转录与重建.ppt

EST聚类方法 Est sequence is littered with errors, stutters, in-dels and re-arrangements Alignment approach is sensitive to these 3’ only comparison 基于非比对的赋分方法：D2-cluster No alignment so a speedup Sensitivity improved by multiplicity measure Low weight to low complexity Very error tolerant Transitive closure 96% ID over 100 or 150 bases TIGR_ASSEMBLER THC_BUILD: BLAST-FASTA id all overlaps and are stored. Tigr-assembler then uses rapid oligo nucleotide comparison and assembles non-repeat overlaps. (95% ID over 40bp) Matching constraints on sequence ends Minimum sequence id within a sequence group – more fragmented as a result UniGene Unigene approach Originally 3’ only + mRNA common words of length 13 separated no more than 2 bases IDAnnotationShared clone ID Genbank, genomic ad dbEST DUST 100bp min MEGABLAST Wagner et al. CSH 1999 Gragmentation Comparison STACK_PACK analysis of UniGene clusters resulted in a fragmentation rate just over half of the TIGR index 直系同源和旁系同源 Orthologs Genes that share the same ancestral gene that perform the same biological function in different species but have diverged in sequence makeup due to selective evolution Paralogs Genes within the same genome that share an ancestral gene that perform diverse biological funtions Needs Funtional assignments Expression states of alternate ofrms and their sites of expression Exon level resolution of expression Representative forms for application to arrays Physical gene locations Relationship to disease 解释 Availability of genomic sequence and partial transcription products means characterization of alternate transcription can begin in earnest Contribution to variation of expressed products and effects on biology are likely to be significant 人有了知识，就会具备各种分析能力， 明辨是非的能力。 所以我们要勤恳读书，广泛阅读， 古人说“书中自有黄金屋。 ”通过阅读科技书籍，我们能丰富知识， 培养逻辑思维能力； 通过阅读文学作品，我们能提高文学鉴赏水平， 培养文学情趣； 通过阅读报刊，我们能增长见识，扩大自己的知识面。 有许多书籍还能培养我们的道德情操， 给我们巨大的精神力量， 鼓舞我们前进。 * 转录分析与重建 捕获表达的转录本 数据库 –序列 dbEST Several collapsed datasets TIGR-THC A