dbVar July 2016 data release includes new 1000 Genomes Phase III structural variants
The dbVar July 2016 data release includes 1,455,032 new Variant regions, 13,961,956 Variant calls and 6 new studies. See a list of the studies, including descriptions and links to the data in the release notes. (Source: NCBI Announcements)
Source: NCBI Announcements - August 29, 2016 Category: Databases & Libraries Source Type: news
August 31st NCBI Minute: Downloading Genome Data from the NCBI FTP Site
In the next NCBI Minute, we will teach you how to use the Web and the command line to quickly access and download genomic sequence and annotation files for a species, metagenome or taxonomic group of interest. (Source: NCBI Announcements)
Source: NCBI Announcements - August 25, 2016 Category: Databases & Libraries Source Type: news
VAST+ update provides refined alignments
The new version of VAST+ provides a refined structure-based alignment of similar macromolecular complexes and displays the 3D superpositions in the recently launched iCn3D. (Source: NCBI Announcements)
Source: NCBI Announcements - August 23, 2016 Category: Databases & Libraries Source Type: news
September 12th class at NLM: EDirect - Command Line Access to NCBI's Biomolecular Databases
On September 12, 2016, NCBI staff will discuss EDirect in a class at the National Library of Medicine. During the optional first hour of this workshop (9-10 AM), you will get a basic introduction to the Unix/Linux command line interface. The main workshop (10 AM - Noon) will cover how to use EDirect to set up simple pipelines to retrieve and process data from PubMed, Gene and the Nucleotide and Protein sequence databases. We will provide access to EDirect installed in a Linux environment on a cloud service. (Source: NCBI Announcements)
Source: NCBI Announcements - August 22, 2016 Category: Databases & Libraries Source Type: news
HIV-1 datasets in Gene updated
NCBI has updated the HIV-1 interaction datasets available in Gene with data provided by the Southern Research Institute. (Source: NCBI Announcements)
Source: NCBI Announcements - August 16, 2016 Category: Databases & Libraries Source Type: news
HTTPS at NCBI: Guidance for NCBI web API users
As originally announced on June 10, NCBI will be moving all web services to the HTTPS protocol on September 30, 2016. Particularly for API users, this move may disrupt any processes that access NCBI APIs using the HTTP protocol. Please see this document on the Develop action page for a complete discussion of this move and what you need to do, along with some new test servers to help you confirm whether your code will function after the change to HTTPS. (Source: NCBI Announcements)
Source: NCBI Announcements - July 27, 2016 Category: Databases & Libraries Source Type: news
dbSNP build 148 for corn, fruit fly, rice and 8 other organisms available
dbSNP build 148 is accessible on the web and via FTP. This release includes data for cat, corn, cow, fruit fly, grape, horse, rice, sorghum, tomato, turkey and zebra finch. Build 148 provides over 446 million submitted variants and 225 million reference variants for 14 organisms. To see complete build statistics, visit the SNP summary page. (Source: NCBI Announcements)
Source: NCBI Announcements - July 26, 2016 Category: Databases & Libraries Source Type: news
August 3rd webinar: NCBI Targeted Loci: RefSeq Ribosomal RNA Sequences for Identification and Phylogenetic Analysis
On August 3rd, NCBI staff will present a webinar on our targeted loci project. You'll learn about the scope of the project and see practical examples of using these data, BLAST and MOLE-BLAST to identify organisms and explore their diversity in sequences from environmental and organism-associated communities. (Source: NCBI Announcements)
Source: NCBI Announcements - July 21, 2016 Category: Databases & Libraries Source Type: news
Tree Viewer 1.10 visualizes large phylogenetic trees up to 100,000 nodes
Tree Viewer version 1.10 has several improvements, updates and bug fixes, including the ability to visualize large phylogenetic trees up to 100,000 nodes. In addition, Tree Viewer 1.10 has added functionality for sorting, as well as improved API and zoom functions. The Tree Viewer release notes list all updates. (Source: NCBI Announcements)
Source: NCBI Announcements - July 19, 2016 Category: Databases & Libraries Source Type: news
NCBI Insights blog post: NCBI is Phasing out Sequence GIs - Here's What You Need to Know
The latest blog post on NCBI Insights answers two questions you may have regarding the switch to accession.version: (Source: NCBI Announcements)
Source: NCBI Announcements - July 15, 2016 Category: Databases & Libraries Source Type: news
July 27th NCBI Minute: Important Changes to NCBI Web Protocols
In two weeks, we’ll discuss NCBI’s upcoming switch to the secure HTTPS protocol. Through this NCBI Minute, you’ll learn how this change will affect your access to NCBI pages and services and what you should do to have a smooth transition. (Source: NCBI Announcements)
Source: NCBI Announcements - July 13, 2016 Category: Databases & Libraries Source Type: news
Sequence Viewer 3.15 is now available
Sequence Viewer 3.15 brings several new features, improvements and bug fixes to the graphical viewer, including improved PDF graphics for markers, an extended embedding API and improved tooltips. For a full list of changes, see the release notes. (Source: NCBI Announcements)
Source: NCBI Announcements - July 13, 2016 Category: Databases & Libraries Source Type: news
Conserved Domain Database (CDD) version 3.15 now available online and via FTP
Version 3.15 of the Conserved Domain Database contains 290 new or updated NCBI-curated domains (52,411 total), including models specifically built to annotate structural motifs (accession prefix "sd"), and now mirrors Pfam version 28. (Source: NCBI Announcements)
Source: NCBI Announcements - July 12, 2016 Category: Databases & Libraries Source Type: news
RefSeq release 77 is now available
RefSeq release 77 is accessible online, via FTP and through NCBI’S programming utilities. This full release incorporates genomic, transcript and protein data available as of June 29, 2016 and includes: (Source: NCBI Announcements)
Source: NCBI Announcements - July 7, 2016 Category: Databases & Libraries Source Type: news
