TOOLS FOR DATA MINING
Various data retrieval and submission tools may be found on the NCBI Web site, including:
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Text Term Searching
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Provides integrated access to nucleotide and protein sequence data
from over 100,000 organisms, along with three-dimensional protein
structures, genomic mapping information, and PubMed MEDLINE.
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A registry service to create links from specific articles, journals,
or biological data in Entrez to resources on external Web sites.
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Allows Entrez users to store and update searches and to customize
their LinkOut display to include or exclude links to providers.
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Allows you to find the PubMed ID or the MEDLINE UID of any article
in the PubMed database, given its bibliographic information.
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Sequence Similarity Searching
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Access to BLAST (Basic Local Alignment Search Tool) programs, overview,
help documentation, and FAQs.
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Displays the results of BLAST searches that have been done for
every protein sequence in the Entrez Protein database.
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BLAST E-mail server:
The BLAST e-mail server was discontinued on June 17, 2002. Click here for
further information.
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A BLAST client (blastcl3) that accesses the NCBI BLAST search engine. Blastcl3
can search all the sequences in a FASTA file and produce one-to-many alignments in
text or HTML format. It can also perform searches against multiple databases.
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Download BLAST executables for local use.
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Taxonomy
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A tool for searching NCBI's taxonomy database.
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Groups BLAST hits by source organism according to their classification in NCBI's Taxonomy database.
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Summarizes BLAST taxonomy data and displays the relationship of the organism to others through a color-coded graph.
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Provides a summary of protein coding regions in a genome.
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Provides a three-way view of genome similarities.
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Sequence Submission
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A data submission tool that includes ORF Finder, an alignment viewer/editor,
and a link to PowerBLAST.
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WWW submission tool for one or simple sequence submissions.
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