(生物信息学)第二章数据库.ppt

de novo sequencing resequencing whole transcriptome sequencing small RNA sequencing …… * * * * * * * 需要提及大规模数据的提交： SRA（Sequence Read Archive, /sra/）/Trace Archive、GEO * /modules/redbtools/readseq.php * /wiki/content/bioproject%E5%92%8Cbiosamle-%EF%BC%9A%E4%BF%83%E8%BF%9B%E6%8D%95%E8%8E%B7%E5%92%8C%E7%BB%84%E7%BB%87%E5%85%83%E6%95%B0%E6%8D%AE%E7%9A%84ncbi%E6%95%B0%E6%8D%AE%E5%BA%93 * Submit variations 50 nucleotides in length to the Database of Genomic?Structural Variation (/dbvar) * * dbVar is a database of genomic structural variation that allows you to search, view, and download variant data from studies submitted for any organism. In general, variants are ≥ 50 nucleotides, but are occasionally smaller. dbVar provides access to the raw data (when available) and links to other NCBI and external resources. For more information on structural variation in general see the?Overview of Structural Variation?page and for frequently asked questions about dbVar see the?dbVar FAQ?page. * * * * * * * * * * * * * EMBL格式: http://www.ebi.ac.uk/ena/about/embl_bank_format * * * * * * 在2002年, PIR和欧洲生物信息学研究所EBI (European Bioinformatics Institute) 及瑞士的生物信息学研究所SIB(Swiss Institute of Bioinformatics),一起得到美国NIH资助建立UniProt, 这是单一的世界范围的蛋白质序列和功能的数据库, 它统一了PIR, Swiss-Prot, 和TrEMBL三家的数据库。 * /pirwww/dbinfo/uniprot.shtml UniRef The UniProt Reference Clusters (UniRef) provide clustered sets of sequences from the?UniProt Knowledgebase(including?isoforms) and selected?UniParc?records in order to obtain complete coverage of the sequence space at several resolutions while hiding redundant sequences (but not their descriptions) from view. Unlike in UniParc, sequence fragments are merged in UniRef: The UniRef100 database combines identical sequences and sub-fragments with 11 or more residues from any organism into a single UniRef entry, displaying the sequence of a representative protein, the accession numbers of all the merged entries and links to the corresponding UniProtKB and UniParc re