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Downloads & Upgrades: Oct 9, 2009


Illumina has launched IlluminaCompute, an integrated computing solution for its Genome Analyzer sequencing platform.

The product, which will be available next month, combines Illumina's sequencing software with Dell blade servers and modular storage from Isilon Systems.

The company said that IlluminaCompute can be customized for small sequencing facilities and also be extended for larger genome centers.

The system is delivered and supported by Illumina's Customer Solutions team and is "tuned specifically for a high-throughput sequence analysis workflow," the company said.

Illumina said that the system was developed and validated "in coordination with several leading genome centers, to optimize computing and storage technologies and deliver a truly flexible and high-quality product suitable for a wide range of customers."

The European Bioinformatics Institute has released a new version of EnsemblGenomes, which includes two new portals, Ensembl Plants and Ensembl Fungi.

Ensembl Fungi includes a new build of the Sacchromyces cerevisiae genome using the latest data from the SGD database, including variation data derived from the Saccharomyces Genome Resequencing Project. It also includes Ensembl databases for Schizosaccharomyces pombe and eight species of Aspergillus.

Ensembl Plants was built in collaboration with the Gramene database and includes the genomes of six monocots and two dicots.


Researchers at the Department of Genome Sciences at the University of Washington School of Medicine have released Skyline, a Windows client application for building selected reaction monitoring/multiple reaction monitoring methods and analyzing the resulting mass spectrometer data in proteomics studies.

According to the developers, Skyline can output transition lists for AB/Sciex, Agilent, Thermo Fisher Scientific, and Waters triple quadrupole mass spectrometers and can visualize and process the data from raw instrument files from these instruments.

It can also use peptide MS/MS spectrum libraries in BiblioSpec, TheGPM, and NIST formats and it can build spectrum libraries from "a number of common database search engines."

Source code is available as part of the ProteoWizard Project.

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.