MOESM2 of The genomics of desmoplastic small round cell tumor reveals the deregulation of genes related to DNA damage response, epithelial–mesenchymal transition, and immune response

Additional file 2. Table S1. List of somatic mutations identified in each patient. Table S2. List, information and literature supply for genes mutated or copy number altered described in the main text as belonging to DDR or MErT/EMT categories. Table S3. List of somatic copy number aberrations identified by EXCAVATOR2. Table S4. List of gains with at least two copies and losses with homozygous deletions. Table S5. List of recurrent amplified genes on chromosome 1. Table S6. List of recurrently amplified genes of chromosome 1, belonging to the two significant biological functions identified by Ingenuity Pathway Analysis (IPA®, Qiagen; Bioinformatics, Redwood City, CA, USA; http://www.qiagen.com/ingenuity ). For the entire name of the genes, reported as gene ID, see Table S5. Table S7. List of recurrent deleted genes on chromosome 6.

附加文件2。表S1：每名患者中鉴定出的体细胞突变列表。表S2：正文所述归属于DNA损伤应答（DNA Damage Response, DDR）或间质上皮转化（Mesenchymal to Epithelial Transition, MErT）/上皮间质转化（Epithelial-Mesenchymal Transition, EMT）类别的突变基因或拷贝数改变基因的列表、相关信息及文献依据。表S3：通过EXCAVATOR2鉴定出的体细胞拷贝数变异列表。表S4：至少含两个拷贝的扩增区域及纯合缺失区域列表。表S5：1号染色体上的复发性扩增基因列表。表S6：属于由Ingenuity通路分析（Ingenuity Pathway Analysis, IPA®, 凯杰（Qiagen）生物信息公司，美国加利福尼亚州雷德伍德城；网址：http://www.qiagen.com/ingenuity ）鉴定出的两项显著生物学功能的1号染色体复发性扩增基因列表。以基因ID（gene ID）形式呈现的基因完整名称详见表S5。表S7：6号染色体上的复发性缺失基因列表。