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Target Engine, Biofacet Patent Edition, Ascenta, caCORE, Vega, DNAsis Max, BioRuby, UCSC Genome Browser

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Lion Bioscience has released Target Engine, a target discovery and validation software solution built on its DiscoveryCenter integration platform. The system includes a registration component to manage genes and sequences; an annotation component; and analysis capabilities for pathway and protein-protein interactions, genome and protein structure analysis, text mining, target tracking, and visualization.

 

Gene-IT has launched Biofacet Patent Edition, an intranet search engine that provides percent identity and homology-based methods to find sequence records in patent databases. According to the company, the percent identity searching approach offers improved certainty over homology-based tools.

 

Gene Logic has introduced Ascenta, a pre-formatted version of its BioExpress database that includes gene expression snapshots based on nearly 9,000 samples curated into around 1,000 sample sets. Ascenta will be commercially available in the third quarter of 2003.

 

The National Cancer Institute Center for Bioinformatics has released version 1.2 of its caCORE research information management system at http://ncicb.nci.nih.gov/core. The new release includes BIOgopher, an ad hoc querying and reporting tool that allows users to integrate their local bioinformatics data with public data sources

 

Version 1.5.0 of the Vega 3D visualization software is available from the Drug Discovery Laboratory of Milan University at http://www.ddl.unimi.it/. New features include format conversion for selected information types and a PSF (protein structure file) X-Plor topology saver.

 

MiraiBio has released version 2.0 of its DNAsis Max sequence analysis package. The new version includes customizable capabilities so users can design and save protocols to suit their specific requirements.

 

BioRuby 0.5.0 is available at http://ftp.bioruby.org/bioruby-0.5.0.tar.gz. New features include DAS and KEGG client libraries and GenScan and GO parsers.

 

The UCSC Genome Browser has released browsers and Blat servers for C. elegans (version WS100, May 2003) and C. briggsae (version cb25.agp8, July 2002) at http://genome.ucsc.edu.

 

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The Scan

Single-Cell Sequencing Points to Embryo Mosaicism

Mosaicism may affect preimplantation genetic tests for aneuploidy, a single-cell sequencing-based analysis of almost three dozen embryos in PLOS Genetics finds.

Rett Syndrome Mouse Model Study Points to RNA Editing Possibilities

Investigators targeted MECP2 in mutant mouse models of Rett syndrome, showing in PNAS that they could restore its expression and dial down symptoms.

Investigators Find Shared, Distinct Genetic Contributors to Childhood Hodgkin Lymphoma

An association study in JAMA Network Open uncovers risk variants within and beyond the human leukocyte antigen locus.

Transcriptomic, Epigenetic Study Appears to Explain Anti-Viral Effects of TB Vaccine

Researchers report in Science Advances on an interferon signature and long-term shifts in monocyte cell DNA methylation in Bacille Calmette-Guérin-vaccinated infant samples.