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GENSAT Project Data Now in Entrez

My NCBI

Influenza Virus Resource

NCBI ToolKit Utility Programs

New Microbial Genomes in GenBank

Iceman Preserved in GenBank

RefSeq Updates

RefSeq Release 11

New Organisms in UniGene

GenBank Release 147

New Genome Build

CCDS Database

NCBI Courses

PubMed Corrects Spelling

BLAST Lab

LocusLink Retired

Masthead





LocusLink Retired

Entrez’s NCBI has stopped providing the LocusLink interface as of March 1, 2005. Only one file on the LocusLink ftp site is still being updated (LL_tmpl.gz), and the update of that file will end on June 1, 2005.

During the transition period, subsets of data were removed from LL_tmpl to be reported only from Entrez Gene. These include GeneRIF data and genes from Drosophila melanogaster and Caenorhabiditis elegans. Also, new gene-specific data are being processed that are reported only in Entrez Gene. This includes (1) links to pathway information from KEGG for genomes other than human, (2) links to Reactome, and (3) access to GENSAT (Gene Expression Nervous System ATlas) (mouse only):

Records in Entrez Gene that have expression data viewable from GENSAT can be retrieved from Gene by the query:

gene_gensat[filter]

Entrez Gene maintains several files, described in the shaded box, to help support the transition from use of LocusLink.

If you are interested in being notified when changes are made to Entrez Gene, subscribe to gene-announce:

 

New Files Added to Entrez Gene

1. The Gene README file

ftp.ncbi.nih.gov/gene/README

2. Gene Help

www.ncbi.nlm.nih.gov/entrez/query/static/help/genehelp.html#gene_ftp

3. The LocusLink->Gene transition file.

www.ncbi.nlm.nih.gov/entrez/query/static/help/LL2G.html

4. gene2xml, described in this README:

ftp.ncbi.nih.gov/asn1-converters/documentation/gene2xml.txt

which facilitates converting the ASN.1 extraction of Entrez Gene to XML.

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