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Linux Networx, NSF and NIH, Pyrosequencing

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Boehringer Opts for Linux Networx Cluster

Linux Networx of Salt Lake City said last week that Boehringer Ingelheim Pharmaceuticals is installing a 120-processor Linux NetworX Evolocity cluster in its Ridgefield, Conn., laboratory.

Dave Craska, lead systems engineer for Boehringer Ingelheim Pharmaceuticals, said the software provided by Linux Networx as part of the installation, “helps alleviate the complexities of cluster management, especially when upgrading and propagating new releases of software.”

The company’s Evolocity system includes 120 Pentium III 866 MHz processors, 50 GB of memory, an Intel 10/100 NIC connection and ClusterWorX cluster management software.

 NIH, NSF Offer Bioinformatics Summer School

The NSF and NIH are collaborating on a joint program to help train tomorrow’s bioinformaticists. The NIH-NSF Bioengineering and Bioinformatics Summer Institutes Program (BBSI), announced last week, will support “Summer Institutes” for students majoring in the biological sciences, computer sciences, engineering, mathematics, and physical sciences.

BBSI will offer “interdisciplinary bioengineering or bioinformatics research and education experiences,” according to the program description, available at www.nsf.gov/pubs/2002/nsf02109/nsf02109.htm.

 Pyrosequencing Puts XML to Work

With the recent release of its PSQ 96MA sequence analysis system, Pyrosequencing of Uppsala, Sweden, has also debuted a new XML format it developed for data handling. The format, PDEX (Pyrosequencing Data Exchange), is based on the standard XML format and will be available for Pyrosequencing customers at its web site (www.pyrosequencing.com) this month.

According to the company, the format speeds data import and export for its SNP and sequence analysis software. PDEX documents can be transformed into other XML formats or other text-based formats such as tab-delimited or FASTA. They can also be transformed to HTML for presentation in web browsers, the company said.

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The Scan

Study Follows Consequences of Early Confirmatory Trials for Accelerated Approval Indications

Time to traditional approval or withdrawal was shorter when confirmatory trials started prior to accelerated approval, though overall regulatory outcomes remained similar, a JAMA study finds.

Sequencing Study Leads to Vaccine Target in Bacteria Behind Neonatal Meningitis

Researchers eBioMedicine track down potential vaccine targets with transposon sequencing on mutant bacteria causing neonatal meningitis in mouse models of the disease.

Multiple Myeloma Progression Influenced by Immune Microenvironment Expression

Researchers in NPJ Genomic Medicine compare RNA sequencing profiles of 102,207 individual cells in bone marrow samples from 18 individuals with rapid or non-progressing multiple myeloma.

Self-Reported Hearing Loss in Older Adults Begins Very Early in Life, Study Says

A JAMA Otolaryngology — Head & Neck Surgery study says polygenic risk scores associated with hearing loss in older adults is also associated with hearing decline in younger groups.