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Downloads and Upgrades: Feb 27, 2009

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BioRuby 1.3.0 has just been released and is available here. BioRuby is in the open-source programming language Ruby language, a project supported by the University of Tokyo and the Kyoto University.

Some of the changes include support for GenBank/EMBL formatted sequence output with improvements of Bio::Sequence. BioSQL support is completely rewritten by using ActiveRecord and there are Bio::Blast bug fixes and improvements.


BASE 2.10 has been released and it adds several new features, such as a new Biomaterial LIMS system. Base is a free web-based database solution for the microarray analysis data developed at Lund University.

The software can be downloaded here.


Stone Bond Technologies has released MicroLIMS, an on-line software as a service platform for microarray core laboratories, to complement its award-winning EE-LIMS product for life sciences.

MicroLIMS is a subscription-based solution that automates laboratory workflow, invoicing, data and sample tracking, collections, and other laboratory processes.

MicroLIMS allows multiple users to input data and guides the user through the process of building an automated workflow system that fits laboratory needs, the company said in a release.


The National Cancer Institute 's cancer Biomedical Informatics Grid has released an updated version of its caTissue Suite software, caTissue Suite 1.1, available here.

This open-source, web and programmatically accessible tool for managing biospecimens supports multiple biospecimen repositories across an institution using a single installation of caTissue.

It also lets users query key annotations including time between events and patient age.

Scientists can access data locally, or remotely across the caBIG network.

The Scan

Steps for Quick Review

The US Food and Drug Administration is preparing for the quick review of drugs and vaccines for the Omicron variant, according to the Wall Street Journal.

Moving Away From Using Term 'Race'

A new analysis finds that geneticists are using the term "race" in their papers less than in years past, as Science reports.

Point of the Program

The Guardian writes that some scientists have called the design of a UK newborn sequencing program into question.

Science Papers Present Multi-Omic Analysis of Lung Cells, Regulation of Cardiomyocyte Proliferation

In Science this week: a multi-omic analysis of lung cells focuses on RIT1-regulated pathways, and more.