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NextGENe, QuickExtract, dbSNP Build 129

SoftGenetics has launched the NextGENe software suite for analyzing data from all second-generation sequencing systems. The software provides a Microsoft Windows interface and several applications, including de novo and target assembly, SNP and indel discovery, digital gene expression (DGE/SAGE) analysis, ChIPSeq, cDNA-based transcriptome analysis, and miRNA discovery and quantification. The software has been designed to operate on low-cost 64-bit desktop systems.

Epicentre has launched QuickExtract DNA and RNA kits for extracting nucleic acis from formalin-fixed paraffin-embedded tissues. The kits produce PCR-ready DNA and RT-PCR-ready RNA from these tissues. According to the company, the method can be completed in an hour for DNA and half an hour for RNA using no chemical solvents, spin columns, or tube transfers that could result in sample loss.

dbSNP Build 129 is now available for searching on the web. The release, found here, is mapped to a new Human 36.3 assembly called HuRef (Venter diploid genome) in addition to the NCBI reference and Celera assemblies.

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.