bioinformatics

  • Upcoming Opus 23 In-Person Seminar

    Because of media obligations associated with the re-release of Dr. D’Adamo’s first book, there is a schedule conflict with the January 7-8 seminar date. The seminar will be rescheduled for a later date.  Please check back for further news and details.


    If you are even thinking about doing this sign up.Opus 23 has been a game changer for my patients who have had ‘mysterious’ problems that, after seeing many integrative practitioners, still were not better until Opus 23 ‘sang’ the perfect healing words. –Robert Lang, MD

    Dr. D’Adamo periodically does these for those practitioners who prefer a more hands-on approach to learning Opus 23 (vs. the wonderful 5 hour webinars done by Drs. Greenfield).

    Dr. D’Adamo writes:

    ‘Attendees work in 2-3 person pods under the direct supervision of one of my COE wunderkids. You also get a healthy dose of me lecturing on stuff: In this case a heavy focus on the new ‘Utopia’ module that allows you to mash up client genomic and microbiome data. Attendance is purposely kept to 10-12, to insure an intimate learning environment. You get lunch and I typically spring for dinner at a nice restaurant.’

    If you are interested in this type of hands-on training, contact Carol Agostino at carol@dadamo.com (203 761-0042) for full details.

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  • Psychic

    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 gene you’ve searched for. In addition PSYCHIC allows you to chose which type of natural products (agonists/ antagonists) to include in the upstream and downstream results.

    As seen above, when the PSYCHIC screen loads you will be presented with the results of the default search term for the current client, the MTOR gene. The main infographic is comprised of a bar graph divided into two halves. The left half displays the upstream results, while the right half displays the downstream results, based on MTOR’s position in the interactome. The labels along the x-axis display the various natural products and their gene targets PSYCHIC has found that meet the search criteria. The y-axis value of each bar in the graph is determined by the evidence basis and strength of the position in the network for the gene depicted.

    At the bottom is a small half-pie chart depicts the SNPs for that gene contained in the Opus 23 Pro database.

    psychic2

    You can set filters on each half of the graph to limit results to a specific type (agonism or antagonism) by selecting an option from the pull down menu below. There are four options:

    • Inhibit/ Drain: This will tell PSYCHIC to return all upstream antagonists and downstream agonists
    • Inhibit/ Bottleneck: This will tell PSYCHIC to return all upstream antagonists and downstream antagonists
    • Stimulate/Drain: This will tell PSYCHIC to return all upstream agonists and downstream agonists
    • Stimulate/ Bottleneck: This will tell PSYCHIC to return all upstream agonists and downstream antagonists

    To select a gene to run in PSYCHIC, simply begin typing in its gene symbol in the text input field; PSYCHIC will auto-complete the entry with any genes for which it has data. If multiple options are displayed, simply select the gene you wish to analyze.

    When you’re ready, press the ‘Run Psychic’ button to have PSYCHIC run results.

    PSYCHIC uses highcharts.js for its data depiction, the CPAN Perl module graph.pm for creating the abstract data structures, the PPI (protein-protein interactions) database, and Opus 23’s own internal agent/gene expression database of PubMed citations.

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