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GeneSpring 5.1, GeNet 3.1., GeneSifter.Net, ProteinMine 1.5, GOBO


Silicon Genetics has released

GeneSpring 5.1

and GeNet 3.1. Among other new features, GeneSpring now includes a visual scripted editor that allows users to automate a series of analytical tasks using a set of drag-and-drop icons. The GeNet enterprise-scale gene expression data analysis and management system now offers automated data loading as well as a remote computation feature.

VizX Labs has released an upgrade to its GeneSifter.Net online microarray data analysis software ( New statistical analysis features include the Wilcoxon rank sum test, an adjustable p-value cutoff, and clustering compatibility. The upgrade also includes directories for managing large datasets. VizX has also added Gene Ontology designations, an export option, a link to the NCBI RefSeq collection, accessibility from scatter plots, and fruit fly and rat updates. The company said that the next upgrade to GeneSifter.Net, scheduled for April 1, would include additional GO and analytic enhancements, including LOWESS (Locally Weighted Scatterplot Smoothing) normalization techniques.

Image informatics firm Scimagix has released ProteinMine 1.5 for 2D electrophoresis gel analysis. Enhancements in the new version include improved spot detection; background subtraction methodology for enhanced quantitation; automatic image alignment and match table generation; flexible analysis tables for in-depth data mining using third-party software; and additional data normalization methods.

Gene Ontology spin-off GOBO (Global Open Biological Ontologies) has released two new ontologies via ftp at: The first, an ontology for biological image annotation, sample preparation, and visualization methods, was contributed by Kathy Matthews of the University of Indiana, Bloomington. The second, an anatomical/ temporal ontology for the zebrafish, comes from Erik Segerdell of the Zfin group at the University of Oregon.

Filed under

The Scan

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Study Points to Synonymous Mutation Effects on E. Coli Enzyme Activity

Researchers in Nature Chemistry saw signs of enzyme activity shifts in the presence of synonymous mutations in a multiscale modeling analysis of three Escherichia coli genes.

Team Outlines Paternal Sample-Free Single-Gene Approach for Non-Invasive Prenatal Screening

With data for nearly 9,200 pregnant individuals, researchers in Genetics in Medicine demonstrate the feasibility of their carrier screening and reflex single-gene non-invasive prenatal screening approach.

Germline-Targeting HIV Vaccine Shows Promise in Phase I Trial

A National Institutes of Health-led team reports in Science that a broadly neutralizing antibody HIV vaccine induced bnAb precursors in 97 percent of those given the vaccine.