Courses home > Database queries and sequence retrieval

It is important to be able to retrieve, quickly and easily, any number of sequences matching any given specific criteria from the huge amount of data that can be found in the databases.

[ entrez ] workedexample | help

The Entrez retrieval system at NCBI is useful because many of its records are linked to other records, either in the same database, or between databases. Links can be similar sequences, either within or between databases (e.g. similar nucleotide sequences, or similar nucleotide and protein sequences). Narrowing down a search, term-by-term, is also a useful feature.

[ batch entrez ] help

Batch Entrez allows you to retrieve large sets of sequences from a list of accession numbers.

[ srs ] workedexample | help

In the SRS retrieval system, there are many searchable databases, which can be cross-referenced using WWW links, which allows the user to find out a lot of information about a particular sequence very quickly and easily. Both the SRS retrieval system and the NCBI Entrez system allow you to get both protein and nucleotide sequences.

[ entrez gene ] workedexample

Entrez Gene is a database that contains functional information and map locations about genes. It is available from the main page as a separate database, and should not be confused with the nucleotide database.

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News
Jul, 2009; ChIPseeqer, a comprehensive framework for analysis of ChIP-seq data developed in the Elemento lab, is now available for download. [More]
Apr, 2009; The BDVal program developed by the Campagne laboratory for MAQC-II is now available from http://bdval.org. The software supports the development and evaluation of predictive biomarker models from high-throughput data. The web site offers binary and source distributions. [More]
Jan, 2009; Twease now supports searching MEDLINE articles by Author, Journal, and Publication Year. Examples for performing these searches can be found in the updated Twease tutorial. [More]

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