Skip to main content
Premium Trial:

Request an Annual Quote

Downloads & Upgrades: Reactome 39; GenBank 187.0; EMBL-Bank 110; Velvet 1.2.01; and more

Premium

Reactome 39 is available here.

The release includes a new disease topic that contains HIV, influenza, botulinum neurotoxicity, amyloids, and diabetes pathways, as well as an EGFR signaling pathway in cancer. Topics with new or revised events in this release include immune system, metabolism, signal transduction, and gene expression.


The National Center for Biotechnology Information has released GenBank 187.0 via ftp.

Uncompressed187.0 flatfiles require roughly 518 gigabytes for sequence files only or 557 gigabytes to include the short directory, index, and text files. The ASN.1 data requires approximately 426 gigabytes.


This week, the genome browser team at the University of California, Santa Cruz, said that the UCSC Genome Browser now supports the Variant Call Format — an extendable line-oriented text format developed by the 1000 Genomes Project for releases of single nucleotide variants, indels, copy number variants, and structural variants.


Release 110 of the European Nucleotide Archive/EMBL-Bank is available from the European Bioinformatics Institute's ftp servers and other mirror sites.

Full release notes are available here.


Velvet 1.2.01 is available here.

This release includes a performance enhancement for users who are running Velvet on large datasets.


Version 2.3 of the GeneMania Cytoscape plugin and command line tools is now available.

This release includes numerous bug fixes; support for importing custom organisms into datasets; and the ability to create groups when importing networks, among other features. The tool also includes an improved linear system solver in the GeneMania algorithm.


Version 1.10 of the open source software UGENE has been released.

The latest version of the tool features several new tools including MrBayes and BWA; updates to Bowtie and Blast tools; improvements to the short-read assembly viewer; and new data filtering elements.


Filed under

The Scan

Researchers Develop Polygenic Risk Scores for Dozens of Disease-Related Exposures

With genetic data from two large population cohorts and summary statistics from prior genome-wide association studies, researchers came up with 27 exposure polygenic risk scores in the American Journal of Human Genetics.

US Survey Data Suggests Ancestry Testing Leads Way in Awareness, Use of Genetic Testing Awareness

Although roughly three-quarters of surveyed individuals in a Genetics in Medicine study reported awareness of genetic testing, use of such tests was lower and varied with income, ancestry, and disease history.

Coral Genome Leads to Alternative Amino Acid Pathway Found in Other Non-Model Animals

An alternative cysteine biosynthesis pathway unearthed in the Acropora loripes genome subsequently turned up in sequences from non-mammalian, -nematode, or -arthropod animals, researchers report in Science Advances.

Mosquitos Genetically Modified to Prevent Malaria Spread

A gene drive approach could be used to render mosquitos unable to spread malaria, researchers report in Science Advances.