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Discovery Studio 1.7, SciTegic Pipeline Pilot 6.0, Geneious Pro 2.5, Phosida, Life Sciences Suite, Sisyphus, SPICE

Accelrys said this week that it will launch Discovery Studio 1.7 and SciTegic Pipeline Pilot 6.0 in December. The new version of Discovery Studio will include enhanced life science modeling and simulation functionality, including pharmacophore modeling and Perl scripting capabilities. It will also include new component collections for creating pharmacophore modeling and simulation workflows in Pipeline Pilot.
Pipeline Pilot 6.0, meantime, includes new functionality for image analysis and bioinformatics. It also enables users to create and run customized components that integrate web services using SOAP technology. The new imaging component will allow users to create protocols to process, analyze, and manipulate images from tissue staining, microscopy, bioluminescence, and high-content screening applications. Pipeline Pilot’s BioMining Component Collection for annotating biological data with both internal and external data sources complements the platform’s current Sequence Analysis Collection “by retrieving and aggregating the many publicly available sources of genomic information,” Accelrys said.

Biomatters has released Geneious Pro 2.5. New features include the capability to load, view, and edit full chromosomes or up to 10,000 HIV genomes; primer design and basic contig assembly; publication-quality image export; and interoperability with other tools like DNAStar’s Lasergene and Phrap.

The Max Planck Institute of Biochemistry has released Phosida, a phosphorylation site database, here. The database lists phosphorylation sites associated with particular projects and proteomes and also displays phosphorylation sites found for any protein or protein group of interest. The data is cross linked to information in SwissProt and the International Protein Index database.

Penguin Computing has released its Life Sciences Suite for Scyld ClusterWare HPC, a turnkey point-and-click package for managing life sciences research and applications from a single, web-accessible portal in a workstation environment. Applications in the Life Sciences Suite include Blast, mpiBlast, HMMer, Wise2, EMBOSS, ClustalW, Glimmer, MrBayes, Probcons, and T-Coffee. Scheduling and underlying cluster management is handled by Scyld ClusterWare HPC.

The University of Cambridge has released Sisyphus, a database of structural alignments for proteins with non-trivial relationships, here. The database contains manually curated multiple structural alignments that are organized into different alignment categories and connected by complex non-hierarchical inter-relationships. Alignment data are displayed via the SPICE browser.

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The Scan

And For Adolescents

The US Food and Drug Administration has authorized the Pfizer-BioNTech SARS-CoV-2 vaccine for children between the ages of 12 and 15 years old.

Also of Concern to WHO

The Wall Street Journal reports that the World Health Organization has classified the SARS-CoV-2 variant B.1.617 as a "variant of concern."

Test for Them All

The New York Times reports on the development of combined tests for SARS-CoV-2 and other viruses like influenza.

PNAS Papers on Oral Microbiome Evolution, Snake Toxins, Transcription Factor Binding

In PNAS this week: evolution of oral microbiomes among hominids, comparative genomic analysis of snake toxins, and more.