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New Products: Sep 27, 2011

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A Roche/NimbleGen official told In Sequence this week that the company is planning to launch SeqCap EZ Exome v3.0, a new version of its target-capture kit that will include an expanded target region covering more than 64 Mb of exons and miRNAs (see related story, this issue).

The current version of the platform covers 44 megabases, comprising only RefSeq regions of the genome.

Version 3.0 will also include gene annotations from Ensembl and VEGA, as well as updates from RefSeq, CCDS, and miRBase.

The company has not provided a launch date for SeqCap EZ Exome v3.0.


The European Bioinformatics Institute has released an updated version of the Velvet short-read assembly algorithm.

Velvet 1.1.06, available here, includes several bug fixes and other changes, including masked regions of Ns in the reference genome and an acceleration of the look-up table for large references.


CLC Bio and Biobase have launched a new plug-in for CLC Bio's Genomics Gateway framework for visualizing and analyzing genome data.

The free plug-in integrates Biobase's Genome Trax curated databases with CLC Bio's system.

Genome Trax includes more than 3,000 regulatory sites from Biobase's Transfac database, more than 80,000 disease-linked mutations from its HGMD Professional database, and more than 600,000 ChIP-seq fragments with binding site predictions, post translational modifications, and transcription start sites.


The Scan

Genome Sequences Reveal Range Mutations in Induced Pluripotent Stem Cells

Researchers in Nature Genetics detect somatic mutation variation across iPSCs generated from blood or skin fibroblast cell sources, along with selection for BCOR gene mutations.

Researchers Reprogram Plant Roots With Synthetic Genetic Circuit Strategy

Root gene expression was altered with the help of genetic circuits built around a series of synthetic transcriptional regulators in the Nicotiana benthamiana plant in a Science paper.

Infectious Disease Tracking Study Compares Genome Sequencing Approaches

Researchers in BMC Genomics see advantages for capture-based Illumina sequencing and amplicon-based sequencing on the Nanopore instrument, depending on the situation or samples available.

LINE-1 Linked to Premature Aging Conditions

Researchers report in Science Translational Medicine that the accumulation of LINE-1 RNA contributes to premature aging conditions and that symptoms can be improved by targeting them.