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Next-generation tools are starting to proliferate for personalized genomic data analysis.
General resources:
Personalized cancer treatment
Startups/software:
Crossbow (UMD/College Park, MD): a scalable software pipeline for whole genome resequencing analysis. It combines Bowtie, an ultrafast and memory efficient short read aligner, and SoapSNP, an accurate genotyper, within Hadoop to distribute and accelerate the computation with many nodes. The pipeline can accurately analyze over 35x coverage of a human genome in one day on a 10-node local cluster, or in 3 hours for about $100 using a 40-node, 320-core cluster rented from Amazon's EC2 utility computing service. News article: Analyzing Human Genomes with Hadoop
DNA Guide (Sebastopol, CA): security, spatial analysis and distribution via enterprise software and cloud computing environment. Uses Geographic Information Systems technology to create a personal Map of the genome with all the chromosomes of a person with map layers added for sequence and SNP data. A coordinate system allows pannning and zooming functionality like Google Earth for the cell. At the zoom in level each individual DNA base pair is its own programmable graphic object. News article: DNA Guide presents live demo of personal genome management software using Geographic Information Systems at Health 2.0
DNAnexus (Palo Alto, CA): cloud computing bioinformatics. DNAnexus is a start-up in biocomputation aiming to transform the future of genomic analysis. The rapid advancement of DNA sequencing technologies will one day enable one of the holy grails of medicine: the personal genome. But it is also unleashing a torrent of data that needs to be managed and analyzed. DNAnexus is leveraging modern web technologies on a cloud computing infrastructure to create a compute platform for the genome era. DNAnexus is backed by a collection of leading investors, including early-stage VC First Round Capital ($1.55 m Series A round raised 8/3/09 primarily from First Round Capital) and comprises a team of individuals that include MIT alumni, Stanford PhDs in computational genomics, and Professors in Computer Science, Genetics, and Pathology (Andreas Sundquist, Serafim Batzoglou).
Genomera (Sunnyvale, CA): advanced personal genomics, personal social genomics for un-diagnosed and under-diagnosed diseases and conditions.