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ViaLogy Microarray Service, Oligo Microarray Database, UCSC Genome Browser, SwissProt, Trembl, NetAffx, Darwin

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Signal processing software firm ViaLogy has launched ViaLogy Microarray Service, a gene expression analysis product based on its Quantum Resonance Interferometry technology, which amplifies signals up to 10,000 times more than other methods. ViaLogy said it uses the technology to reprocess microarray data files from existing microarray instrumentation and databases “to provide sensitivity, specificity, and reproducibility unattainable by any other commercially available technology.” The service will be available online on a pay-per-use basis for glass slides and Affymetrix GeneChip arrays in mid-December.


Qiagen has updated its Oligo Microarray Database (OMAD), which contains information and current annotation about the company’s oligo sets, to include a search capability for Human and Mouse Genome Oligo Set version 3.0 at http://oligos.qiagen.com/arrays/omad.php. Human version 3.0 contains 34,580 70-mer probes, representing 24,650 genes and 37,123 gene transcripts; and Mouse version 3.0 contains 31,769 70-mer probes, representing 24,878 genes and 32,829 gene transcripts.


The University of California Santa Cruz Genome Bioinformatics group said last week that the UCSC Genome Browser is now providing daily and weekly incremental updates of mRNA, RefSeq, and EST data. Data sets that are currently updated incrementally from GenBank include the latest human (hg16), mouse (mm3), and rat (rn3). Fugu (fr1) will soon be added to the list.


Version 42.0 of SwissProt is now available from the European Bioinformatics Institute at http://www.ebi.ac.uk/swissprot/. The release contains 135,850 sequence entries and 50,046,799 amino acids for 8,294 different species.


EBI has also released version 25.0 of Trembl, which contains the translations of all coding sequences in the EMBL Nucleotide Sequence Database that are not yet integrated into SwissProt. Trembl 25.0 is available at http://www.ebi.ac.uk/trembl/index.html. It contains 1,017,041 entries and 315,518,202 amino acids.


New content has been added to Affymetrix’s NetAffx analysis center at http://www.affymetrix.com/analysis/index.affx. The site now includes annotations for the company’s new HG-U133 Plus 2.0 and HG-U133A 2.0 arrays, as well as data from Affy’s quarterly annotation update, including all databases, mappings, and downloadable files.


Version 3.0 of Darwin (Data Analysis and Retrieval With Indexed Nucleotide/Peptide Sequences), a molecular sequence analysis software suite and programming language, is available for Linux and Solaris from the Computational Biochemistry Research Group at ETH Zurich at http://cbrg.inf.ethz.ch/index.html. The package is free for registered users.

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