The database contains data from Human Genome build Hg18, Mouse Genome build Mm8 and NCI build 36.2. We have renamed our database. If you are using the command-line version of MatchMiner, you will need to download a new copy to use the new database. Otherwise your software will continue to run against the previous database.

MatchMiner is a set of tools that enables the user to translate between disparate ids for the same gene. It uses data from the UCSC, LocusLink, Unigene, OMIM, Affymetrix and Jackson data sources to determine how different ids relate. Supported id types include, gene symbols and names, IMAGE and FISH clones, GenBank accession numbers and UniGene cluster ids.

It consists of three different web-based tools, the interactive lookup, the batch lookup and the batch merge. There is also a command-line version.

Interactive Lookup
allows the user to type in a single id of the type selected and view a list of translations into another specified id type.
Batch Lookup
is similar to the interactive lookup except the user enters a file name containing the list of ids to be looked up.
Batch Merge
allows the user to specify two different files, with 2 different ids, and get a list of those entries that refer to the same genes.
instructions for using MatchMiner on the web.
Citing MatchMiner
A paper describing the MatchMiner tool has been published in Genome Biology. The article is available for download in PDF format.
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Command Line
download a command-line version of the MatchMiner tool.

Some files in PDF format and require Adobe Acrobat Reader to be viewed. Click here to download.

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MatchMiner is a development of the Genomics and Pharmacology Facility, Developmental Therapeutics Branch (DTB), Center for Cancer Research (CCR), National Cancer Institute (NCI).

If you have any problems, questions or feedback on the tool, please email us.

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