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New Products: May 17, 2011


Golden Helix has added two new methods for analyzing rare variants to its SNP & Variation Suite software package.

The methods — Combined Multivariate and Collapsing and Kernel Based Adaptive Cluster — were developed in Suzanne Leal's lab at Baylor College of Medicine and allow researchers to assess the combined effect of multiple independent rare and common sequence variants on disease phenotypes.

The National Center for Biotechnology Information has released version 47 of RefSeq, available here via FTP. The release includes genomic, transcript, and protein data available as of May 7, and includes 17,631,876 records, 12,625,466 proteins, 2,619,015 RNAs, and sequences from 12,000 different organisms. Human variation data now includes clinical and medically related variations. Additionally, the vertebrate group includes some non-coding RNA records for protein coding genes when the transcript is predicted to be subject to nonsense-mediated decay.

Convey Computer has launched its Convey GraphConstructor, software that speeds up bioinformatics algorithms used in de novo genome assembly, such as Velvet and Abyss. According to the company, the key to the software is its hybrid-core computing architecture of Intel x86 microprocessors and a field-programmable gate array-based coprocessor, which allows DNA sequence alignments and other applications to run directly in hardware.

The Scan

Transcriptomic, Epigenetic Study Appears to Explain Anti-Viral Effects of TB Vaccine

Researchers report in Science Advances on an interferon signature and long-term shifts in monocyte cell DNA methylation in Bacille Calmette-Guérin-vaccinated infant samples.

DNA Storage Method Taps Into Gene Editing Technology

With a dual-plasmid system informed by gene editing, researchers re-wrote DNA sequences in E. coli to store Charles Dickens prose over hundreds of generations, as they recount in Science Advances.

Researchers Model Microbiome Dynamics in Effort to Understand Chronic Human Conditions

Investigators demonstrate in PLOS Computational Biology a computational method for following microbiome dynamics in the absence of longitudinally collected samples.

New Study Highlights Role of Genetics in ADHD

Researchers report in Nature Genetics on differences in genetic architecture between ADHD affecting children versus ADHD that persists into adulthood or is diagnosed in adults.