Category Archives: Genome Browser
Now Available! More Mammalian Cross-Species Alignments in the Comparative Genome Viewer (CGV)
In response to your feedback, we’ve made more whole genome cross-species alignments available in NCBI’s Comparative Genome Viewer (CGV). You can use these alignments to explore genome rearrangements between species. You can also zoom in to analyze regions of conserved gene synteny. There are over 20 new cross-species alignments available, including human-mouse, mouse-rat, human-chimp, human-cattle, … Continue reading Now Available! More Mammalian Cross-Species Alignments in the Comparative Genome Viewer (CGV)
NCBI genome browsers: search and you will find!
If you’ve ever tried searching for a genomic location in NCBI’s Genome Data Viewer (GDV) or Variation Viewer and found that your search term didn’t work, it’s time to try again! We recently expanded support for searches in our genome browsers using non-NCBI identifiers such as HGVS patterns (e.g. NM_001318787.2:c.2258G>A) and Ensembl IDs. You can also search by chromosome coordinates, cytogenetic band, assembly scaffold/component, disease/phenotype, dbSNP … Continue reading NCBI genome browsers: search and you will find!
Three outdated browsers (1000 Genomes, dbGaP Data, and Get-RM) to retire in April 2022. Data available in GDV
The Genome Data Viewer (GDV) is now the comprehensive NCBI genome browser. The development of GDV led to a few different types of genome browsers along the way, each one originally delivering visual displays for particular datasets. We developed the 1000 Genomes Browser for variation data from the 1000 Genomes project, the dbGaP Data Browser … Continue reading Three outdated browsers (1000 Genomes, dbGaP Data, and Get-RM) to retire in April 2022. Data available in GDV
View intron feature evidence in the Genome Data Viewer and Sequence Viewer
Are you a researcher who works on gene biology and are interested in alternative splice patterns in your gene or genes of interest? If so, be sure to explore the intron feature evidence available in graphics views of genome assemblies annotated by NCBI. You can view the NCBI evidence used for calling splice variant for … Continue reading View intron feature evidence in the Genome Data Viewer and Sequence Viewer
Improved chromosome searching in Genome Browsers
Are you interested in searching for a chromosomal region in a genome, but don’t know how to write the correct query? The good news is that the NCBI Genome Data Viewer (GDV) now supports a much wider array of search options. Some examples are listed below: chr1:1,500,000-2,000,000 chr2: 1.5M – 2M chr2: 1.5M-2,540.2K 2:1,500,000-2,000,000 3: … Continue reading Improved chromosome searching in Genome Browsers
Posted by in Genome Browser, Genome Data Viewer (GDV), Sequence Viewer, What's New
Coronavirus host gene regulatory elements now annotated by RefSeq Functional Elements
The COVID-19 pandemic has drawn attention to the human host genes associated with SARS-CoV-2 entry and to the elements that regulate expression of these genes. At NCBI, we have prioritized curation of experimentally validated regulatory elements for these genes in the RefSeq Functional Elements project. Our annotations include several enhancers, promoters, cis-regulatory elements and protein binding … Continue reading Coronavirus host gene regulatory elements now annotated by RefSeq Functional Elements
Recent enhancements in Genome Workbench version 3.4.1
New Features Version 3.4.1 of Genome Workbench, NCBI’s sequence annotation and analysis platform, includes new features for the the Multiple Sequence Alignment View, the Graphical Sequence View and the Sequence Editing and Submission Package as well as a number of other improvements and bug fixes. In the Multiple Sequence Alignment View, you can now export … Continue reading Recent enhancements in Genome Workbench version 3.4.1
Non-human variation data from EVA now available in the Genome Data Viewer
You can now view SNP variation data for many commonly studied animals and plants – including mouse, cow, Drosophila, Arabidopsis, maize, cabbage, and many more – in the Genome Data Viewer (GDV) and other graphical sequence viewers. This data is … Continue reading
Posted by in GDV, Genome Browser, RefSNP, Variation, What's New
dbVar clinical and common structural variants track hub now available
dbVar, NCBI’s database of large-scale genetic variants, has a new track hub for viewing and downloading structural variation (SV) data in popular genome browsers. Initial tracks include Clinical and Common SV datasets. dbVar’s new track hub can be viewed using … Continue reading
Posted by in dbVar, GDV, Genome Browser, Track Hubs, Variation, What's New
Try out our new table download options from the NCBI genome browsers and sequence viewers!
Have you ever wanted a list of the genes you’re looking at in the browser – maybe to give you a starting point for candidate gene analysis, or to cross-reference with other data? In response to your feedback and helpful … Continue reading
Posted by in Genome Browser, Genome Data Viewer, Sequence Viewer, What's New