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Cognia, Molecular Mining, DNAstar, Ensembl, SCOP, ASTRAL


New York-based Cognia has launched Cognia Molecular, an information management system for entering, organizing, and utilizing biological and chemical information. The system provides annotation clients, a relational database, and search and visualization interfaces that allow researchers to create and customize databases for analyzing their proprietary information in the context of the scientific literature.

Molecular Mining of Cambridge, Mass., has released GeneLinker Gold version 3.0 and GeneLinker Platinum version 2.0. The latest versions of the company’s expression analysis software offer several usability enhancements, including linked visualizations and the ability to launch Spotfire DecisionSite products from within the programs. Analytical improvements include improved data import from a wider variety of microarray platforms, an F-test ANOVA procedure to test for differentially expressed genes between two or more experimental conditions, and Lowess normalization for two-color microarray data.

DNAstar has released its GenVision genomic data visualization and publication software. GenVision creates PostScript images from annotation data stored in text format to visualize genomic data as both circular and linear maps. The software is available as a plug-in for Adobe Illustrator for Mac and Windows and as a standalone version for Windows. DNAstar has also updated its Lasergene sequence analysis software suite to include enhanced data for locating potential transcription factor binding sites in nucleotide sequences.

Version 9 of Ensembl is now available at The new release is built upon an overhauled API and schema, according to its developers, and offers improved consistency over previous versions. Most data remains unchanged, but has been imported into the new schema. One exception is SNP data, which now uses dbSNP 107. SNP data are now available for human, mouse, and mosquito.

A new SCOP (structural classification of proteins) release (1.61) is available at The new version contains 17,406 PDB entries, 28 literature references, and 44,327 domains. The associated release 1.61 of ASTRAL, a collection of databases and tools for analyzing protein structures and sequences derived from SCOP, is available at

Filed under

The Scan

Driving Malaria-Carrying Mosquitoes Down

Researchers from the UK and Italy have tested a gene drive for mosquitoes to limit the spread of malaria, NPR reports.

Office Space to Lab Space

The New York Times writes that some empty office spaces are transforming into lab spaces.

Prion Pause to Investigate

Science reports that a moratorium on prion research has been imposed at French public research institutions.

Genome Research Papers on Gut Microbe Antibiotic Response, Single-Cell RNA-Seq Clues to Metabolism, More

In Genome Research this week: gut microbial response to antibiotic treatment, approach to gauge metabolic features from single-cell RNA sequencing, and more.