NCBI will assign 64-bit numeric GIs by November 15th. Update affected software!

As announced  last month, NCBI will begin assigning larger (64-bit) numeric ‘GIs’ to the remaining sequence types that still receive these identifiers. This change is expected as soon as Nov. 15th, 2021 but could occur earlier if data submission volumes are unexpectedly high. This is a reminder that all organizations and developers using our products should review software for any remaining … Continue reading NCBI will assign 64-bit numeric GIs by November 15th. Update affected software!

Vertebrate Genome Project genome assemblies annotated by NCBI

NCBI is an active partner of the Vertebrate Genomes Project (VGP), who recently published a series of papers on the initial results of their efforts to sequence all 70,000 vertebrate species.  See the VGP press release  for more details. To date, this project has submitted over 130 diploid chromosome-level assemblies to NCBI’s GenBank  and the … Continue reading Vertebrate Genome Project genome assemblies annotated by NCBI

Prokaryotic representative genomes updated — now over 13 thousand assemblies!

We have updated the bacterial and archaeal representative genome collection!  The current collection contains over 13,000 assemblies selected from the 203,000 prokaryotic RefSeq assemblies to represent their respective species. The collection has increased by 11% since August 2020.  We’ve included about 1,400 species for the first time, have used better assemblies for 1,177 species, and … Continue reading Prokaryotic representative genomes updated — now over 13 thousand assemblies!

Autosuggest comes to Gene, Nucleotide and other databases

If you’ve been searching in Gene, Nucleotide, Protein, Genome or Assembly databases, you’ve probably noticed the new search experience we introduced in September to interpret several common language searches and offer improved results. We’re excited to announce we’ve added as-you-type … Continue reading

Upcoming Changes to EST and GSS Databases

As of December 1, 2018, all records from the databases for Expressed Sequence Tags (EST) and Genome Survey Sequences (GSS) will reside in NCBI’s Nucleotide database. This change will provide a single point of access for all GenBank sequence data … Continue reading

Sequence Viewer 3.23 now available

Sequence Viewer 3.23 has several new features, improvements and bug fixes, including performance optimization for alignment renderings and improved tooltips in uploaded VCF files. For a full list of changes, see the Sequence Viewer release notes. Sequence Viewer is a … Continue reading

September 2017: NCBI to present EDirect workshop at NLM

On September 18, 2017, NCBI staff will offer a workshop on EDirect, NCBI’s suite of programs for easy command line access to literature and biomolecular records. To join the workshop, please register. NOTE: This is an in-person workshop at the … Continue reading

Sequence Viewer 3.22 now available

Sequence Viewer 3.22 has several new features, improvements and bug fixes, including improved rendering on BAM and cSRA tracks. For a full list of changes, see the Sequence Viewer release notes. Sequence Viewer is a graphical view of sequences and … Continue reading

RefSeq Functional Elements now public

NCBI is pleased to announce the initial data release of RefSeq Functional Elements, a resource that provides RefSeq and Gene records for experimentally validated human and mouse non-genic functional elements. Data can be accessed via Gene, Nucleotide, BLAST, BioProject, Graphical Displays and FTP. These records include known gene regulatory elements (e.g., … Continue reading

Designing exon-specific primers for the human genome

A common task facing geneticists is to assay for sequence changes at particular locations in genes. These assays are often looking for changes in the coding exon of genes, and the target sequences are typically amplified using PCR from genomic … Continue reading