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Premier Biosoft, Cytoscape, Max Planck Institute, University of Dortmund, Affymetrix, Sourceforge.net

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The latest version of Premier Biosoft’s desktop tool AlleleID, which addresses pathogen detection, bacterial identification, and or taxa/species discrimination using qPCR assays and microarrays, has just been released.
 
The release includes ClustalW multiple sequence alignment at its core, and is designed with fewer oligos than in previous releases, according to the company. The oligos are used to identify gene groups interest.
 
The release is freely available here.
 

 
Cytoscape’s new plug-in BiLayout 1.0 has just been released.
 
The release computes a bipartite network layout from two user-selected groups of nodes and works with Cytoscape 2.4 and 2.5.
 
For further information about BiLayout 1.0 and instructions how to download it, see http://bilayout.bioinf.mpi-inf.mpg.de/.
 
 
BiLayout is a joint project of the Max Planck Institute for Informatics, Saarbrücken, and the Department of Computer Science, University of Dortmund, Germany.
 

 
Affymetrix has launched its Affymetrix GeneChip Command Console software, one part of a software suite for the extraction and analysis of microarray data.
 
The set of integrated instrument controls and data organization tools supports all cartridge-based GeneChip arrays with a file-based system designed for easy data sharing, a streamlined workflow and ease of use, the company said.
 
The complete software suite includes Command Console, Expression Console and Genotyping Console, offering researchers an integrated laboratory and data analysis workflow system, Affy said.
 

 
Sourceforge.net has just released BANNER, a named entity recognition system primarily intended for biomedical text.
 
A machine-learning system based on conditional random fields, it contains a wide survey of features from recent literature on biomedical named entity recognition. It is also portable and designed to maximize domain independence by not employing semantic features or rule-based processing steps.
 
BANNER is freely available here.

Filed under

The Scan

US Supports Patent Waivers

NPR reports that the Biden Administration has announced its support for waiving intellectual property protections for SARS-CoV-2 vaccines.

Vaccines Versus Variants

Two studies find the Pfizer-BioNTech SARS-CoV-2 vaccine to be effective against viral variants, and Moderna reports on booster shots to combat variants.

CRISPR for What Ails You

The Wall Street Journal writes that CRISPR-based therapies could someday be used to treat common conditions like heart attacks.

Nature Papers Review Integration of Single-Cell Assay Data, Present Approach to Detect Rare Variants

In Nature this week: review of ways to integrate data from single-cell assays, and more.