{"id":235,"date":"2016-03-17T10:05:12","date_gmt":"2016-03-17T14:05:12","guid":{"rendered":"http:\/\/datapunk.net\/opus23blog\/?p=235"},"modified":"2021-05-12T09:12:46","modified_gmt":"2021-05-12T13:12:46","slug":"a-roster-of-opus-23-algorithms","status":"publish","type":"post","link":"https:\/\/datapunk.net\/opus23blog\/2016\/03\/17\/a-roster-of-opus-23-algorithms\/","title":{"rendered":"A Roster of Opus 23 Algorithms"},"content":{"rendered":"<p>This is a current list of the multi-snp algorithms currently available in Opus 23. A few titles repeat, for the simple reason that two different algorithms, using different snps or genes, can result in a similar conclusion. &nbsp;Algorithms can be quite complex: it is not uncommon for one algorithm to call another algorithm as part of its execution. <a href=\"http:\/\/datapunk.net\/opus23blog\/2015\/12\/11\/multi-snp-algorithms\/\">Algorithms are discussed in the blog post describing&nbsp;the Opus 23 LUMEN app.<\/a><\/p>\n<p>&nbsp;<\/p>\n<p>Classic Genetics<\/p>\n<ul>\n<li>AB blood group<\/li>\n<li>Blood Type O<\/li>\n<li>A blood group (genotype AO)<\/li>\n<li>A blood group (genotype AA)<\/li>\n<li>A1\/A2 blood group<\/li>\n<li>B blood group (genotype BO)<\/li>\n<li>B blood group (genotype BB)<\/li>\n<li>Rhesus (Rh) blood group<\/li>\n<li>Secretor<\/li>\n<li>Non Secretor<\/li>\n<li>Slight PTC Taster<\/li>\n<li>PTC Non-Taster<\/li>\n<li>Kell K\/k blood group carrier<\/li>\n<li>Duffy blood group positive (Fy+\/+) \/ higher total WBC count<\/li>\n<li>Possible Yu-Zhi (YZ) constitution<\/li>\n<li>Odor perception for \u03b2-ionone<\/li>\n<\/ul>\n<p>Neurodegenerative Disease<\/p>\n<ul>\n<li>Prediction of enhanced hippocampal volume<\/li>\n<li>APOE E3\/E3 genotype<\/li>\n<li>Probably APOE E2\/E4 genotype, Possibly E1\/E3<\/li>\n<li>APOE E2\/E4 Genotype<\/li>\n<li>APOE E4\/E4 genotype<\/li>\n<li>APOE E4\/- genotype<\/li>\n<li>APOE E3\/E4 genotype<\/li>\n<li>Bi-carrier of the minor alleles of rs1049296 and rs1800562<\/li>\n<li>APOE E1\/E1 Genotype<\/li>\n<li>APOE E2\/E2 Genotype<\/li>\n<li>APOE E2\/E3 Genotype<\/li>\n<li>GAB2 rs2373115 (CC) and rs1800562 with APOE E4<\/li>\n<li>GAB2 rs75932628(TT) Substitution<\/li>\n<li>One short form 5-HTTLPR<\/li>\n<li>Two long form 5-HTTLPR<\/li>\n<li>Increased risk of Parkinson&#8217;s Disease<\/li>\n<li>Decreased risk of Parkinson&#8217;s Disease<\/li>\n<li>Increased risk of Parkinson&#8217;s Disease<\/li>\n<li>Risk of autism related syndrome<\/li>\n<li>Risk of autism related syndrome<\/li>\n<li>Increased risk of autism\/ social communication issues<\/li>\n<li>Risk of autism related syndrome<\/li>\n<li>Risk of autism related syndrome<\/li>\n<li>Increased risk of Alzheimer&#8217;s Disease<\/li>\n<li>Decreased risk of Alzheimer&#8217;s disease<\/li>\n<li>Early-onset Alzheimer&#8217;s Disease risk<\/li>\n<li>Elevated brain and cerebrospinal fluid concentrations of kynurenic acid<\/li>\n<li>Lower levels of Indoleamine 2,3-dioxygenase (IDO1) activity<\/li>\n<\/ul>\n<p>Mind\/ Body<\/p>\n<ul>\n<li>Dopamine beta hydroxylase levels<\/li>\n<li>Heightened placebo effect<\/li>\n<li>Oxytocin &#8216;loner\/ social empath&#8217; polymorphism<\/li>\n<li>Decreased risk of Alzheimer&#8217;s disease<\/li>\n<li>Increased risk of bipolar disorder<\/li>\n<li>Impaired motor skills learning<\/li>\n<li>Increased risk of high cortisol levels when under stress<\/li>\n<li>Lower levels of platelet MAO<\/li>\n<li>D2 receptor DRD2 A1\/A2 polymorphism<\/li>\n<li>For Hispanics, 9 times more likely to develop heroin addiction ; risk of bi-polar issues<\/li>\n<li>Increased risk for panic disorder (1.7x more likely)<\/li>\n<li>Risk and intensity of functional somatic syndromes (CFS, FM)<\/li>\n<li>Normal pain sensitivity<\/li>\n<li>Variance in &#8216;self-referential&#8217; processing in the brain<\/li>\n<li>Higher &#8216;g&#8217; score (general cognitive ability)<\/li>\n<li>Increased &#8216;process reward&#8217; from staring at smiling faces<\/li>\n<\/ul>\n<p>Methylation<\/p>\n<ul>\n<li>MTHFR Polymorphisms Affecting Enzyme Activity<\/li>\n<li>Risk of asthma, ADHD and Parkinson&#8217;s disease from high histamine<\/li>\n<li>Epistatic subtle variants in COMT activity and pain sensitivity<\/li>\n<li>Higher B12 Levels<\/li>\n<li>Approximately\u200b 50% reduction \u200bin tetrahydrobiopterin (BH4) production and total biopterins<\/li>\n<li>Risk of methyl trapping from high-dose\/ premature methylation supplementation<\/li>\n<\/ul>\n<p>Auto-Immune\/ Inflammatory<\/p>\n<ul>\n<li>&#8216;Outside-in&#8217; versus &#8216;inside-out&#8217; genesis of atopic dermatitis.<\/li>\n<li>Significant autoimmune disorder risk (HLA-DRA)<\/li>\n<li>Moderate autoimmune disorder risk (HLA-DRA)<\/li>\n<li>Increase risk of rheumatoid arthritis<\/li>\n<li>Decreased soluble adhesion factors<\/li>\n<li>Risk of autoimmune disorder\/ gluten sensitivity<\/li>\n<li>Risk of autoimmune disorder\/ gluten sensitivity<\/li>\n<li>Lower disorder\/ gluten sensitivity risk (HLA-DQA1)<\/li>\n<li>C-Reactive Protein Genotypes, Nutritional Status and Inflammation<\/li>\n<li>Increased risk of allergic asthma<\/li>\n<li>HLA genotypes and haplotypes<\/li>\n<li>Increased risk of Crohn&#8217;s disease<\/li>\n<li>Reduced risk (0.26) of Crohn&#8217;s disease and ulcerative colitis<\/li>\n<li>Risk of Crohn&#8217;s disease<\/li>\n<li>Increased risk of cluster headaches<\/li>\n<li>Increased risk of migraine without aura<\/li>\n<li>Increased headache frequency\/use of analgesics medication<\/li>\n<li>Increased risk of several autoimmune diseases<\/li>\n<li>Increased risk of chronic fatigue syndrome<\/li>\n<li>Slightly higher risk (1.17) of atopic dermatitis<\/li>\n<li>Normal susceptibility to development of childhood asthma<\/li>\n<li>Significantly increased risk several autoimmune diseases<\/li>\n<li>Increased risk of rheumatoid arthritis<\/li>\n<\/ul>\n<p>Diet and Lifestyle<\/p>\n<ul>\n<li>Effects of TP53\/ high fat diet on Type 2 diabetes and obesity<\/li>\n<li>Any type of exercise results in weight loss<\/li>\n<li>High energy exercise required for weight loss<\/li>\n<li>Balanced diet works best<\/li>\n<li>Benefits from low-fat diet<\/li>\n<li>Problematic effects from high fat diet<\/li>\n<li>Benefits from low-carb diet<\/li>\n<li>Novelty-seeking behavior<\/li>\n<li>Possible high pain sensitivity<\/li>\n<li>Possible low pain sensitivity<\/li>\n<li>CYP1A2 &#8216;slow metabolizer&#8217; Caffeine sensitivity<\/li>\n<li>Ethanol biodisposition<\/li>\n<li>Slower response to the effects of alcohol<\/li>\n<li>Normal\/increased rate of aging, reduced risk of dementia<\/li>\n<li>Increased risk of nicotine addiction\/ depression and loneliness in men<\/li>\n<li>Sun sensitivity: No freckles and tans<\/li>\n<\/ul>\n<p>Digestion<\/p>\n<ul>\n<li>Increased risk of diarrhea-predominant irritable bowel syndrome in women<\/li>\n<li>Increased risk of diarrhea-predominant irritable bowel syndrome<\/li>\n<li>Blood group B non-secretor: Increased risk of pancreatitis and high lipase levels<\/li>\n<\/ul>\n<p>Female Health<\/p>\n<ul>\n<li>10x higher risk for endometriosis, 0.5x lower risk for endometrial cancer, 0.76x less cognitive impairment with age<\/li>\n<li>Evidence of earlier onset of menarche\/ breast development<\/li>\n<li>Decreased risk of hypertensive disorder complicating pregnancy<\/li>\n<\/ul>\n<p>Male Health<\/p>\n<ul>\n<li>Severe risk of testicular germ cell tumors<\/li>\n<li>Significantly increased risk of male pattern baldness<\/li>\n<\/ul>\n<p>Aging Related<\/p>\n<ul>\n<li>Multi-gene Evidence of Longevity<\/li>\n<li>30-40% increase in MnSOD activity in mitochondria<\/li>\n<li>Age related macular degeneration<\/li>\n<li>AMD\/ antioxidant response genotype group 1<\/li>\n<li>Increased risk of developing osteoarthritis<\/li>\n<li>Bone mineral density<\/li>\n<li>Reduced memory abilities<\/li>\n<li>Effect of FOXO3 and CFH polymorphisms on longevity<\/li>\n<li>Possibly increased longevity; increased risk of colorectal cancer<\/li>\n<li>Increased lifespan, better response to chemotherapy<\/li>\n<li>Significantly younger, healthier kidney function<\/li>\n<li>No increased likelihood of Fuchs&#8217; dystrophy<\/li>\n<\/ul>\n<p>Endocrine Related<\/p>\n<ul>\n<li>Possible corticosteroid resistance\/ high cortisol syndrome<\/li>\n<li>SHBG Levels affecting serum testosterone<\/li>\n<\/ul>\n<p>Hereditary Metabolic<\/p>\n<ul>\n<li>Serum vitamin D levels<\/li>\n<li>Increased risk of elevated uric acid levels and gout<\/li>\n<li>Hereditary Hemochromatosis<\/li>\n<li>Increased risk of Alpha-1 Antitrypsin Deficiency<\/li>\n<li>Lower levels of tetrahydrobiopterin<\/li>\n<li>Reduced conversion of beta-carotene to retinol<\/li>\n<li>Low carotenoid conversion\/ Low macular pigment optical density<\/li>\n<li>Probably lactose tolerant<\/li>\n<li>Probably lactose intolerant<\/li>\n<li>Significantly Increased risk of Type II Diabetes<\/li>\n<li>Lower circulating levels of adiponectin<\/li>\n<li>Single HLA-DQ8 haplotype: Significant risk of Type I Diabetes<\/li>\n<li>Mild trimethylaminuria<\/li>\n<li>Increased hypersensitivity response to non-steroidal anti-inflammatory drugs<\/li>\n<li>Reduced obesity and type 2 diabetes risk<\/li>\n<li>Increased risk of metabolic syndrome\/ consequences<\/li>\n<li>Lowered risk of obesity<\/li>\n<li>Increase risk of obesity<\/li>\n<li>Wet earwax\/ normal body odor\/ normal colostrum<\/li>\n<li>Increased risk (1.74) of gout<\/li>\n<li>Significantly lower arachidonic acid and linoleic acid levels and higher interleukin (IL)-6 levels<\/li>\n<li>Increased risk of T2DM from decreased capacity to scavenge ROS<\/li>\n<li>Increased risk of elevated uric acid levels and gout<\/li>\n<li>Increased risk of primary biliary cirrhosis<\/li>\n<li>Lower serum levels of vitamin B12<\/li>\n<li>Higher serum levels of vitamin B12<\/li>\n<li>Lower serum levels of magnesium<\/li>\n<\/ul>\n<p>Resistance\/ Immunity<\/p>\n<ul>\n<li>Increased risk of Candida carriage<\/li>\n<li>Increased risk of human papillomavirus persistence<\/li>\n<li>Resistance to Norwalk norovirus infection<\/li>\n<li>Increased risk of heightened inflammatory response\/ antibiotic-refractory Lyme arthritis<\/li>\n<\/ul>\n<p>Musculo-skeletal<\/p>\n<ul>\n<li>Training spectrum and traits indicative of elite athlete status<\/li>\n<li>Increased musculoskeletal pain from fibromyalgia and temporomandibular disorders<\/li>\n<li>Lower risk of lumbar disc disease<\/li>\n<li>Increased risk of muscle cramps upon exertion<\/li>\n<\/ul>\n<p>Cardiology<\/p>\n<ul>\n<li>Risk of venous thromboembolism<\/li>\n<li>Lower heart attack risk (59%) than average<\/li>\n<li>Decreased blood pressure levels<\/li>\n<li>300% increased risk of venous thrombosis<\/li>\n<li>Lower risk (35%) of a heart attack or cardiovascular incident<\/li>\n<li>Risk of myocardial infarction<\/li>\n<li>Increased risk of Atrial Fibrillation<\/li>\n<li>Risk of myocardial infarction and aspirin resistance<\/li>\n<li>Higher blood viscosity potential<\/li>\n<li>Ratios of TC\/HDL and LDL\/HDL probably benefit from skimmed milk<\/li>\n<li>Lower HDL levels<\/li>\n<li>Celera GRS: Reduced risk of coronary artery disease.<\/li>\n<li>Increased risk of hypertension, but better response to therapy<\/li>\n<li>Decreased risk (0.78) of heart attack<\/li>\n<li>Aneurysms, both brain and abdominal aortic<\/li>\n<li>Risk of salt-sensitive hypertension<\/li>\n<li>Ten fold higher risk for heart disease in hereditary hemochromatosis patients with SOD2 mutation<\/li>\n<\/ul>\n<p>Oncology<\/p>\n<ul>\n<li>Adiponectin intermediate signaler<\/li>\n<li>Increased risk of ER+ breast cancer<\/li>\n<li>Significantly increased risk of breast cancer<\/li>\n<li>Adiponectin low signaler<\/li>\n<li>Progesterone receptor gene PROGINS haplotype<\/li>\n<li>Evidence of decreased risk of ovarian cancer<\/li>\n<li>Increased risk of thyroid cancer<\/li>\n<li>Increased risk of skin cancer<\/li>\n<li>Decreased risk of skin cancer<\/li>\n<li>Significantly increased risk of prostate cancer<\/li>\n<li>Increased risk of prostate cancer<\/li>\n<li>Increased risk of prostate cancer<\/li>\n<li>Increased susceptibility and worsened outcome in malignant melanoma<\/li>\n<li>Increased surveillance for colorectal cancer recommended<\/li>\n<li>Lower risk of oral and upper digestive cancer<\/li>\n<li>Risk hereditary Breast\/ Ovarian \/ Prostate Cancer Syndrome<\/li>\n<li>Increased risk of various types of cancer<\/li>\n<li>Increased risk of colorectal cancer<\/li>\n<li>Decreased risk of &#8220;upper aerodigestive&#8221; cancers<\/li>\n<li>Substantially increased odds of developing V617F-positive MPN<\/li>\n<li>Slightly increased risk of colon cancer<\/li>\n<li>Increased risk of rectal bleeding after radiation therapy for prostate cancer<\/li>\n<li>Increased risk of &#8216;chemobrain&#8217;<\/li>\n<\/ul>\n<p>Detoxification<\/p>\n<ul>\n<li>CYP2D6*8 double reduced metabolism<\/li>\n<li>CYP2C9 poor metabolizer<\/li>\n<li>Pseudocholinesterase deficiency<\/li>\n<li>CYP2D6*7 double reduced metabolism<\/li>\n<li>CYP2D6*41 decreased metabolism<\/li>\n<li>CYP3A5 non-expressor<\/li>\n<li>CYP2C19 Extensive or Ultra-Fast Metabolizer<\/li>\n<li>CYP2D6*6A reduced metabolism<\/li>\n<li>CYP2D6*6A poor metabolizer<\/li>\n<li>CYP1A2 fast metabolizer<\/li>\n<li>CYP2D6*8 reduced metabolism<\/li>\n<li>CYP2D6*8 poor metabolizer<\/li>\n<li>CYP2D6*10 reduced metabolism<\/li>\n<li>CYP2D6*10 poor metabolizer<\/li>\n<li>CYP2D6*9 double reduced metabolism<\/li>\n<li>CYP2D6*2 normal metabolism<\/li>\n<li>CYP2C9 Intermediate Metabolizer<\/li>\n<li>NAT2 Slow Metabolizer<\/li>\n<li>NAT2 Intermediate Metabolizer<\/li>\n<li>NAT2 Rapid Metabolizer<\/li>\n<li>CYP2C19 normal\/rapid metabolizer<\/li>\n<li>CYP2D6*39 Normal Metabolizer<\/li>\n<li>Possible CYP3A5 non-expressor<\/li>\n<li>GSTM1 &#8216;Null&#8217; Genotype<\/li>\n<\/ul>\n<p>Pharmacogenomics<\/p>\n<ul>\n<li>Preferred form(s) of B12 supplementation<\/li>\n<li>Adverse response to inhalers (Advair, Ventolin, Albuterol)<\/li>\n<li>Decreased response to chemotherapy<\/li>\n<li>Lower chemoresistance to anticancer drugs mitoxantrone, methotrexate, doxorubicin and camptothecin-based anticancer drugs<\/li>\n<li>Adverse response to chemotherapy [neutropenia\/leucopenia] from 5-fluorouracil<\/li>\n<li>Increased chemoresistance to anticancer drugs mitoxantrone, methotrexate, doxorubicin and camptothecin-based anticancer drugs<\/li>\n<li>Breast cancer chemotherapy: risk of hematological and gastrointestinal toxicities<\/li>\n<li>Gefinitib takers more susceptible (4.0) to diarrhea<\/li>\n<li>Increased toxicity to methotrexate<\/li>\n<li>Gastric cancer: better response to chemotherapy<\/li>\n<li>Increased risk of toxicity in cancer patients receiving 5-fluorouracil chemotherapy<\/li>\n<li>Poor warfarin metabolizer<\/li>\n<li>Intermediate warfarin metabolizer<\/li>\n<li>Abnormal statin metabolizer<\/li>\n<li>Favorable response to statin therapy likely<\/li>\n<li>Impaired NSAID drug metabolism<\/li>\n<li>No benefit from bupropion treatment for smoking cessation<\/li>\n<li>Poor metabolism of proton pump inhibitor drugs<\/li>\n<li>Poor metabolism\/ adverse effects risk from clopidogrel (Plavix)<\/li>\n<li>Less benefit from cyclophosphamide therapy in breast cancer<\/li>\n<\/ul>\n<p>Algorithms are added to Opus 23 fairly regularly and we suspect this will continue well into the future.<\/p>\n<p>&#8220;An algorithm must be seen to be believed.&#8221;&nbsp;&#8211;Donald Knuth<\/p>\n<a class=\"synved-social-button synved-social-button-share synved-social-size-24 synved-social-resolution-single synved-social-provider-facebook nolightbox\" data-provider=\"facebook\" target=\"_blank\" rel=\"nofollow\" title=\"Share on Facebook\" href=\"https:\/\/www.facebook.com\/sharer.php?u=https%3A%2F%2Fdatapunk.net%2Fopus23blog%2Fwp-json%2Fwp%2Fv2%2Fposts%2F235&#038;t=A%20Roster%20of%20Opus%2023%20Algorithms&#038;s=100&#038;p&#091;url&#093;=https%3A%2F%2Fdatapunk.net%2Fopus23blog%2Fwp-json%2Fwp%2Fv2%2Fposts%2F235&#038;p&#091;images&#093;&#091;0&#093;=https%3A%2F%2Fdatapunk.net%2Fopus23blog%2Fwp-content%2Fuploads%2F2021%2F01%2Fopus23-message.png&#038;p&#091;title&#093;=A%20Roster%20of%20Opus%2023%20Algorithms\" style=\"font-size: 0px;width:24px;height:24px;margin:0;margin-bottom:5px;margin-right:5px\"><img loading=\"lazy\" decoding=\"async\" alt=\"Facebook\" title=\"Share on Facebook\" class=\"synved-share-image synved-social-image synved-social-image-share\" 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A few titles repeat, for the simple reason that two different algorithms, using different snps or genes, can result in a similar conclusion. &nbsp;Algorithms can be quite complex: it is not uncommon for one algorithm to [&hellip;]<\/p>\n","protected":false},"author":1,"featured_media":919,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[4,3,9],"tags":[],"class_list":["post-235","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-apps","category-curation","category-design"],"aioseo_notices":[],"_links":{"self":[{"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/posts\/235","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/comments?post=235"}],"version-history":[{"count":6,"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/posts\/235\/revisions"}],"predecessor-version":[{"id":938,"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/posts\/235\/revisions\/938"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/media\/919"}],"wp:attachment":[{"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/media?parent=235"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/categories?post=235"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/datapunk.net\/opus23blog\/wp-json\/wp\/v2\/tags?post=235"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}