|
bed格式我就不多说了,大家的老朋友了,而且有一个bedtools,号称要替代生信工程师,呵呵~~~
看这个图就明白了,非常赞~~~

这个工具发表在:http://bmcbioinformatics.biomedc ... 6/s12859-016-1419-5
主要有3个功能,最后还可以把TCGA数据库抓取的内容,整合上 UCSC, HGNC, NCBI Entrez Gene, and miRBase 的内容。
We created and are maintaining an open access FTP repository (ftp://bioinf.iasi.cnr.it/), which contains the original TCGA data sets addressed by TCGA2BED and the corresponding data converted into the BED format.
这个FTP很赞,很赞!!!
那么TCGA有什么数据呢,我就不翻译了:
TCGA includes several Next Generation Sequencing (NGS) experimental data types, i.e., Copy Number Variation (CNV) , DNA-methylation , DNA-sequencing (DNA-seq) including whole genome and whole exome mutations, Gene expression (RNA-seq V1, RNA-seq V2) , microRNA sequencing (miRNA-seq) , and their meta data (clinical and biospecimen information) , which are organized into three levels
|
|