基因工程课3Entrez-1解析.ppt

NCBI Molecular Biology Resources—— Entrez NCBI Resources About NCBI NCBI Sequence Databases Primary Database – GenBank Derivative Databases - RefSeq Entrez Databases and Text Searching BLAST The National Institutes of Health The National Center for Biotechnology Information The National Center for Biotechnology Information NCBI Created as a part of the National Library of Medicine in 1988 Establish public databases Research in computational biology Develop software tools for sequence analysis Disseminate biomedical information Tools: Entrez 1992 ，BLAST 1990 , GenBank 1992 Free MEDLINE PubMed, 1997 Other databases: dbEST, dbGSS, dbSTS, MMDB, OMIM, UniGene, GeneMap, Taxonomy, CGAP, SAGE, LocusLink, RefSeq NCBI WWW Users per Day Number of Users and Hits Per Day Home accessing the data Entrez Nucleotide Primary Data GenBank / DDBJ / EMBL 46,974,918 98.86 % Derivative Data RefSeq 533,236 1.12 % PDB structures 5,484 Third Party Annotation TPA 4,516 “Total” 47,518,338 GenBank: NCBI’s Primary Sequence Database Molecular Databases Primary Databases Original submissions by experimentalists Database staff organize but don’t add additional information Example: GenBank Derivative Databases Human curated compilation and correction of data Example: SWISS-PROT, NCBI RefSeq mRNA Computationally Derived Example: UniGene Combinations Example: NCBI Genome Assembly Primary vs. Derivative Databases The GenBank Record GenBank Records A Typical GenBank Record GenBank Record: Feature Table GenBank Record: Feature Table GenBank Record: sequence NCBI Homepage NCBI Homepage Online Help Using Entrez An integrated database search and retrieval system Entrez: Neighboring and Hard Links Database Searching with Entrez Using limits and field restriction to find mouse GAPD Linking and neighboring with mouse GAPD Entrez Nucleotides Document Summaries: Mouse[All Fields] Entrez Nucleotides: Limits: Preview/Index Entrez Nucleotides: Limits: Organism Document Summaries: M