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GeNet 4.1, GeneSpring 6.1, InforSense Knowledge Discovery Environment 1.9, Lasergene, NCBI mouse build 32, HIC-Up, Cobra

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Silicon Genetics has released GeNet 4.1, which is compliant with the US FDA’s 21 CFR Part 11 regulations. New features include audit trails, security enhancements, electronic signatures, and implementation guidelines for archiving records and implementing standard operating procedures. The company also released GeneSpring 6.1, which includes support for MAGE-ML; principal component analysis on conditions; extended search, query, and synchronization facilities; and expanded access to pathway data. Trial versions of both GeNet and GeneSpring are available at http://www.silicongenetics.com.


InforSense has released InforSense Knowledge Discovery Environment 1.9, an updated version of its enterprise workflow automation platform formerly known as Kensington Discovery Edition. InforSense 1.9 includes wizards to guide the incorporation of external components and create analytical workflows.


DNAStar has released Lasergene 5.52 for Macintosh OS X and Lasergene 5.07 for Windows and Macintosh classic. The new versions include fixes for the inconsistent functionality caused by Microsoft’s security update KB824141 on machines running Windows XP, and corrections made to Lasergene 5.52 for Mac OS X to eliminate problems caused by the release of Macintosh’s OS 10.3 operating system. The new releases also include updated transcription factor data used by GeneQuest and supplied by the Institute for Transcriptional Informatics.


Data from NCBI mouse build 32, which includes 2.6 gigabases of finished sequence, is now available from the UCSC Genome Browser at http://genome.ucsc.edu and the Ensembl pre-release website at http://pre. ensembl.org/Mus_musculus. The UCSC assembly (mm4) contains only the reference strain C57BL/6J. The Ensembl pre-release includes DNA sequence, initial gene locations, repeatmasking and raw Blast hits on the assembly. The complete, annotated assembly will be released on the main Ensembl site in February 2004.


An updated version of HIC-Up (Hetero-compound Information Center, Uppsala) is available from the University of Uppsala at http://xray. bmc.uu.se/hicup/. The database now contains information on 4,511 (up from 4,199) small molecules from the Protein Data Bank.


The Cobra ontology-mapping tool, an ontology browser and editor of GO and OBO ontologies, is available from the Artificial Intelligence Applications Institute at the University of Edinburgh at http://www. xspan.org/applications/cobra/.

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The Scan

Myotonic Dystrophy Repeat Detected in Family Genome Sequencing Analysis

While sequencing individuals from a multi-generation family, researchers identified a myotonic dystrophy type 2-related short tandem repeat in the European Journal of Human Genetics.

TB Resistance Insights Gleaned From Genome Sequence, Antimicrobial Response Assays

Researchers in PLOS Biology explore M. tuberculosis resistance with a combination of sequencing and assays looking at the minimum inhibitory concentrations of 13 drugs.

Mendelian Disease Genes Prioritized Using Tissue-Specific Expression Clues

Mendelian gene candidates could be flagged for further functional analyses based on tissue-specific transcriptome and proteome profiles, a new Journal of Human Genetics paper says.

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.