Links Between RefSeqs and Ensembl
Entrez Gene is now calculating matches between NCBI and Ensembl annotation based on comparison of rna and protein features. For organisms that are represented in the Consensus Coding Sequence (CCDS)...
View ArticleNew Properties rnatype_* Similar To genetype_*
For some time now, the type of gene has been indexed with a genetype property such as "genetype protein coding [properties]". Entrez Gene is now indexing rna types as well, so you can find genes by...
View ArticleNames of genes and proteins
Entrez Gene is announcing the following modifications to processing of names assigned to genes and proteins:1. The use of 'similar to' is being replaced with '-like'RefSeq and Entrez Gene have...
View ArticleChanges in Gene-Ensembl matching
A change has been made in the way that matches between NCBI and Ensembl annotation are identified. Originally, matches for human and mouse were identified based directly on representation in the...
View ArticleMore Links to RefSeqs
Links from Gene to Reference Sequences in Entrez Protein and Entrez Nucleotide have been added. These links represent the subset of protein and nucleotide links that are RefSeqs. For genes with...
View ArticleOrdering of the report of exon locations in Entrez Gene
As you may have noticed, the order of reporting exon locations in Entrez Gene's ASN.1 and XML reports is in a transition phase.NCBI's new standard is to report exon location in exon order, i.e. first...
View ArticleNew FTP file for Gene-Ensembl matching
Entrez Gene calculates matches between NCBI and Ensembl annotation, and reports these matches in several ways, including: the Full Report display; the "matches Ensembl" index property; and the...
View ArticleRestructuring of the Entrez Gene web display, with a new GeneRIF display type
Entrez Gene released a new web display today, August 16, 2010. This change does not affect the ftp site or tools to retrieve data from eutils.Highlights of this new display:Added functions to...
View ArticleIncrease in number of records for Xenopus (Silurana) tropicalis (western...
Recently, NCBI's genome annotation pipeline released its annotation on RefSeqs of Xenopus (Silurana) tropicalis and Ailuropoda melanoleuca (giant panda)....
View ArticleMore Matches to Ensembl Annotation
Entrez Gene is pleased to announce that Drosophila melanogaster (fruit fly) has been added to the list of organisms for which Ensembl annotation matches are being identified. As before, matches between...
View ArticleNew Properties for Discontinued and Replaced Records
For some time now, it has been possible to identify the subset of genes that are current and primary by using the "alive" property. Genes that are not alive can be categorized as either replaced or...
View ArticleRecent changes to Entrez Gene: October 14, 2010
We released several bug fixes and modifications to the Entrez Gene web site today.The table in the GeneTable display option (e.g.http://www.ncbi.nlm.nih.gov/gene/4204/?report=gene_table) now correctly...
View ArticleEnhancements to Entrez Gene for genomic displays
Entrez Gene is announcing two enhancements to our web content.1. Selection of genomic sequence for displayThe Genomic Regions, Transcripts and Products section of the Entrez Gene full report display...
View ArticleTransitioning to RSS feeds for announcements
Starting in early 2011, Entrez Gene announcements will be distributed via the Entrez Gene News RSS (Really Simple Syndication) feed instead of the gene-announce mail-list. RSS is a Web standard for...
View ArticleChanges in Gene-Ensembl Matching
Changes are in store for matches between RefSeqs and Ensembl annotation. Matches are currently calculated by matching RefSeqs to all possible good matches from Ensembl. Soon the calculation will be...
View ArticleCCDS mouse update is public in Gene
The Consensus Coding Sequence (CCDS) update for mouse build MGSCv37.2 was released earlier this week, and these updates are now reflected in Gene as well. This update includes the addition of 4,561...
View ArticleEntrez Gene is now just plain Gene
You may have noticed that our home page is no longer entitled Entrez Gene. The term Entrez was removed to make the database name be consistent with the URL and other named links within NCBI. We are...
View Articlemodifications to the phenotype section
The phenotype section has been restructured. The changes are most apparent for human genes, whenever there are data from GeneReviews, the NHGRI GWAS Catalog, or OMIM. To the left of each named...
View ArticleRefseqGene, Locus Reference Genomic (LRG) and Gene
The genomic sequences of human genes with known medical importance are being accessioned as RefSeqGenes (http://www.ncbi.nlm.nih.gov/refseq/rsg/). As a member of the Locus Reference Genomic...
View ArticleSearch results are now grouped by NCBI Taxonomy identifiers
When a search of Gene results in multiple results, the panel at the right now includes a section, labeled Top Organisms [Tree], which summarizes the results by identifiers in NCBI's taxonomy database....
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