二代基因组.pdfVIP

Next Generation Sequencing (NGS) Technology Beijing Institute of Genomics, Chinese Academy of Sciences De Novo Sequencing the Genome in BIG Hu Songnian Second generation sequencers in BIG Metagenomics Novel 454 1 De novo sequencing genome(s) RNA-seq De novo sequencing RNA-seq, Solexa 3 Re-sequencing Both types ChIP-seq， Meth-seq Re-sequencing SOLiD 7 “known” ChIP-seq Genome RNA-seq Sequencing Glossary Reads. A collection of clones that over-sample the target genome. Pair-end reads. Sequence reads derived from both ends of a sequencing-library clone. Insert size. The size of the clone-insert from which a clone-end pair is taken. Contig. The result of joining an overlapping collection of sequence reads. Scaffold. The result of connecting non-overlapping contigs by using pair-end reads. N50 size. As applied to contigs or scaffolds, that size above which 50% of the assembled sequence can be found. Overview • Image analysis and basecalling • Data assessment • Raw data pre process - Filter PCR duplication reads - Filter or trim adapter reads - Filter low quality reads - Remove c