The Opus 23 genetic interpretation software [1] checks for ABH secretor status as part of the hereditary genetics algorithms. Knowing whether your client is a secretor or non-secretor is important for many reasons, one being that non-secretors have increased levels of serum vitamin B12. This is a well known association: at […]
The recent change in the reporting done by 23andMe from the V4 to V5 chip has thrown things into a bit of a dither. The earlier V4 SNP array was more robust, at least with SNPs of interest to those who work in nutrigenomics. For example, V4 reported over ten […]
23andMe currently reports over 600,000 SNPs in the genome explorer, which are analyzed by their custom 2014 v4 chip. The process used is genotyping, rather than sequencing. The former is cheaper and quicker, and targets specific parts of the genome that are known to have variants in some or many people; the latter […]
Opus 23 provides many unique opportunities for data integration and visualization. One app that I’ve just been added to the Opus toolbox is STROBE, a new Opus analytic app that allows you drill-down client genomic data by organ, tissue or cell distribution. To do this Opus mashes up its own […]
The Opus 23 PSYCHIC app allows you to search for natural products known to control gene expression. However, unlike a simple search engine, PSYCHIC is able to crawl up and down the molecular ‘Interactome’ (protein-protein interactions and gene expression data) to determine the upstream and downstream genes that interact with […]
The Agency app in Opus 23 takes pharmacogenomics to the next level. Relying on the extensive Opus 23 database of published research detailing gene expression data linked to natural products, Agency provides a visual representation of their interactions web. Multiple agents can be displayed, allowing the clinician to synthesis multi-target […]
SuperMogadon is a highly flexible search and sort tool that allows you to easily compare the client’s genotype with results from Genome Wide Association Studies* (GWAS) through the Opus 23 Pro database. As you can see there are over 50+ pages of GWAS data in SuperMogadon, which would make grinding […]
Initially, I was very excited about the prospect of allowing the import of ancestry.com DNA data into Opus 23. After all, they use the same Illumina technology as 23andMe (although 23andMe apparently have their own unique chip.) Initial testing was promising. Like 23andMe, Ancestry supplies raw data in a basic […]
There has been an explosion of interest in the microbiome. Outfits such as uBiome has made it relatively inexpensive and easy to have your microbiome profiled. These services extract the bacterial DNA out of the sample and identify each of the bacteria that the DNA came from. There appear to […]
Like most of my coding projects Opus 23 Pro is written primarily in the Perl scripting language. Perl handles most of the basic server-side functions (like disk reading, etc) and sends its output out to the browser via HTML, Javascript, etc. Perl is widely used in bioinformatics, and has been […]
