Gene expression profile alone is inadequate in predicting complete response in multiple myeloma. Homo sapiens

We have analyzed gene expression microarray datasets from four different clinical trials to assess accuracy of gene expression based signature in predicting treatment complete response in patients with multiple myeloma. Two of four datasets were made available via The Intergroupe Francophone du Myélome (IFM) group, and remaining two datasets were downloaded from NCBI GEO portal with accession IDs: GSE19784 (HOVON65/GMMG-HD4 trial) and GSE9782 (APEX/SUMMIT trial). Analysis UUID: datasets_archive--2afcd42a-7e12-11e3-9145-5fcc1e060548--15-Jan-2014-12-23-44-CST. Following dataset provides gene expression microarray dataset for IFM-2005 trial involving 67 newly diagnosed patients with MM. A second and larger dataset involving 136 newly diagnosed patients with MM from IFM-2005 trial can be accessed via NCBI GSE ID: GSE39754. Overall design: CD-138 purified plasma cells from 67 newly diagnosed patients with MM were profiled using Affymetrix Exon-1.0 ST microarray platform. Pre-processing and normalization of dataset was carried out using dChip (http://www.hsph.harvard.edu/cli/complab/dchip/exon.htm#expressio) and R package - aroma.affymetrx (http://www.aroma-project.org/vignettes/FIRMA-HumanExonArrayAnalsis). Patients subsequently received bortezomib based induction therapy, followed by autologus stem cell transplant. Post-induction treatment response is attached in metadata file.

本研究针对四项不同临床试验的基因表达微阵列数据集展开分析，旨在评估基于基因表达特征预测多发性骨髓瘤（multiple myeloma）患者治疗完全缓解的准确性。其中2套数据集由法国骨髓瘤协作组（The Intergroupe Francophone du Myélome, IFM）公开提供，剩余2套数据集从美国国家生物技术信息中心（NCBI）基因表达综合数据库（GEO）门户下载，获取编号分别为GSE19784（对应HOVON65/GMMG-HD4临床试验）与GSE9782（对应APEX/SUMMIT临床试验）。分析UUID：datasets_archive--2afcd42a-7e12-11e3-9145-5fcc1e060548--2014年1月15日美国中部标准时间12:23:44。本数据集对应IFM-2005临床试验，共纳入67例初诊多发性骨髓瘤患者。另一项规模更大的IFM-2005临床试验数据集（纳入136例初诊多发性骨髓瘤患者）可通过NCBI GSE编号GSE39754获取。实验设计：本研究采用Affymetrix Exon-1.0 ST微阵列平台，对67例初诊多发性骨髓瘤患者的分化簇138（CD138）阳性纯化浆细胞进行基因表达谱分析。本数据集的预处理与标准化分析采用dChip工具（http://www.hsph.harvard.edu/cli/complab/dchip/exon.htm#expressio）以及R语言包aroma.affymetrix（http://www.aroma-project.org/vignettes/FIRMA-HumanExonArrayAnalysis）完成。入组患者后续接受基于硼替佐米（bortezomib）的诱导治疗，随后进行自体干细胞移植。诱导治疗后的疗效反应数据已附于元数据文件中。