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Premier Biosoft, Cytoscape, Max Planck Institute, University of Dortmund, Affymetrix,

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
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. 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.

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The Scan

Genes Linked to White-Tailed Jackrabbits' Winter Coat Color Change

Climate change, the researchers noted in Science, may lead to camouflage mismatch and increase predation of white-tailed jackrabbits.

Adenine Base Editor Targets SCID Mutation in New Study

Researchers from the University of California, Los Angeles, report in Cell that adenine base editing was able to produce functional T lymphocytes in a model of severe combined immune deficiency.

Researchers Find Gene Affecting Alkaline Sensitivity in Plants

Researchers from the Chinese Academy of Science have found a locus affecting alkaline-salinity sensitivity, which could aid in efforts to improve crop productivity, as they report in Science.

International Team Proposes Checklist for Returning Genomic Research Results

Researchers in the European Journal of Human Genetics present a checklist to guide the return of genomic research results to study participants.