TCGA癌症数据库介绍专题知识讲解课件.ppt

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1、TCGA数据库介绍专题上海尔云上海尔云-云生信团队云生信团队2015.9.20http:/ types and data levels6.数据下数据下载解解读目录前言01http:/ CANCER GENOME ATLAScancerGenomeTranscriptomeClinicEpigenomeProteome癌症种类丰富，样本量大癌症种类丰富，样本量大34 kinds of cancer325 samples on averagehttp:/cancergenome.nih.gov/数据产生历程02http:/ TYPES AND LEVELS04http:/ TYPESData Le

2、velLevel TypeDescription1RawLow-level data for single sample单个样本的低级数据Not normalized未标准化2ProcessedNormalized single sample data标准化的单个样本Interpreted for presence or absence of specific molecular abnormalities解释异常的个体3Segmented/InterpretedAggregate of processed data from single sample单个样本整合在了一起Grouped by

3、 probed loci to form larger contiguous regions(in some cases)根据probe的位置分组4Summary/Regions of Interest(ROI)Quantified association across classes of samples量化关联类的样本Associations based on two or more两个或多个的关联Molecular abnormalities分子水平的异常Sample characteristics样本特性Clinical variables临床变异DATA LEVLES注意：低水平的测

4、序数据存储在CGHub https:/cghub.ucsc.edu/,申请下载时需要DUNS number.The Cancer Genomics Hub(CGHub)is a secure repository for storing,cataloging,and accessing cancer genome sequences,alignments,and mutation information from the Cancer Genome Atlas(TCGA)consortium and related projects.目前已有的癌症种类05癌症种类丰富，样本量大癌症种类丰富，样

5、本量大34 kinds of cancer325 samples on average详细见：详细见：TCGA publication guideline,http:/cancergenome.nih.gov/publications/publicationguidelines数据下载及解读06http:/ 第第1封邮件通知下载申请已经提交封邮件通知下载申请已经提交第第2封给出下载链接封给出下载链接Step4Step 4 文件内容文件内容File_manifest.txt，对所下载文件的说明，对所下载文件的说明l 临床数据解读临床数据解读CDE：Common Data Elements https:/tcga-data.nci.nih.gov/docs/dictionary/THANKShttp:/