "sections[4] \"Data collection\" paragraph 2", "quote": "In CGGA dataset, we collected transcriptome sequencing data of 325 samples generated by Illumina HiSeq platform."}, {"asset": "source:pmid:30131308", "locator": "sections[4] \"Data collection\" paragraph 2", "quote": "Clinical and molecular information was obtained from the CGGA database."}, {"asset": "source:pmid:30131308", "locator": "sections[4] \"Data collection\" paragraph 2", "quote": "The Cancer Genome Atlas (TCGA) mRNAseq data of 698 gliomas, ranging from WHO grade II to grade IV, and 5 normal brain tissues were downloaded from public databases (https://portal.gdc.cancer.gov/)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "In CGGA dataset, we collected transcriptome sequencing data of 325 samples generated by Illumina HiSeq platform. Clinical and molecular information was obtained from the CGGA database. The Cancer Genome Atlas (TCGA) mRNAseq data of 698 gliomas, ranging from WHO grade II to grade IV, and 5 normal brain tissues were downloaded from public databases (https://portal.gdc.cancer.gov/). 301 glioma cases were obtained from CGGA microarray dataset, and 276 cases were from GSE16011 cohort.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30131308", "locator": "sections[4] \"Data collection\" paragraph 2", "quote": "In CGGA dataset, we collected transcriptome sequencing data of 325 samples generated by Illumina HiSeq platform."}, {"asset": "source:pmid:30131308", "locator": "sections[4] \"Data collection\" paragraph 2", "quote": "Clinical and molecular information was obtained from the CGGA database."}, {"asset": "source:pmid:30131308", "locator": "sections[4] \"Data collection\" paragraph 2", "quote": "The Cancer Genome Atlas (TCGA) mRNAseq data of 698 gliomas, ranging from WHO grade II to grade IV, and 5 normal brain tissues were downloaded from public databases (https://portal.gdc.cancer.gov/)."}, {"asset": "source:pmid:30131308", "locator": "sections[4] \"Data collection\" paragraph 2", "quote": "301 glioma cases were obtained from CGGA microarray dataset, and 276 cases were from GSE16011 cohort."}], "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:30131308"], "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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"section_title": "CMTM6 predicts worse survival in gliomas", "row_count": 29, "column_count": 11}, "table": {"label": "Table 1", "caption": "Univariate and multivariate cox analyses in gliomas.", "rows": [["Factor", "CGGA RNA-seq set", "TCGA RNA-seq set"], ["", "Univariate", "Multivariate", "", "Univariate", "Multivariate"], ["sample", "P value", "HR", "P value", "HR", "sample", "P value", "HR", "P value", "HR"], ["Age", "", "", "", "", "", "", "", "", "", ""], ["Increasing years", "310", "<0.001", "1.038", "0.961", "1.000", "678", "<0.001", "1.066", "<0.001", "1.036"], ["Gender", "", "", "", "", "", "", "", "", "", ""], ["Male vs. Female", "310", "0.345", "0.847", "", "", "678", "0.061", "1.262", "", ""], ["WHO Grade", "", "", "", "", "", "", "", "", "", ""], ["Grade II", "105", "Ref.", "Ref.", "Ref.", "Ref.", "222", "Ref.", "Ref.", "Ref.", "Ref."], ["Grade III", "67", "<0.001", "5.865", "<0.001", "4.150", "242", "<0.001", "2.986", "0.003", "1.961"], ["Grade IV", "138", "<0.001", 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The prognostic value of CMTM6 was estimated by Univariate and multivariate Cox proportional hazard model analysis. In CGGA dataset, we collected transcriptome sequencing data of 325 samples generated by Illumina HiSeq platform. Clinical and molecular information was obtained from the CGGA database. The Cancer Genome Atlas (TCGA) mRNAseq data of 698 gliomas, ranging from WHO grade II to grade IV, and 5 normal brain tissues were downloaded from public databases (https://portal.gdc.cancer.gov/)."}}, {"id": "method-2", "family": "group_comparison", "specific": "student_t_test", "label": "Group comparison", "dsl_operations": [], "missing_operations": ["student_t"], "expressible": false, "parameters": {}, "data_shapes": ["two_or_more_groups_continuous"], "evidence": {"score": 0.8, "band": "high", "quote": "Student t-test"}}, {"id": "method-3", "family": "group_comparison", "specific": "anova", "label": "Group comparison", "dsl_operations": ["group_summary", "welch_t", "bootstrap_mean_difference", "group_comparison_anova"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["two_or_more_groups_continuous"], "evidence": {"score": 0.8, "band": "high", "quote": "ANOVA"}}, {"id": "method-4", "family": "correlation_analysis", "specific": "spearman", "label": "Correlation analysis", "dsl_operations": ["spearman_rho"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["paired_numeric_columns"], "evidence": {"score": 0.8, "band": "high", "quote": "Spearman correlation"}}, {"id": "method-5", "family": "diagnostic_evaluation", "specific": "roc", "label": "Diagnostic test evaluation", "dsl_operations": ["confusion_counts", "roc_curve", "sensitivity_specificity", "solve_confusion_matrix", "classification_metrics", "published_precision_envelope"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["reference_standard_and_test"], "evidence": {"score": 0.8, "band": "high", "quote": "ROC curve"}}], "targets": [], "gaps": ["method.reader_differs_from_extractor"]}, "capability": {"state": "complete", "requirements": [{"capability_id": "capability:computational_analysis", "label": "Computational analysis platform", "assay_families": ["meta_analysis", "machine_learning", "survival_analysis", "statistical_regression", "pca", "molecular_docking", "network_analysis", "differential_expression", "gwas"], "availability_state": "owned", "tier_unlocked": "R1", "candidate": "Automated Assays Laravel application and simulated adapters"}], "gaps": []}, "readiness": {"state": "complete", "tier": "R1", "blocking_axis": "none", "blocked_on": "nothing:replicable_now", "axes": {"method": {"tier": "R1", "expressible": true, "required_operations": ["logrank_test"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: log_rank_test."}, "capability": {"tier": "R1", "capability_id": "capability:computational_analysis", "availability_state": "owned", "basis": "The computational analysis is owned. 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However, the role of CMTM6"], "order_basis": "paper_text_order:287", "id": "assay:1"}, {"role": "data_generation", "definition_id": "rna_seq", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["were enrolled in this study, including CGGA RNA-seq, TCGA RNA-seq, CGGA-microarray, GSE16011 and", "he role of CMTM6 in gliomas, we analyzed the transcriptome level, genomic profiles and its relationship", "in this study, including CGGA RNA-seq, TCGA RNA-seq, CGGA-microarray, GSE16011 and IVY GBM datab", "clinical practice. 1862 glioma samples with transcriptome data were enrolled in this study, including"], "order_basis": "paper_text_order:439", "id": "assay:2"}, {"role": "analysis", "definition_id": "survival_analysis", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["logrank_test"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["The survival distributions were described by the Kaplan – Meier survival curve and the log-rank test was used to test the statistical significance. The prognostic value of CMTM6 was estimated by Univariate and multivariate Cox proportional hazard model analysis. In CGGA dataset, we collected transcriptome sequencing data of 325 samples generated by Illumina HiSeq platform. Clinical and molecular information was obtained from the CGGA database. The Cancer Genome Atlas (TCGA) mRNAseq data of 698 gliomas, ranging from WHO grade II to grade IV, and 5 normal brain tissues were downloaded from public databases (https://portal.gdc.cancer.gov/)."], "order_basis": "consumes_earlier_output", "id": "assay:3"}]}