2015年8月华大基因暑期培训-基因组学课程3-基因注释.pdfVIP

Genome Annotation chenxinru 芦长欣 luchangxin@ Genome Analysis What do we usually analyze? Hypothenemus hampei chenxinru Assembly + Annotation + Comparative genomics …… 2 Content Background Tandem Repeat Transposon Gene Structure chenxinru Gene Function Non-coding RNA Data Display 3 Background Whether assembly is ready? 1. N50 • At least around median gene length chenxinru • ~50% genes are contained on a scaffold • median gene lengths are roughly proportional to genome size 4 Background chenxinru 5 Background Whether assembly is ready? 2. Gap • Average size ; • Average number chenxinru 3. Coverage • Genome (Assembly/Estimated) 90~95% • Gene (Contained in Assembly) 6 Background Whether assembly is ready? CEGMA • Universal eukaryotic single-copy genes; • Percentage of each gene lying on a single scaffold chenxinru Reference: Mark yandell and Daniel Ence. A Beg