GenBank release 208.0 is now available via FTP
GenBank Release 208.0 (6/18/2015) has 185,019,352 non-WGS, non-CON records containing 193,921,042,946 base pairs for sequence data. In addition, there are 258,702,138 WGS records containing 1,038,937,210,221 base pairs of sequence data, as well as 76,974,601 TSA records containing 60,697,472,570 base pairs of sequence data. (Source: NCBI Announcements)
Source: NCBI Announcements - June 24, 2015 Category: Databases & Libraries Source Type: news
NCBI Southern California Regional Workshops to be held June 30 - July 2
NCBI Service Desk staff will present a workshop series (June 30 - July 2, 2015) at the Beckman Research Institute of City of Hope in Duarte, California. These five individual modules include lectures and hands-on demonstrations intended for physicians and researchers who want to learn more about NCBI resources and how to use them to advance research projects. (Source: NCBI Announcements)
Source: NCBI Announcements - June 19, 2015 Category: Databases & Libraries Source Type: news
New YouTube video: "Sequence Viewer: Navigate Objects with Jump Arrows"
The newest video on the NCBI YouTube channel, "Sequence Viewer: Navigate Objects with Jump Arrows", introduces jump arrows, a feature recently added to Sequence Viewer. A full list of new features, improvements and fixes can be found in the release notes. (Source: NCBI Announcements)
Source: NCBI Announcements - June 18, 2015 Category: Databases & Libraries Source Type: news
UniVec build 9.0 now available for VecScreen searches and FTP
UniVec, NCBI's non-redundant database of vector sequences, has been updated to build 9.0, which enables searches run using NCBI's VecScreen tool to detect more of the foreign sequences introduced during the cloning or sequencing process. UniVec build 9.0 is also available via FTP. (Source: NCBI Announcements)
Source: NCBI Announcements - June 16, 2015 Category: Databases & Libraries Source Type: news
BLAST+ stand-alone updated to version 2.2.31
A new version (2.2.31) of the stand-alone BLAST executables (Linux, Windows and MacOSX on FTP) is now available. New features include support for BLAST-XML2 specification (information here) and JSON BLAST output format, as well as several bug fixes and improvements. The BLAST AMI at AWS will also be updated to 2.2.31 (see this BLAST Help page for more information). For a full list of improvements, see the release notes. (Source: NCBI Announcements)
Source: NCBI Announcements - June 16, 2015 Category: Databases & Libraries Source Type: news
Complete MERS coronavirus genomes from China and South Korea are in GenBank
Two complete MERS coronavirus genomes are in GenBank: one from China (KT006149) and one from South Korea (KT029139). In addition, the MERS coronavirus resource page gives users an easy way to find all sequences related to this pathogen. (Source: NCBI Announcements)
Source: NCBI Announcements - June 11, 2015 Category: Databases & Libraries Source Type: news
dbSNP build 144 now available
dbSNP build 144 data is now available through the integrated NCBI Entrez system and FTP. This release includes data for human, chicken, soybean and horse. Build 144 provides more than 601 million submitted and 191 million reference variants for 4 species. To see complete build statistics, visit the SNP summary page. (Source: NCBI Announcements)
Source: NCBI Announcements - June 9, 2015 Category: Databases & Libraries Source Type: news
NCBI Sequence Viewer version 3.8 available
NCBI Sequence Viewer has recently been updated and now has a new track navigation GUI that allows you to quickly find features like gene, exon, SNP and alignment; it also has a new API option for negative graph values and improved variation tooltips. A full list of new features, improvements and fixes is included in the release notes. (Source: NCBI Announcements)
Source: NCBI Announcements - June 3, 2015 Category: Databases & Libraries Source Type: news
June 10th webinar: "Working with Phylogenetic Trees in Genome Workbench"
On June 10th, NCBI staff will show you how to use NCBI's powerful Genome Workbench application to work with phylogenetic trees. You will learn about the many options for importing trees, for visualizing, searching and modifying the trees and for saving or exporting them. We will also answer questions and welcome feedback from our participants on future directions for Genome Workbench. (Source: NCBI Announcements)
Source: NCBI Announcements - June 3, 2015 Category: Databases & Libraries Source Type: news
Conserved Domain Database (CDD) version 3.14 now available online and via FTP
Conserved Domain Database (CDD) version 3.14 is now available with 560 new or updated NCBI-curated domains and 50,648 total domain models from CDD's database providers: Pfam, SMART, COG, TIGRFAMs, Protein Clusters, and the NCBI in-house curation project. (Source: NCBI Announcements)
Source: NCBI Announcements - June 2, 2015 Category: Databases & Libraries Source Type: news
The SRA Submission App on BaseSpace lets you submit directly to SRA
If you use Illumina for next-gen sequencing and want or need to share your genomic data by putting it into a public repository, you can now submit directly to SRA through BaseSpace. You can also submit directly to SRA if you use Mothur for 16S assembly. Note: it is possible to port data from SRA into BaseSpace; click here for instructions. (Source: NCBI Announcements)
Source: NCBI Announcements - June 2, 2015 Category: Databases & Libraries Source Type: news
New NCBI YouTube video: "NCBI Minute: Prokaryotic Genome Annotation Update"
The newest video on the NCBI YouTube channel describes the updates recently made to our prokaryotic genome annotation process. In addition to describing the improvements to RefSeq bacterial and archaeal genome annotation and management, we also provide tips on adapting your workflow and show you how to find more information and help. (Source: NCBI Announcements)
Source: NCBI Announcements - June 1, 2015 Category: Databases & Libraries Source Type: news
New NCBI YouTube video: "Genome Workbench: Import BAMs and Export Alignments"
This video on the NCBI YouTube channel shows you how to import BAM files, create a BAM file index, and export selected alignments using NCBI's Genome Workbench. (Source: NCBI Announcements)
Source: NCBI Announcements - May 29, 2015 Category: Databases & Libraries Source Type: news
June 3rd webinar: "Troubleshooting GenBank Submissions: Coding Region Annotation"
Next Wednesday, June 3rd, NCBI staff will show you how to troubleshoot internal stop codon errors encountered during coding region (CDS) annotation. The source of this problem can be in (1) improper frame/strand, or genetic code designation or (2) poor sequence quality. You will learn how to analyze your sequences and uncover problems with BLAST prior to submitting them to GenBank. (Source: NCBI Announcements)
Source: NCBI Announcements - May 28, 2015 Category: Databases & Libraries Source Type: news
NCBI to hold three-day genomics hackathon in August
From August 3-5, NCBI will host its second genomics hackathon focusing on advancing bioinformatics analysis of next generation sequencing data. This event is for students, postdocs and investigators already engaged in the use of pipelines for genomic analyses from next generation sequencing data.* Working groups of 5-6 individuals will be formed for twelve teams, in three sections. These groups will build pipelines to analyze large datasets within a cloud infrastructure. The sections for this iteration are:"RNA-Seq Normalization for Every Biologist", "Translational Genomics", and "Democratization of Genomics". Please see t...
Source: NCBI Announcements - May 27, 2015 Category: Databases & Libraries Source Type: news
