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Phenyx, GENSAT, RefSeq8, NCBI Map Viewer, Dymension, FlyBase, Argo, CDMS, DMS

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Geneva Bioinformatics has released a 30-day trial version of Phenyx, its software platform for the identification of proteins and peptides from mass spectrometry data. Both the trial and the full versions of the software are available at http://www.phenyx-ms.com/downloads/downloads.html.


The National Center for Biotechnology Information has announced several resource updates: The GENSAT (Gene Expression Nervous System Atlas) database has been incorporated into the Entrez system (http://www.ncbi.nlm.nih.gov/projects/gensat/); RefSeq8 is available (at ftp://ftp.ncbi.nih.gov/refseq/release/), and includes 1,218,266 proteins and sequences from 2,645 organisms; build 1, version 1 of the Pan troglodytes (chimpanzee) genome is now available from the NCBI Map Viewer (at http://www.ncbi.nlm.nih.gov/mapview/map_search.cgi?taxid=9598); and Ciona savignyi (sea squirt) has been added to UniGene (at http://www.ncbi.nlm.nih.gov/entrez/ query.fcgi?db=unigene).


Syngene has launched Dymension, a 2D gel software package that can analyze a typical 2D gel image “in seconds,” according to the company. Dymension also includes a new spot-finding algorithm that enables minimal post-editing.


The FlyBase Drosophila genome database has recently released Drosophila melanogaster (Dmel) 4.0 and Drosophila pseudoobscura (Dpse) 1.0 at ftp://flybase.net/genomes/Drosophila_melanogaster/current/ and ftp://flybase.net/genomes/Drosophila_pseudoobscura/current/. The Dmel release includes 13,472 genes among a total of 1,330,192 curated, matched and predicted features. The Dpse release includes 12,197 predicted genes with orthologous matches to Dmel genes, among 228,876 total genomic features.


The Broad Institute has released Argo, the genome browser for the Calhoun annotation system, at http://www.broad.mit.edu/annotation/argo. Argo, a Java application for manually annotating whole genomes, was developed for Broad Institute researchers analyzing the human genome.


Biotrue has released CDMS (Collaborative Data Management System), a software system for capturing, storing, managing and retrieving biomedical research data. The company said that CDMS differs from other data management products, such as LIMS, because it can handle data “from virtually any type of instrument, and, as a Web-enabled application, facilitates easy and secure collaboration within and across laboratories.”


iAdvantage Software has released DMS (Data Management System), a web-basedsoftware product for collecting and reporting life science data. The DMS platform comprises three components: Design and Management; Web Data Collector; and Document Generator.

Filed under

The Scan

Just Breathing

A new analysis suggests that most Mycobacterium tuberculosis is spread by aerosols from breathing, rather than by coughing, the New York Times reports.

Just Like This One

NPR reports that the World Health Organization has hired a South African biotech company to recreate mRNA vaccine for SARS-CoV-2 that is similar to the one developed by Moderna.

Slow Start

The Wall Street Journal reports that Biogen's Alzheimer's disease treatment had revenues for July through September that totaled $300,000.

Genome Research Papers on Cancer Chromatin, Splicing in the Thymus, Circular RNAs in Cancer

In Genome Research this week: analysis of bivalent chromatin sites, RBFOX splicing factors' role in thymic epithelial cells, and more.