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NCBI Handbook







NCBI Handbook

NCBI Handbook 01/19/2004 07:20 AM

NCBI Handbook
http://www.ncbi.nlm.nih.gov/books/bv.fcgi?c all=bv.View..ShowTOC&rid=handbook.TOC&depth=2k

This NCBI Handbook (in PDF-format) is intended for power-users of the NCBI databases. It includes relatively stable information about each resource. The text covers Databases, Data flow, Searching the Data, and User Support.
Eleven chapters cover NCBI databases: 1. GenBank: The Nucleotide Sequence Database; 2. PubMed: The Bibliographic Database; 3. Macromolecular Structure Databases; 4. The Taxonomy Project; 5. The Single Nucleotide Polymorphism Database (dbSNP) of Nucleotide Sequence Variation; 6. The Gene Expression Omnibus (GEO): A Gene Expression and Hybridization Repository; 7. Online Mendelian Inheritance in Man (OMIM): A Directory of Human Genes and Genetic Disorders; 8. The NCBI BookShelf: Searchable Biomedical Books; 9. PubMed Central (PMC): An Archive for Literature from Life Sciences Journals; 10. The SKY/CGH Database for Spectral Karyotyping and Comparative Genomic Hybridization Data; 11. The Major Histocompatibility Complex Database, dbMHC data-flow, technical details and end-user tips for the varied collection of bioinformatics tools available from NCBI.

Three chapters cover data flow to build these databases: 12. Sequin: A Sequence Submission and Editing Tool; 13. The Processing of Biological Sequence Data at NCBI; 14. Genome Assembly and Annotation Process.

Eight chapters cover software tools for querying and linking the data: 15. The Entrez Search and Retrieval System; 16. The BLAST Sequence Analysis Tool; 17. LinkOut: Linking to External Resources from Entrez Databases; 18. The Reference Sequence (RefSeq) Project; 19. LocusLink: A Directory of Genes; 20. Using the Map Viewer to Explore Genomes; 21. UniGene: A Unified View of the Transcriptome; 22. The Clusters of Orthologous Groups (COGs) Database: Phylogenetic Classification of Proteins from Complete Genomes.

There is a hypertext-version of 215 topics available at http://snipurl.com/3wqk




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