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Downloads and Upgrades: Apr 1, 2011


Version 52 of the Catalogue of Somatic Mutations in Cancer, COSMIC, is now available.

In addition to website improvements, the new release includes four new genes and 16 new fusion pairs curated from the literature as well as updates to the Cancer Genome Atlas and the International Cancer Genome Consortium portal data.

This week, Accelrys launched Accelrys Modeling and Simulation Suite.

The tool suite incorporates the firm’s Discovery Studio software, Materials Studio software, the Pipeline Pilot Life Science and Materials Modeling and Simulation Collections, as well as its QSAR Workbench, a packaged solution from Accelrys Professional Services.

The suite offers scientific organizations involved in pharmaceutical, chemical, and materials research; and development access to predictive science capabilities ranging across small molecules, biomolecules, chemicals and materials.

Separately, the company announced the release of Accelrys QSAR Workbench, a web-based solution for developing, validating and deploying of predictive quantitative structure-activity relationship models. The tool captures best practices of QSAR design, streamlines model development, reduces errors, and automates manual steps.

Version 1.9.2 of the open source software UGENE has been released.

The latest version includes bug fixes as well as workflow and query designer improvements among other features. Furthermore, the UGENE Genome Aligner can now use modern GPUs to boost computations.

Velvet 1.1.02 is available here.

This version is multithreaded and can use multiple CPUs on the same computer, has a reduced memory footprint, and improves the use of mate-pairs, and includes corrections to the MetaVelvet Makefile among other updates

The National Center for Biotechnology Information has released BLAST 2.2.25.

The new release fixes several bugs and includes improvements such as enhanced documentation, added support for hard-masking of Blast databases, and added support for query and subject length to tabular output, among other features.

The Scan

Guidelines for Ancient DNA Work

More than two dozen researchers have developed new ethical guidelines for conducting ancient DNA research, which they present in Nature.

And Cleared

A UK regulator has cleared former UK Prime Minister David Cameron in concerns he should have registered as a consultant-lobbyist for his work with Illumina, according to the Financial Times.

Suit Over Allegations

The Boston Globe reports that David Sabatini, who was placed on leave from MIT after allegations of sexual harassment, is suing his accuser, the Whitehead Institute, and the institute's director.

Nature Papers on Esophageal Cancer, Origin of Modern Horses, Exome Sequencing of UK Biobank Participants

In Nature this week: genetic and environmental influences of esophageal cancer, domestic horse origin traced to Western Eurasian steppes, and more.