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pmid:32793631
Friend or Foe: Prognostic and Immunotherapy Roles of BTLA in Colorectal Cancer.
Jingjing Song · Lihui Wu
Frontiers in molecular biosciences · 2020 doi:10.3389/fmolb.2020.00148
Paper
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Experiment
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Complete file
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However, the role of BTLA in prognosis and immunotherapy of colorectal cancer (CRC) remains unclear.\nMETHODS: We evaluated the expression of BTLA via the Oncomine and the cancer genome atlas (TCGA) database. We research the outcome among different BTLA expression patients by Kaplan-Meier curve. We used the Chi-Squared test and Cox regression analysis to identify potential risk factors. Besides, the correlations between BTLA and cancer immune infiltration were investigated via CIBERSORT.\nRESULTS: Various cohorts showed that BTLA expression was lower in CRC compared to corresponding normal tissue. Moreover, low BTLA expression was correlated with poor overall survival in TCGA cohorts and Gene Expression Omnibus cohorts (GSE29623 and GSE17536). Low BTLA expression was associated with less lymph node metastasis (p = 0.0123). In the Cox proportional hazards model, BTLA was identified as a favorable prognostic factor. Naive B cells, memory B cells, CD8 T cells, CD4 memory resting T cells, follicular helper T (Tfh) cells, monocytes, resting natural killing (NK) cells, M0 macrophages, M1 macrophages, resting mast cells, and activated mast cells were affected by BTLA expression (all p < 0.01). Correlated immune markers and functional enrichment analysis revealed BTLA functioned in the T cell receptor signaling pathway, B cell receptor signaling pathway, and NK cell-mediated cytotoxicity pathway.\nCONCLUSION: These analyses suggest BTLA is a potential factor for extended survival and closely related to CD8 T cells, Tfh cells, B cells, and NK cells in CRC. We summarize these results that BTLA can be used as a prognostic biomarker and might contribute to developing novel CRC immunological treatment strategies.", "claims": [{"id": "claim-method", "statement": "Kaplan-Meier survival curves and the log-rank test were used to evaluate the significance of survival time differences by “survival” and “survminer” R package.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32793631", "locator": "sections[4] \"Survival Analyses\" paragraph 2", "quote": "Kaplan-Meier survival curves and the log-rank test were used to evaluate the significance of survival time differences by “survival” and “survminer” R package."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Publicly available datasets were analyzed in this study, these can be found in The Cancer Genome Atlas (https://portal.gdc.cancer.gov/) and the NCBI Gene Expression Omnibus (GSE29623 and GSE17536).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:32793631", "locator": "sections[15] \"Data Availability Statement\" paragraph 2", "quote": "Publicly available datasets were analyzed in this study, these can be found in The Cancer Genome Atlas (https://portal.gdc.cancer.gov/) and the NCBI Gene Expression Omnibus (GSE29623 and GSE17536)."}], "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:32793631"], "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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["", "NCAM1 (CD56)", "0.30", "****", "610"], ["", "KIR2DL1", "0.14", "**", "379"], ["", "KIR2DL3", "0.15", "***", "610"], ["", "KIR2DL4", "0.26", "****", "610"], ["", "KIR3DL1", "0.12", "**", "610"], ["", "KIR3DL2", "0.21", "****", "610"], ["", "KIR3DL3", "0.07", "ns", "379"], ["", "KIR2DS4", "0.15", "***", "610"], ["Monocyte", "CD86 (B7-2)", "0.39", "****", "610"], ["", "CD115 (CSF1R)", "0.40", "****", "610"], ["TAM", "CCL2", "0.29", "****", "610"], ["", "CD68", "0.23", "****", "610"], ["", "IL10", "0.33", "****", "610"], ["M1 Macrophage", "NOS2", "0.02", "ns", "610"], ["", "IRF5", "0.10", "*", "610"], ["", "PTGS2", "0.01", "ns", "610"], ["M2 Macrophage", "CD163", "0.33", "****", "610"], ["", "VSIG4", "0.32", "****", "610"], ["", "MS4A4A", "0.41", "****", "610"], ["Dendritic cell", "HLA-DPA1", "0.42", "****", "610"], ["", "HLA-DPB1", "0.47", "****", "610"], ["", "HLA-DQB1", "0.34", "****", "610"], ["", "HLA-DRA", "0.38", "****", "610"], ["", "BDCA-1 (CD1C)", "0.58", "****", "610"], 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