Journal Article

OSdlbcl: An online consensus survival analysis web server based on gene expression profiles of diffuse large B‐cell lymphoma

Li, Ning, Guo, Xiangqian, Wang, Qiang, Zhao, Shuchun, Zhang, Haiyu, Zhang, Lu, Yang, Mengsi, Dong, Huan, Zhang, Guosen, An, Yang, Xie, Longxiang, Zhu, Wan, Li, Huimin

2020

Overview

Diffuse large B‐cell lymphoma (DLBCL) is the most common subtype of non‐Hodgkin lymphoma (NHL) and is a clinical, pathological, and molecular heterogeneous disease with highly variable clinical outcomes. Currently, valid prognostic biomarkers in DLBCL are still lacking. To optimize targeted therapy and improve the prognosis of DLBCL, the performance of proposed biomarkers needs to be evaluated in multiple cohorts, and new biomarkers need to be investigated in large datasets. Here, we developed a consensus Online Survival analysis web server for Diffuse Large B‐Cell Lymphoma, abbreviated OSdlbcl, to assess the prognostic value of individual gene. To build OSdlbcl, we collected 1100 samples with gene expression profiles and clinical follow‐up information from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) databases. In addition, DNA mutation data were also collected from the TCGA database. Overall survival (OS), progression‐free survival (PFS), disease‐specific survival (DSS), disease‐free interval (DFI), and progression‐free interval (PFI) are important endpoints to reflect the survival rate in OSdlbcl. Moreover, clinical features were integrated into OSdlbcl to allow data stratifications according to the user's special needs. By inputting an official gene symbol and selecting desired criteria, the survival analysis results can be graphically presented by the Kaplan‐Meier (KM) plot with hazard ratio (HR) and log‐rank p value. As a proof‐of‐concept demonstration, the prognostic value of 23 previously reported survival associated biomarkers, such as transcription factors FOXP1 and BCL2, was evaluated in OSdlbcl and found to be significantly associated with survival as reported (HR = 1.73, P < .01; HR = 1.47, P = .03, respectively). In conclusion, OSdlbcl is a new web server that integrates public gene expression, gene mutation data, and clinical follow‐up information to provide prognosis evaluations for biomarker development for DLBCL. The OSdlbcl web server is available at https://bioinfo.henu.edu.cn/DLBCL/DLBCLList.jsp. To assess and identify appropriate prognostic biomarkers for diffuse large B‐cell lymphoma, we integrated public gene expression data and clinical follow‐up information and developed the consensus online survival analysis web server OSdlbcl for researchers and clinicians.

• Publisher: John Wiley & Sons, Inc,John Wiley and Sons Inc,Wiley
• Subject: Age / Aged / Antineoplastic Combined Chemotherapy Protocols - therapeutic use / Biomarkers / Biomarkers, Tumor - genetics / Cancer Biology / Clinical outcomes / Consensus / Datasets / Datasets as Topic / diffuse large B‐cell lymphoma / Disease-Free Survival / Female / Follow-Up Studies / Forkhead Transcription Factors - genetics / Foxp1 protein / Gender / Gene expression / Gene Expression Regulation, Neoplastic / Genomes / Humans / Internet / Lymphoma / Lymphoma, Large B-Cell, Diffuse - drug therapy / Lymphoma, Large B-Cell, Diffuse - genetics / Lymphoma, Large B-Cell, Diffuse - mortality / Male / Medical prognosis / Middle Aged / Mutation / Non-Hodgkin's lymphoma / Original Research / OSdlbcl / Point mutation / Predictive Value of Tests / Prognosis / prognostic biomarker / Progression-Free Survival / Proof of Concept Study / Proteins / Proto-Oncogene Proteins c-bcl-2 - genetics / Repressor Proteins - genetics / Risk Assessment - methods / RNA-Seq / Survival Analysis / Transcription factors