--
--


SELECT pg_catalog.set_config('search_path', '', false);

--
-- Name: cpic; Type: SCHEMA; Schema: -; Owner: -
--

CREATE SCHEMA cpic;


--
-- Name: increment_version(); Type: FUNCTION; Schema: cpic; Owner: -
--

CREATE FUNCTION cpic.increment_version() RETURNS trigger
    LANGUAGE plpgsql
    AS $$
BEGIN
  new.version := new.version + 1;
  return new;
END;
$$;


--
-- Name: pharmgkb_guideline_alleles(text); Type: FUNCTION; Schema: cpic; Owner: -
--

CREATE FUNCTION cpic.pharmgkb_guideline_alleles(pharmgkbdrugid text) RETURNS TABLE(genesymbol text, chr text, lookupmethod text, alleles text[])
    LANGUAGE sql STABLE
    AS $$
select
    a.genesymbol,
    g.chr,
    g.lookupmethod,
    array_agg(distinct a.name order by a.name) as alleles
from allele a join gene g on a.genesymbol=g.symbol
where
    a.clinicalfunctionalstatus is not null
    and g.lookupmethod!='ALLELE_STATUS'
    and a.genesymbol in (
        select distinct jsonb_object_keys(p.lookupkey) as genes
        from recommendation p join guideline g on p.guidelineid = g.id join drug d on p.drugid=d.drugid
        where d.pharmgkbid=pharmgkbdrugid
    )
group by a.genesymbol, g.chr, g.lookupmethod
union all
select
    g.symbol as genesymbol,
    g.chr,
    g.lookupmethod,
    array_agg(distinct a.value order by a.value) as alleles
from
    recommendation r
    join drug d on r.drugid = d.drugid,
    jsonb_each_text(r.lookupkey) a
    join gene g on (a.key=g.symbol)
where
    r.allelestatus is not null
    and g.lookupmethod='ALLELE_STATUS'
    and d.pharmgkbid=pharmgkbdrugid
    and upper(a.value) != 'NO RESULT'
group by g.symbol, g.chr, g.lookupmethod
$$;


--
-- Name: FUNCTION pharmgkb_guideline_alleles(pharmgkbdrugid text); Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON FUNCTION cpic.pharmgkb_guideline_alleles(pharmgkbdrugid text) IS 'For a given PharmGKB drug ID, list the alleles that are options for looking up recommendations';


--
-- Name: pharmgkb_guideline_recommendation(text, text); Type: FUNCTION; Schema: cpic; Owner: -
--

CREATE FUNCTION cpic.pharmgkb_guideline_recommendation(drugidarg text, lookupkeyarg text) RETURNS TABLE(drugname text, recommendationid integer, implications jsonb, drugrecommendation text, classification text, phenotypes jsonb, activityscore jsonb, allelestatus jsonb, population text, comments text)
    LANGUAGE sql STABLE
    AS $$
select
    d.name as drugname,
    r.id as recommendationid,
    r.implications,
    r.drugrecommendation,
    r.classification,
    r.phenotypes,
    r.activityscore,
    r.allelestatus,
    r.population,
    r.comments
from recommendation r join drug d on r.drugid = d.drugid join guideline g on r.guidelineid = g.id
where lookupkey <@ (
    select jsonb_object_agg(a.key, coalesce(d.lookupkey -> a.key, a.value)) as lookup
    from
        json_each(lookupkeyArg::json) a
            left join diplotype d on (d.diplotypekey=jsonb_build_object(a.key, a.value))
)
  and d.pharmgkbid=drugidArg
$$;


--
-- Name: FUNCTION pharmgkb_guideline_recommendation(drugidarg text, lookupkeyarg text); Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON FUNCTION cpic.pharmgkb_guideline_recommendation(drugidarg text, lookupkeyarg text) IS 'For a given PharmGKB guideline and genotype lookup JSON key, give the matching recommendations';


--
-- Name: pharmgkb_recommendation(text); Type: FUNCTION; Schema: cpic; Owner: -
--

CREATE FUNCTION cpic.pharmgkb_recommendation(lookupkeyarg text) RETURNS TABLE(drugname text, drugid text, recommendationid integer, implications jsonb, drugrecommendation text, classification text, phenotypes jsonb, activityscore jsonb, allelestatus jsonb, population text, comments text, guidelineurl text)
    LANGUAGE sql STABLE
    AS $$
select
    d.name as drugname,
    d.pharmgkbid as drugid,
    r.id as recommendationid,
    r.implications,
    r.drugrecommendation,
    r.classification,
    r.phenotypes,
    r.activityscore,
    r.allelestatus,
    r.population,
    r.comments,
    g.url as guidelineurl
from recommendation r join drug d on r.drugid = d.drugid join guideline g on r.guidelineid = g.id
where lookupkey <@ (
    select jsonb_object_agg(a.key, coalesce(d.lookupkey -> a.key, a.value)) as lookup
    from
        json_each(lookupKeyArg::json) a
            left join diplotype d on (d.diplotypekey=jsonb_build_object(a.key, a.value))
)
$$;


--
-- Name: FUNCTION pharmgkb_recommendation(lookupkeyarg text); Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON FUNCTION cpic.pharmgkb_recommendation(lookupkeyarg text) IS 'For a given genotype lookup JSON key, give the matching recommendations for all available drugs';


--
-- Name: cpic_id; Type: SEQUENCE; Schema: cpic; Owner: -
--

CREATE SEQUENCE cpic.cpic_id
    START WITH 110000
    INCREMENT BY 1
    NO MINVALUE
    NO MAXVALUE
    CACHE 1;




--
-- Name: drug; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.drug (
    drugid character varying(20) NOT NULL,
    name text NOT NULL,
    pharmgkbid character varying(20),
    rxnormid character varying(20),
    drugbankid character varying(20),
    atcid text[],
    umlscui character varying(20),
    flowchart text,
    version integer DEFAULT 1,
    guidelineid integer
);


--
-- Name: TABLE drug; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.drug IS 'A clinically-used drug.';


--
-- Name: COLUMN drug.drugid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.drug.drugid IS 'A unique identifier for this drug in the form "source:id" where source is some outside knowledge resource and id is their identifier, primary key';


--
-- Name: COLUMN drug.name; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.drug.name IS 'The generic name for this drug, lower-cased, required';


--
-- Name: COLUMN drug.pharmgkbid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.drug.pharmgkbid IS 'The PharmGKB ID for this drug, optional';


--
-- Name: COLUMN drug.rxnormid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.drug.rxnormid IS 'The RxNorm ID for this drug, optional';


--
-- Name: COLUMN drug.drugbankid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.drug.drugbankid IS 'The DrugBank ID for this drug, optional';


--
-- Name: COLUMN drug.atcid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.drug.atcid IS 'One or more ATC IDs for this drug in an array, optional';


--
-- Name: COLUMN drug.umlscui; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.drug.umlscui IS 'The UMLS Concept Unique ID for this drug, optional';


--
-- Name: COLUMN drug.flowchart; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.drug.flowchart IS 'URL for the flow chart image of this drug';


--
-- Name: COLUMN drug.guidelineid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.drug.guidelineid IS 'The guideline this drug is part of a guideline, null means not a part of any guideline';


--
-- Name: guideline; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.guideline (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    version integer DEFAULT 1,
    name text NOT NULL,
    url text,
    pharmgkbid text[],
    genes text[],
    notesonusage text,
    clinpgxid text
);


--
-- Name: TABLE guideline; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.guideline IS 'A guideline for a drug or group of drugs';


--
-- Name: COLUMN guideline.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline.id IS 'A synthetic numerical ID, primary key';


--
-- Name: COLUMN guideline.version; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline.version IS 'The version number, iterates on modification';


--
-- Name: COLUMN guideline.name; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline.name IS 'The name (title) of this guideline, required';


--
-- Name: COLUMN guideline.url; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline.url IS 'The URL of this guideline on the cpicpgx.org domain, optional';


--
-- Name: COLUMN guideline.pharmgkbid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline.pharmgkbid IS 'The IDs from PharmGKB for their annotations of this guideline, optional';


--
-- Name: COLUMN guideline.genes; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline.genes IS 'The subject genes of this guideline';


--
-- Name: COLUMN guideline.notesonusage; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline.notesonusage IS 'Notes about using a particular guideline within this system. This may include. You may find information here when data for a guideline seems missing or incomplete.';


--
-- Name: COLUMN guideline.clinpgxid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline.clinpgxid IS 'The accession ID in ClinPGx for the guideline';


--
-- Name: recommendation; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.recommendation (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    guidelineid integer,
    drugid character varying(20),
    implications jsonb,
    drugrecommendation text,
    classification character varying(20),
    phenotypes jsonb,
    activityscore jsonb,
    allelestatus jsonb,
    lookupkey jsonb,
    population text,
    comments text,
    version integer DEFAULT 1,
    dosinginformation boolean DEFAULT false,
    alternatedrugavailable boolean DEFAULT false,
    otherprescribingguidance boolean DEFAULT false
);


--
-- Name: TABLE recommendation; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.recommendation IS 'Recommendations for a gene result pulled from a guideline';


--
-- Name: COLUMN recommendation.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN recommendation.guidelineid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.guidelineid IS 'The guideline this recommendation appears in';


--
-- Name: COLUMN recommendation.drugid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.drugid IS 'The drug this recommendation is for';


--
-- Name: COLUMN recommendation.implications; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.implications IS 'Implications for phenotypic measures, this is a JSON mapping of gene to implication';


--
-- Name: COLUMN recommendation.drugrecommendation; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.drugrecommendation IS 'Dosing or therapeutic recommendations, depending on particular drug';


--
-- Name: COLUMN recommendation.classification; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.classification IS 'Classification of recommendations, described in supplementary meterial';


--
-- Name: COLUMN recommendation.phenotypes; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.phenotypes IS 'Phenotypes that this recommendation applies to, this is a JSON mapping of gene to phenotype';


--
-- Name: COLUMN recommendation.activityscore; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.activityscore IS 'Activity score that this recommendation applies to, this is a JSON mapping of gene to score value';


--
-- Name: COLUMN recommendation.allelestatus; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.allelestatus IS 'Whether or not an allele is present, used mainly for HLA genes, and used for recommendation lookups. This is a JSON mapping of gene to allele status (positive/negative)';


--
-- Name: COLUMN recommendation.lookupkey; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.lookupkey IS 'A key to use for finding a specific recommendation. Made of a JSON object of gene symbol to key value. The key value can be one of phenotype, activity score, or allele status depending on the gene.';


--
-- Name: COLUMN recommendation.population; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.population IS 'The population this recommendation is applicable to';


--
-- Name: COLUMN recommendation.comments; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.comments IS 'Optional comments about the recommendation';


--
-- Name: COLUMN recommendation.dosinginformation; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.dosinginformation IS 'The guideline recommends a dose adjustment based on genetic variants or phenotypes (e.g. "poor metabolizers") as a primary course of action. However, the guideline may also describe extenuating circumstances where this action is not appropriate.';


--
-- Name: COLUMN recommendation.alternatedrugavailable; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.alternatedrugavailable IS 'The guideline recommends that an alternate drug be selected for patients based on genetic variants or phenotypes (e.g. "poor metabolizers") as a primary course of action. However, the guideline may also describe extenuating circumstances where this action is not appropriate.';


--
-- Name: COLUMN recommendation.otherprescribingguidance; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.recommendation.otherprescribingguidance IS 'The guideline and other prescribing guidance not described as either dose adjustment or alternate drug.';


--
-- Name: recommendation_view; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.recommendation_view AS
 SELECT r.id AS recommendationid,
    r.lookupkey,
    d.name AS drugname,
    g.name AS guidelinename,
    g.url AS guidelineurl,
    r.implications,
    r.drugrecommendation,
    r.classification,
    r.phenotypes,
    r.activityscore,
    r.population,
    r.comments
   FROM ((cpic.recommendation r
     JOIN cpic.drug d ON (((r.drugid)::text = (d.drugid)::text)))
     JOIN cpic.guideline g ON ((r.guidelineid = g.id)));


--
-- Name: VIEW recommendation_view; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON VIEW cpic.recommendation_view IS 'A view to help find recommendation data when querying by the lookupKey';


--
-- Name: recommendation_lookup(text); Type: FUNCTION; Schema: cpic; Owner: -
--

CREATE FUNCTION cpic.recommendation_lookup(diplotypelookup text) RETURNS SETOF cpic.recommendation_view
    LANGUAGE sql STABLE SECURITY DEFINER
    AS $$
select * from cpic.recommendation_view where lookupkey <@ (
    select jsonb_object_agg(key, value) as lookupkey
    from (select lookupkey from cpic.diplotype where diplotypekey <@ diplotypelookup::jsonb) x,
        json_each(x.lookupkey)
)
$$;


--
-- Name: FUNCTION recommendation_lookup(diplotypelookup text); Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON FUNCTION cpic.recommendation_lookup(diplotypelookup text) IS 'This function helps translate diplotypes into recommendation data. This relies on the recommendation_view to gather and filter relevant information. The diplotypelookup parameter is a JSON object of gene symbol to JSON allele representation.';


--
-- Name: test_alert; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.test_alert (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    population text,
    cdscontext text NOT NULL,
    genes text[],
    phenotype jsonb,
    activityscore jsonb,
    allelestatus jsonb,
    lookupkey jsonb,
    drugid character varying(20),
    alerttext text[] NOT NULL,
    version integer DEFAULT 1
);


--
-- Name: TABLE test_alert; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.test_alert IS 'Example CDS test alert language';


--
-- Name: COLUMN test_alert.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.id IS 'A synthetic numerical ID, primary key';


--
-- Name: COLUMN test_alert.population; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.population IS 'The population this test alert is applicable to: general, adult, pediatrics, unspecified';


--
-- Name: COLUMN test_alert.cdscontext; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.cdscontext IS 'This should be either "Pre-test", "Post-test" or "No CDS". This field is non-null';


--
-- Name: COLUMN test_alert.genes; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.genes IS 'One or more genes this test alert uses for trigger conditions';


--
-- Name: COLUMN test_alert.phenotype; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.phenotype IS 'A JSON object of gene symbol keys to phenotype description';


--
-- Name: COLUMN test_alert.activityscore; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.activityscore IS 'A JSON object of gene symbol keys to gene activity score';


--
-- Name: COLUMN test_alert.allelestatus; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.allelestatus IS 'Whether or not an allele is present, used mainly for HLA genes. This is a JSON mapping of gene to allele status (positive/negative)';


--
-- Name: COLUMN test_alert.lookupkey; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.lookupkey IS 'A key to use for finding a specific test alert. Made of a JSON object of gene symbol to key value. The key value can be one of phenotype, activity score, or allele status depending on the gene.';


--
-- Name: COLUMN test_alert.drugid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.drugid IS 'The ID of a drug this alert text is for';


--
-- Name: COLUMN test_alert.alerttext; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.test_alert.alerttext IS 'An array of one or more pieces of alert text';


--
-- Name: test_alert_view; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.test_alert_view AS
 SELECT t.id AS testalertid,
    t.lookupkey,
    d.name AS drugname,
    t.population,
    t.alerttext,
    t.cdscontext
   FROM (cpic.test_alert t
     JOIN cpic.drug d ON (((t.drugid)::text = (d.drugid)::text)));


--
-- Name: VIEW test_alert_view; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON VIEW cpic.test_alert_view IS 'A view to help find test alert data when querying by the lookupKey';


--
-- Name: test_alert_lookup(text); Type: FUNCTION; Schema: cpic; Owner: -
--

CREATE FUNCTION cpic.test_alert_lookup(lookup text) RETURNS SETOF cpic.test_alert_view
    LANGUAGE sql STABLE SECURITY DEFINER
    AS $$
select * from cpic.test_alert_view where lookupkey <@ (
    select jsonb_object_agg(key, value) as lookupkey
    from (select lookupkey from cpic.diplotype where diplotypekey <@ lookup::jsonb) x,
        json_each(x.lookupkey)
)
$$;


--
-- Name: FUNCTION test_alert_lookup(lookup text); Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON FUNCTION cpic.test_alert_lookup(lookup text) IS 'This function helps translate diplotypes into test alert data. This relies on the test_alert_view to gather and filter relevant information. The lookup parameter is a JSON object of gene symbol to JSON allele representation.';


--
-- Name: allele; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.allele (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    version integer DEFAULT 1,
    genesymbol character varying(50) NOT NULL,
    name text NOT NULL,
    functionalstatus text,
    clinicalfunctionalstatus text,
    clinicalfunctionalsubstrate text,
    activityvalue character varying(50),
    definitionid integer NOT NULL,
    citations text[],
    strength text,
    functioncomments text,
    findings text,
    frequency jsonb,
    inferredfrequency boolean DEFAULT false
);


--
-- Name: TABLE allele; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.allele IS 'An allele of a gene';


--
-- Name: COLUMN allele.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN allele.version; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.version IS 'The version number, iterates on modification';


--
-- Name: COLUMN allele.genesymbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.genesymbol IS 'The HGNC symbol of the gene the allele is for, required';


--
-- Name: COLUMN allele.name; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.name IS 'The name of this allele, required';


--
-- Name: COLUMN allele.functionalstatus; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.functionalstatus IS 'The functional phenotype of this allele';


--
-- Name: COLUMN allele.clinicalfunctionalstatus; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.clinicalfunctionalstatus IS 'The functional phenotype of this allele used for clinical systems';


--
-- Name: COLUMN allele.clinicalfunctionalsubstrate; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.clinicalfunctionalsubstrate IS 'Allele clinical function substrate specificity, optional';


--
-- Name: COLUMN allele.activityvalue; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.activityvalue IS 'Descriptor of activity score, optional';


--
-- Name: COLUMN allele.definitionid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.definitionid IS 'The reference to the definition for this allele';


--
-- Name: COLUMN allele.citations; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.citations IS 'An array of PubMed IDs use as citations for this functional assignment';


--
-- Name: COLUMN allele.strength; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.strength IS 'The strength of evidence';


--
-- Name: COLUMN allele.functioncomments; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.functioncomments IS 'Comments this functional assignment of this allele';


--
-- Name: COLUMN allele.inferredfrequency; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele.inferredfrequency IS 'Indicates (with "true") that the frequencies for this allele have been inferred by an algorithm that aggregates the frequencies for other alleles of this gene and is not based on direct data, defaults to false, should only be 1 per gene';


--
-- Name: allele_definition; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.allele_definition (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    version integer DEFAULT 1,
    genesymbol character varying(50) NOT NULL,
    name text NOT NULL,
    pharmvarid character varying(50),
    matchesreferencesequence boolean DEFAULT false,
    structuralvariation boolean DEFAULT false
);


--
-- Name: TABLE allele_definition; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.allele_definition IS 'The definition for an allele of a gene';


--
-- Name: COLUMN allele_definition.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_definition.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN allele_definition.genesymbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_definition.genesymbol IS 'The HGNC symbol of the gene the allele is for, required';


--
-- Name: COLUMN allele_definition.name; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_definition.name IS 'The name of this allele, required';


--
-- Name: COLUMN allele_definition.pharmvarid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_definition.pharmvarid IS 'The PharmVar core allele ID for this allele';


--
-- Name: COLUMN allele_definition.matchesreferencesequence; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_definition.matchesreferencesequence IS 'Indicates (with "true") the variants that define the named allele will match the reference sequence for the gene, defaults to false, should only be 1 per gene';


--
-- Name: COLUMN allele_definition.structuralvariation; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_definition.structuralvariation IS 'Indicates whether this allele definition is a structural variant, default is false. If true, look in the pharmvarid field for the PharmVar ID that defines the structural variation.';


--
-- Name: allele_frequency; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.allele_frequency (
    alleleid integer NOT NULL,
    population integer NOT NULL,
    frequency numeric,
    label text,
    version integer DEFAULT 1
);


--
-- Name: TABLE allele_frequency; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.allele_frequency IS 'A frequency observation for a particular allele in a particular population';


--
-- Name: COLUMN allele_frequency.alleleid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_frequency.alleleid IS 'The ID of the allele for this observation';


--
-- Name: COLUMN allele_frequency.population; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_frequency.population IS 'The ID of the population for this observation';


--
-- Name: COLUMN allele_frequency.frequency; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_frequency.frequency IS 'The numeric representation of this frequency';


--
-- Name: COLUMN allele_frequency.label; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_frequency.label IS 'The textual label for this frequency, "-" means no observation made';


--
-- Name: COLUMN allele_frequency.version; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_frequency.version IS 'The version number, iterates on modification';


--
-- Name: pair; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.pair (
    pairid integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    genesymbol character varying(20),
    drugid character varying(20),
    guidelineid integer,
    usedforrecommendation boolean DEFAULT false,
    version integer DEFAULT 1,
    cpiclevel character varying(5) NOT NULL,
    pgkbcalevel character varying(5),
    pgxtesting text,
    citations text[],
    removed boolean DEFAULT false,
    removeddate date,
    removedreason text,
    CONSTRAINT valid_cpiclevel_check CHECK (((cpiclevel)::text = ANY (ARRAY[('A'::character varying)::text, ('A/B'::character varying)::text, ('B'::character varying)::text, ('B/C'::character varying)::text, ('C'::character varying)::text, ('C/D'::character varying)::text, ('D'::character varying)::text]))),
    CONSTRAINT valid_pgkblevel_check CHECK (((pgkbcalevel)::text = ANY (ARRAY[('1A'::character varying)::text, ('1B'::character varying)::text, ('2A'::character varying)::text, ('2B'::character varying)::text, ('3'::character varying)::text, ('4'::character varying)::text]))),
    CONSTRAINT valid_pmids CHECK ((array_to_string(citations, ''::text) ~ '\d+'::text)),
    CONSTRAINT valid_used_check CHECK (((NOT usedforrecommendation) OR (guidelineid IS NOT NULL)))
);


--
-- Name: TABLE pair; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.pair IS 'A pair of a gene and a drug that is notable to CPIC';


--
-- Name: COLUMN pair.pairid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.pairid IS 'A synthetic numerical id, automatically assigned, primary key';


--
-- Name: COLUMN pair.genesymbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.genesymbol IS 'The HGNC symbol of the gene in this pair, required';


--
-- Name: COLUMN pair.drugid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.drugid IS 'The ID of the drug in this pair, required';


--
-- Name: COLUMN pair.guidelineid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.guidelineid IS 'The ID of a guideline this pair is described in, optional';


--
-- Name: COLUMN pair.usedforrecommendation; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.usedforrecommendation IS 'Whether the gene is used for recommendation lookup for the drug if this pair is part of a guideline, default false';


--
-- Name: COLUMN pair.version; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.version IS 'The version number, iterates on modification';


--
-- Name: COLUMN pair.cpiclevel; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.cpiclevel IS 'The CPIC level of this pair, required';


--
-- Name: COLUMN pair.pgkbcalevel; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.pgkbcalevel IS 'The top level of PharmGKB Clinical Annotation for this pair, optional';


--
-- Name: COLUMN pair.pgxtesting; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.pgxtesting IS 'The top level of PGx testing recommendation from PharmGKB label annotations, optional';


--
-- Name: COLUMN pair.citations; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.citations IS 'The PMID citations in an array for this pair, optional';


--
-- Name: COLUMN pair.removed; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.removed IS 'Has this pair been "removed", eg is no longer a valid pair, default false';


--
-- Name: COLUMN pair.removeddate; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.removeddate IS 'If removed, when was this pair "removed"';


--
-- Name: COLUMN pair.removedreason; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair.removedreason IS 'If removed, why was this pair "removed"';


--
-- Name: allele_guideline_view; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.allele_guideline_view AS
 SELECT DISTINCT a.genesymbol,
    a.name AS allele_name,
    g.name AS guideline_name,
    g.url AS guideline_url
   FROM ((cpic.allele a
     JOIN cpic.pair p ON (((a.genesymbol)::text = (p.genesymbol)::text)))
     JOIN cpic.guideline g ON ((g.id = p.guidelineid)))
  WHERE (a.clinicalfunctionalstatus IS NOT NULL);


--
-- Name: VIEW allele_guideline_view; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON VIEW cpic.allele_guideline_view IS 'A combination of alleles and the guidelines they appear in';


--
-- Name: COLUMN allele_guideline_view.genesymbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_guideline_view.genesymbol IS 'The HGNC symbol of the gene';


--
-- Name: COLUMN allele_guideline_view.allele_name; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_guideline_view.allele_name IS 'The name of the allele';


--
-- Name: COLUMN allele_guideline_view.guideline_name; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_guideline_view.guideline_name IS 'The name of the guideline this allele appears in';


--
-- Name: COLUMN allele_guideline_view.guideline_url; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_guideline_view.guideline_url IS 'The URL to the guideline';


--
-- Name: allele_location_value; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.allele_location_value (
    alleledefinitionid integer NOT NULL,
    locationid integer NOT NULL,
    variantallele text NOT NULL,
    version integer DEFAULT 1
);


--
-- Name: TABLE allele_location_value; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.allele_location_value IS 'The change at a specific location for a specific allele';


--
-- Name: COLUMN allele_location_value.alleledefinitionid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_location_value.alleledefinitionid IS 'The reference to the allele this variant is on';


--
-- Name: COLUMN allele_location_value.locationid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_location_value.locationid IS 'The reference to the location this variant is for';


--
-- Name: COLUMN allele_location_value.variantallele; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_location_value.variantallele IS 'The allele of this location for the allele';


--
-- Name: COLUMN allele_location_value.version; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.allele_location_value.version IS 'The version number, iterates on modification';


--
-- Name: change_log; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.change_log (
    date date NOT NULL,
    type text NOT NULL,
    entityid text,
    note text NOT NULL,
    version integer DEFAULT 1,
    deployedrelease text
);


--
-- Name: TABLE change_log; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.change_log IS 'A dated freeform text description of a change made to a type of information and optionally for a specific entity';


--
-- Name: COLUMN change_log.date; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.change_log.date IS 'The date the log note is applicable';


--
-- Name: COLUMN change_log.type; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.change_log.type IS 'The type of data this log message is about';


--
-- Name: COLUMN change_log.entityid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.change_log.entityid IS 'Optional, the specific entity this note is about. For example, could be a gene symbol or drug ID';


--
-- Name: COLUMN change_log.note; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.change_log.note IS 'The freeform text note about what the change was';


--
-- Name: COLUMN change_log.version; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.change_log.version IS 'The version number, iterates on modification';


--
-- Name: COLUMN change_log.deployedrelease; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.change_log.deployedrelease IS 'The release this change was deployed with';


--
-- Name: gene; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.gene (
    symbol character varying(20) NOT NULL,
    chr character varying(20),
    genesequenceid text,
    proteinsequenceid text,
    chromosequenceid text,
    mrnasequenceid text,
    hgncid text,
    ncbiid text,
    ensemblid text,
    pharmgkbid text,
    frequencymethods text,
    lookupmethod text DEFAULT 'PHENOTYPE'::text,
    version integer DEFAULT 1,
    notesondiplotype text,
    url text,
    functionmethods text,
    notesonallelenaming text,
    includephenotypefrequencies boolean DEFAULT true NOT NULL,
    includediplotypefrequencies boolean DEFAULT true NOT NULL,
    CONSTRAINT gene_chr_check CHECK (((chr)::text ~ '^chr\S+$'::text)),
    CONSTRAINT gene_chromosequenceid_check CHECK ((chromosequenceid ~ '^(NC_\S+)?$'::text)),
    CONSTRAINT gene_ensemblid_check CHECK ((ensemblid ~ '^(ENSG\d+)?$'::text)),
    CONSTRAINT gene_genesequenceid_check CHECK ((genesequenceid ~ '^(NG_\S+)?$'::text)),
    CONSTRAINT gene_hgncid_check CHECK ((hgncid ~ '^(HGNC:\d+)?$'::text)),
    CONSTRAINT gene_mrnasequenceid_check CHECK ((mrnasequenceid ~ '^(NM_\S+)?$'::text)),
    CONSTRAINT gene_pharmgkbid_check CHECK ((pharmgkbid ~ '^(PA\d+)?$'::text)),
    CONSTRAINT gene_proteinsequenceid_check CHECK ((proteinsequenceid ~ '^(NP_\S+)?$'::text))
);


--
-- Name: TABLE gene; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.gene IS 'Gene information with a primary key of the approved HGNC symbol for the gene. This means any gene used in the table must be approved by HGNC.';


--
-- Name: COLUMN gene.symbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.symbol IS 'Approved HGNC symbol, primary key.';


--
-- Name: COLUMN gene.chr; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.chr IS 'Chromosome symbol. In the form chr##, where ## is the number or X/Y.';


--
-- Name: COLUMN gene.genesequenceid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.genesequenceid IS 'The RefSeq ID for the sequence that represents this gene, starts with "NG_". No version suffix.';


--
-- Name: COLUMN gene.proteinsequenceid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.proteinsequenceid IS 'The RefSeq ID for the sequence that represents the protein product of this gene, starts with "NP_". No version suffix.';


--
-- Name: COLUMN gene.chromosequenceid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.chromosequenceid IS 'The RefSeq ID for the sequence that represents the chromosome this gene is on, starts with "NC_". No version suffix.';


--
-- Name: COLUMN gene.mrnasequenceid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.mrnasequenceid IS 'The RefSeq ID for the sequence that represents the translation of this gene, starts with "NM_". No version suffix.';


--
-- Name: COLUMN gene.hgncid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.hgncid IS 'The HGNC numerical ID number for this gene prefixed by "HGNC:"';


--
-- Name: COLUMN gene.ncbiid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.ncbiid IS 'The NCBI Gene (Entrez) ID number for this gene';


--
-- Name: COLUMN gene.ensemblid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.ensemblid IS 'The Ensembl ID for this gene';


--
-- Name: COLUMN gene.pharmgkbid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.pharmgkbid IS 'The ID for this gene in PharmGKB.';


--
-- Name: COLUMN gene.frequencymethods; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.frequencymethods IS 'Text documentation of the methods and caveats for allele frequency data';


--
-- Name: COLUMN gene.lookupmethod; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.lookupmethod IS 'The way to lookup information about diplotypes of this gene, should use ACTIVITY_SCORE, PHENOTYPE, or ALLELE_STATUS';


--
-- Name: COLUMN gene.notesondiplotype; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.notesondiplotype IS 'Optional notes about the diplotypes of the gene';


--
-- Name: COLUMN gene.includephenotypefrequencies; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.includephenotypefrequencies IS 'if allele frequencies exist for this gene, whether to calculate and display phenotype-level frequencies. a true value does not imply existence frequency data';


--
-- Name: COLUMN gene.includediplotypefrequencies; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene.includediplotypefrequencies IS 'if allele frequencies exist for this gene, whether to calculate and display diplotype-level frequencies. a true value does not imply existence frequency data';


--
-- Name: change_log_view; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.change_log_view AS
 WITH x AS (
         SELECT gene.symbol AS entityid,
            gene.symbol AS entityname
           FROM cpic.gene
        UNION ALL
         SELECT drug.drugid AS entityid,
            drug.name AS entityname
           FROM cpic.drug
        )
 SELECT l.date,
    l.type,
    x.entityname,
    l.note,
    l.deployedrelease
   FROM (cpic.change_log l
     LEFT JOIN x ON ((l.entityid = (x.entityid)::text)));


--
-- Name: VIEW change_log_view; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON VIEW cpic.change_log_view IS 'This view of the change_log table add the entity name to make it more readable';


--
-- Name: gene_result; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.gene_result (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    genesymbol character varying(50) NOT NULL,
    result text NOT NULL,
    activityscore text,
    ehrpriority text,
    consultationtext text,
    version integer DEFAULT 1,
    frequency jsonb
);


--
-- Name: TABLE gene_result; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.gene_result IS 'Possible phenotype values for a gene. The gene + phenotype + activity score should be unique.';


--
-- Name: COLUMN gene_result.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN gene_result.genesymbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result.genesymbol IS 'The HGNC symbol of the gene in this pair, required';


--
-- Name: COLUMN gene_result.result; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result.result IS 'The result for a gene, can either be a phenotype or "allele status" depending on the lookup method for the gene (see lookupMethod in gene table), required';


--
-- Name: COLUMN gene_result.activityscore; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result.activityscore IS 'Activity score, optional';


--
-- Name: COLUMN gene_result.ehrpriority; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result.ehrpriority IS 'EHR Priority Result, optional';


--
-- Name: COLUMN gene_result.consultationtext; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result.consultationtext IS 'Consultation (Interpretation) Text Provided with Test Result';


--
-- Name: COLUMN gene_result.frequency; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result.frequency IS 'JSON map of frequencies for this gene result with keys being biogeographical groups';


--
-- Name: gene_result_diplotype; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.gene_result_diplotype (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    functionphenotypeid integer NOT NULL,
    diplotype text NOT NULL,
    diplotypekey jsonb NOT NULL,
    frequency jsonb
);


--
-- Name: TABLE gene_result_diplotype; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.gene_result_diplotype IS 'Specific diplotypes that are associated with a gene result. This table is a child of gene_result_lookup and distantly of gene_result';


--
-- Name: COLUMN gene_result_diplotype.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_diplotype.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN gene_result_diplotype.functionphenotypeid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_diplotype.functionphenotypeid IS 'An ID referencing a gene_result_lookup record, required';


--
-- Name: COLUMN gene_result_diplotype.diplotype; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_diplotype.diplotype IS 'A diplotype for the gene in the form Allele1/Allele2, required';


--
-- Name: COLUMN gene_result_diplotype.diplotypekey; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_diplotype.diplotypekey IS 'A normalized JSON version of the diplotype for use in lookups. Should be an object with the allele names as properties and the counts as the values. Required';


--
-- Name: gene_result_lookup; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.gene_result_lookup (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    phenotypeid integer NOT NULL,
    lookupkey jsonb NOT NULL,
    function1 text,
    function2 text,
    activityvalue1 text,
    activityvalue2 text,
    totalactivityscore text,
    description text
);


--
-- Name: TABLE gene_result_lookup; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.gene_result_lookup IS 'Gene descriptions that, when combined, link to a gene result. This table is a child of gene_result.';


--
-- Name: COLUMN gene_result_lookup.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_lookup.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN gene_result_lookup.phenotypeid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_lookup.phenotypeid IS 'An ID referencing the gene_result this is associated with, required';


--
-- Name: COLUMN gene_result_lookup.lookupkey; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_lookup.lookupkey IS 'A normalized JSON format of the data used to lookup a diplotype. The keys of this field are either the functions, activity scores, or allele statuses depending on what the gene requires. Required.';


--
-- Name: COLUMN gene_result_lookup.function1; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_lookup.function1 IS 'The first allele function';


--
-- Name: COLUMN gene_result_lookup.function2; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_lookup.function2 IS 'The second allele function';


--
-- Name: COLUMN gene_result_lookup.activityvalue1; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_lookup.activityvalue1 IS 'The activity score for the first allele function';


--
-- Name: COLUMN gene_result_lookup.activityvalue2; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_lookup.activityvalue2 IS 'The activity score for the second allele function';


--
-- Name: COLUMN gene_result_lookup.totalactivityscore; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_lookup.totalactivityscore IS 'The sum activity score for the functions';


--
-- Name: COLUMN gene_result_lookup.description; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.gene_result_lookup.description IS 'A description of the diplotypes associated with this phenotype';


--
-- Name: diplotype; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.diplotype AS
 SELECT gp.genesymbol,
    d.diplotype,
    pf.function1,
    pf.function2,
    pf.activityvalue1,
    pf.activityvalue2,
    pf.totalactivityscore,
    pf.description,
    d.diplotypekey,
    gp.result AS generesult,
    gp.ehrpriority,
    gp.consultationtext,
    json_build_object(gp.genesymbol,
        CASE
            WHEN (g.lookupmethod = 'ACTIVITY_SCORE'::text) THEN pf.totalactivityscore
            ELSE gp.result
        END) AS lookupkey
   FROM (((cpic.gene_result_diplotype d
     JOIN cpic.gene_result_lookup pf ON ((d.functionphenotypeid = pf.id)))
     JOIN cpic.gene_result gp ON ((pf.phenotypeid = gp.id)))
     JOIN cpic.gene g ON (((gp.genesymbol)::text = (g.symbol)::text)));


--
-- Name: VIEW diplotype; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON VIEW cpic.diplotype IS 'A combination of gene_result and gene_result_diplotype that allows you to easily query by diplotype and see the phenotype-related data for it';


--
-- Name: COLUMN diplotype.genesymbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.genesymbol IS 'The HGNC symbol of the gene in this pair, required';


--
-- Name: COLUMN diplotype.diplotype; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.diplotype IS 'A diplotype for the gene in the form Allele1/Allele2, required';


--
-- Name: COLUMN diplotype.function1; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.function1 IS 'A functional assignment of one of the alleles, optional';


--
-- Name: COLUMN diplotype.function2; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.function2 IS 'A functional assignment of one of the alleles, optional';


--
-- Name: COLUMN diplotype.activityvalue1; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.activityvalue1 IS 'An activity value assignment of one of the alleles, optional';


--
-- Name: COLUMN diplotype.activityvalue2; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.activityvalue2 IS 'An activity value assignment of one of the alleles, optional';


--
-- Name: COLUMN diplotype.totalactivityscore; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.totalactivityscore IS 'The total Activity Score number, optional';


--
-- Name: COLUMN diplotype.description; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.description IS 'The long-form description of the diplotype';


--
-- Name: COLUMN diplotype.diplotypekey; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.diplotypekey IS 'A normalized version of the diplotype that can be used for DB lookups';


--
-- Name: COLUMN diplotype.generesult; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.generesult IS 'The result for a gene, can either be a phenotype or "allele status" depending on the lookup method for the gene (see lookupMethod in gene table), required';


--
-- Name: COLUMN diplotype.lookupkey; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.diplotype.lookupkey IS 'A normalized version of the gene phenotype that can be used for recommendation or test alert lookup';


--
-- Name: data_progress; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.data_progress AS
 SELECT 'Gene'::text AS object_class,
    'Allele Definition Data'::text AS data_type,
    allele_definition.genesymbol AS object_name,
    count(*) AS n
   FROM cpic.allele_definition
  GROUP BY allele_definition.genesymbol
UNION ALL
 SELECT 'Gene'::text AS object_class,
    'Allele Functionality Data'::text AS data_type,
    a.genesymbol AS object_name,
    count(*) AS n
   FROM cpic.allele a
  WHERE (a.clinicalfunctionalstatus IS NOT NULL)
  GROUP BY a.genesymbol
UNION ALL
 SELECT 'Gene'::text AS object_class,
    'Diplotype to Phenotype Data'::text AS data_type,
    diplotype.genesymbol AS object_name,
    count(*) AS n
   FROM cpic.diplotype
  GROUP BY diplotype.genesymbol
UNION ALL
 SELECT 'Gene'::text AS object_class,
    'Frequency Data'::text AS data_type,
    a.genesymbol AS object_name,
    count(*) AS n
   FROM (cpic.allele_frequency f
     JOIN cpic.allele a ON ((f.alleleid = a.id)))
  GROUP BY a.genesymbol
UNION ALL
 SELECT 'Gene'::text AS object_class,
    'Gene CDS Data'::text AS data_type,
    gene_result.genesymbol AS object_name,
    count(*) AS n
   FROM cpic.gene_result
  WHERE (gene_result.consultationtext IS NOT NULL)
  GROUP BY gene_result.genesymbol
UNION ALL
 SELECT 'Gene'::text AS object_class,
    'Gene Phenotype Data'::text AS data_type,
    g.genesymbol AS object_name,
    count(*) AS n
   FROM (cpic.gene_result g
     JOIN cpic.gene_result_lookup pf ON ((g.id = pf.phenotypeid)))
  GROUP BY g.genesymbol
UNION ALL
 SELECT 'Gene'::text AS object_class,
    'PharmVar Allele IDs'::text AS data_type,
    a.genesymbol AS object_name,
    count(*) AS n
   FROM cpic.allele_definition a
  WHERE (a.pharmvarid IS NOT NULL)
  GROUP BY a.genesymbol
UNION ALL
 SELECT 'Drug'::text AS object_class,
    'Flowcharts'::text AS data_type,
    drug.name AS object_name,
    count(*) AS n
   FROM cpic.drug
  WHERE (drug.flowchart IS NOT NULL)
  GROUP BY drug.name
UNION ALL
 SELECT 'Drug'::text AS object_class,
    'Table 2 Recommendations'::text AS data_type,
    d.name AS object_name,
    count(DISTINCT r.id) AS n
   FROM (cpic.recommendation r
     JOIN cpic.drug d ON (((r.drugid)::text = (d.drugid)::text)))
  GROUP BY d.name
UNION ALL
 SELECT 'Drug'::text AS object_class,
    'Drug Test Alerts'::text AS data_type,
    d.name AS object_name,
    count(DISTINCT t.id) AS n
   FROM (cpic.test_alert t
     JOIN cpic.drug d ON (((t.drugid)::text = (d.drugid)::text)))
  GROUP BY d.name
UNION ALL
 SELECT 'Drug'::text AS object_class,
    'Guideline'::text AS data_type,
    d.name AS object_name,
    count(DISTINCT g.id) AS n
   FROM ((cpic.guideline g
     JOIN cpic.pair p ON ((g.id = p.guidelineid)))
     JOIN cpic.drug d ON (((p.drugid)::text = (d.drugid)::text)))
  GROUP BY d.name;


--
-- Name: file_artifact; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.file_artifact (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    entityids text[],
    type text NOT NULL,
    filename text NOT NULL,
    url text
);


--
-- Name: TABLE file_artifact; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.file_artifact IS 'File artifact information. Each entry is a different file artifact generated by the system';


--
-- Name: COLUMN file_artifact.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN file_artifact.entityids; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact.entityids IS 'The IDs of the entities the file is for, required';


--
-- Name: COLUMN file_artifact.type; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact.type IS 'The type of file';


--
-- Name: COLUMN file_artifact.filename; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact.filename IS 'The name of the file (no path)';


--
-- Name: COLUMN file_artifact.url; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact.url IS 'The permanent URL of the current version of this file';


--
-- Name: file_artifact_history; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.file_artifact_history (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    fileid integer NOT NULL,
    source text NOT NULL,
    changedate timestamp without time zone DEFAULT CURRENT_TIMESTAMP NOT NULL,
    changemessage text
);


--
-- Name: TABLE file_artifact_history; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.file_artifact_history IS 'History information for a related file artifact';


--
-- Name: COLUMN file_artifact_history.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact_history.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN file_artifact_history.fileid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact_history.fileid IS 'The ID of the related File Artifact';


--
-- Name: COLUMN file_artifact_history.source; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact_history.source IS 'Where this history message originated from';


--
-- Name: COLUMN file_artifact_history.changedate; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact_history.changedate IS 'The date the change was applied';


--
-- Name: COLUMN file_artifact_history.changemessage; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_artifact_history.changemessage IS 'A message describing the change that occurred';


--
-- Name: file_note; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.file_note (
    type text NOT NULL,
    entityid text,
    note text NOT NULL,
    ordinal integer NOT NULL,
    version integer DEFAULT 1
);


--
-- Name: TABLE file_note; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.file_note IS 'An ordered note that should appear with the type of information specified';


--
-- Name: COLUMN file_note.type; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_note.type IS 'The type of information this note is about';


--
-- Name: COLUMN file_note.entityid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_note.entityid IS 'Optional, the specific entity this note is about. For example, could be a gene symbol or drug ID';


--
-- Name: COLUMN file_note.note; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_note.note IS 'The freeform text note about the type/entity';


--
-- Name: COLUMN file_note.ordinal; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_note.ordinal IS 'The index number for ordering notes of a given type/entity';


--
-- Name: COLUMN file_note.version; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.file_note.version IS 'The version number, iterates on modification';


--
-- Name: file_status; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.file_status AS
 SELECT a.id,
    a.entityids,
    a.type,
    a.filename,
    a.url,
    history.latest_change
   FROM (cpic.file_artifact a
     LEFT JOIN ( SELECT h.fileid,
            max(h.changedate) AS latest_change
           FROM cpic.file_artifact_history h
          GROUP BY h.fileid) history ON ((a.id = history.fileid)))
  ORDER BY a.type, a.filename;


--
-- Name: flyway_schema_history; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.flyway_schema_history (
    installed_rank integer NOT NULL,
    version character varying(50),
    description character varying(200) NOT NULL,
    type character varying(20) NOT NULL,
    script character varying(1000) NOT NULL,
    checksum integer,
    installed_by character varying(100) NOT NULL,
    installed_on timestamp without time zone DEFAULT now() NOT NULL,
    execution_time integer NOT NULL,
    success boolean NOT NULL
);


--
-- Name: guideline_summary_view; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.guideline_summary_view AS
 SELECT g.name AS guideline_name,
    g.url AS guideline_url,
    array_agg(DISTINCT d.name) AS drugs,
    jsonb_agg(DISTINCT jsonb_build_object('symbol', p.genesymbol, 'url', (('https://cpicpgx.org/gene/'::text || lower((p.genesymbol)::text)) || '/'::text))) AS genes
   FROM ((cpic.guideline g
     JOIN cpic.pair p ON ((g.id = p.guidelineid)))
     JOIN cpic.drug d ON (((p.drugid)::text = (d.drugid)::text)))
  GROUP BY g.name, g.url;


--
-- Name: VIEW guideline_summary_view; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON VIEW cpic.guideline_summary_view IS 'This view lists guidelines and the genes and drugs that are associated with them';


--
-- Name: COLUMN guideline_summary_view.guideline_name; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline_summary_view.guideline_name IS 'The title of the guideline';


--
-- Name: COLUMN guideline_summary_view.guideline_url; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline_summary_view.guideline_url IS 'The URL of the guideline on the CPIC website';


--
-- Name: COLUMN guideline_summary_view.drugs; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline_summary_view.drugs IS 'An array of drug names associated with this guideline';


--
-- Name: COLUMN guideline_summary_view.genes; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.guideline_summary_view.genes IS 'An array of gene data associated with this guideline, each object will have a symbol and a URL for the gene on the CPIC website';


--
-- Name: pair_view; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.pair_view AS
 SELECT p.pairid,
    p.drugid,
    d.name AS drugname,
    p.genesymbol,
    g.name AS guidelinename,
    g.url AS guidelineurl,
    p.cpiclevel,
    p.pgkbcalevel,
    p.pgxtesting,
    p.citations AS pmids,
        CASE
            WHEN (p.usedforrecommendation AND (p.guidelineid IS NOT NULL)) THEN 'Yes'::text
            WHEN ((NOT p.usedforrecommendation) AND (p.guidelineid IS NOT NULL)) THEN 'No'::text
            ELSE 'n/a'::text
        END AS usedforrecommendation,
        CASE
            WHEN (p.guidelineid IS NULL) THEN true
            ELSE false
        END AS provisional
   FROM ((cpic.pair p
     JOIN cpic.drug d ON (((p.drugid)::text = (d.drugid)::text)))
     LEFT JOIN cpic.guideline g ON ((p.guidelineid = g.id)))
  WHERE (p.removed IS FALSE);


--
-- Name: VIEW pair_view; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON VIEW cpic.pair_view IS 'This pairs view combines information from the pair, drug, and guideline tables to make a more readable view of pair data. This also limits result to pairs which have NOT been removed.';


--
-- Name: COLUMN pair_view.pairid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.pairid IS 'The primary key ID of this pair';


--
-- Name: COLUMN pair_view.drugid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.drugid IS 'The ID of the drug in the pair';


--
-- Name: COLUMN pair_view.drugname; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.drugname IS 'The name of the drug in the pair';


--
-- Name: COLUMN pair_view.genesymbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.genesymbol IS 'The symbol of the drug in the pair';


--
-- Name: COLUMN pair_view.guidelinename; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.guidelinename IS 'The name for the guideline of this pair';


--
-- Name: COLUMN pair_view.guidelineurl; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.guidelineurl IS 'The URL for the guideline of this pair';


--
-- Name: COLUMN pair_view.cpiclevel; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.cpiclevel IS 'The CPIC-assigned level of the pair';


--
-- Name: COLUMN pair_view.pgkbcalevel; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.pgkbcalevel IS 'The top level of PharmGKB Clinical Annotation of the pair';


--
-- Name: COLUMN pair_view.pgxtesting; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.pgxtesting IS 'The testing level of the label annotation from PharmGKB for this pair';


--
-- Name: COLUMN pair_view.pmids; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.pmids IS 'The PMIDs for guideline publications of this pair';


--
-- Name: COLUMN pair_view.provisional; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.pair_view.provisional IS 'The CPIC level assigned to this pair is provisional, true if this pair is not part of a guideline';


--
-- Name: population; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.population (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    publicationid integer,
    ethnicity text NOT NULL,
    population text,
    populationinfo text,
    subjecttype text,
    subjectcount integer DEFAULT 0,
    version integer DEFAULT 1
);


--
-- Name: TABLE population; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.population IS 'A population description of a group of subjects';


--
-- Name: COLUMN population.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population.id IS 'A synthetic primary key ID';


--
-- Name: COLUMN population.publicationid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population.publicationid IS 'A reference to a publication';


--
-- Name: COLUMN population.ethnicity; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population.ethnicity IS 'The major ethnicity grouping of this population';


--
-- Name: COLUMN population.population; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population.population IS 'The descriptive name of this population, optional';


--
-- Name: COLUMN population.populationinfo; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population.populationinfo IS 'Further information about this population, optional';


--
-- Name: COLUMN population.subjecttype; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population.subjecttype IS 'Information about the types of subjects in this population';


--
-- Name: COLUMN population.subjectcount; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population.subjectcount IS 'The total number of subjects in this population';


--
-- Name: COLUMN population.version; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population.version IS 'The version number, iterates on modification';


--
-- Name: population_frequency_view; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.population_frequency_view AS
 WITH x AS (
         SELECT a.id AS alleleid,
            a.genesymbol,
            a.name,
            f.key AS population_group,
                CASE
                    WHEN (jsonb_typeof(f.value) = 'null'::text) THEN NULL::numeric
                    ELSE (f.value)::numeric
                END AS freq_weighted_avg
           FROM (cpic.allele a
             CROSS JOIN LATERAL jsonb_each(a.frequency) f(key, value))
        ), y AS (
         SELECT f.alleleid,
            p.ethnicity,
            max(f.frequency) AS freq_max,
            min(f.frequency) AS freq_min,
            avg(f.frequency) AS freq_avg,
            sum(p.subjectcount) AS subjectcount
           FROM (cpic.population p
             JOIN cpic.allele_frequency f ON ((p.id = f.population)))
          GROUP BY f.alleleid, p.ethnicity
        )
 SELECT x.genesymbol,
    x.name,
    x.population_group,
    y.subjectcount,
    x.freq_weighted_avg,
    y.freq_avg,
    y.freq_max,
    y.freq_min
   FROM (x
     JOIN y ON (((x.alleleid = y.alleleid) AND (x.population_group = y.ethnicity))));


--
-- Name: VIEW population_frequency_view; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON VIEW cpic.population_frequency_view IS 'A summary of frequency data by allele and major population group';


--
-- Name: COLUMN population_frequency_view.genesymbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population_frequency_view.genesymbol IS 'The HGNC symbol of the gene';


--
-- Name: COLUMN population_frequency_view.name; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population_frequency_view.name IS 'The allele name';


--
-- Name: COLUMN population_frequency_view.population_group; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population_frequency_view.population_group IS 'The major grouping of population';


--
-- Name: COLUMN population_frequency_view.subjectcount; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population_frequency_view.subjectcount IS 'The count of subjects assigned the population group for the given allele';


--
-- Name: COLUMN population_frequency_view.freq_weighted_avg; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population_frequency_view.freq_weighted_avg IS 'The average frequency weighted by total subjects';


--
-- Name: COLUMN population_frequency_view.freq_avg; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population_frequency_view.freq_avg IS 'The unweighted average frequency (use with caution)';


--
-- Name: COLUMN population_frequency_view.freq_max; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population_frequency_view.freq_max IS 'The maximum frequency observed';


--
-- Name: COLUMN population_frequency_view.freq_min; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.population_frequency_view.freq_min IS 'The minimum frequency observed';


--
-- Name: publication; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.publication (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    guidelineid integer,
    title text,
    authors text[],
    journal text,
    month integer,
    page character varying(50),
    volume character varying(50),
    year integer,
    pmid text,
    pmcid text,
    doi text,
    url text,
    version integer DEFAULT 1,
    highlightedonsite boolean DEFAULT false,
    fulltextfile text
);


--
-- Name: TABLE publication; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.publication IS 'Documents published to an external resource';


--
-- Name: COLUMN publication.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN publication.guidelineid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication.guidelineid IS 'The ID for the guideline this publication is about, optional';


--
-- Name: COLUMN publication.pmid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication.pmid IS 'The PubMed identifier for this publication';


--
-- Name: COLUMN publication.pmcid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication.pmcid IS 'The PubMed Central identifier for this publication';


--
-- Name: COLUMN publication.doi; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication.doi IS 'The Document Object Identifier (DOI) for this publication';


--
-- Name: COLUMN publication.url; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication.url IS 'The URL for this publication';


--
-- Name: COLUMN publication.highlightedonsite; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication.highlightedonsite IS 'true means this publication will show in the CPIC site Publications page, defaults to false';


--
-- Name: COLUMN publication.fulltextfile; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication.fulltextfile IS 'publicly-accessible URL to full text of publication';


--
-- Name: publication_supplement; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.publication_supplement (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    publicationid integer NOT NULL,
    description text,
    url text NOT NULL,
    version integer DEFAULT 1
);


--
-- Name: TABLE publication_supplement; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.publication_supplement IS 'A table to hold optional supplemental files for publications';


--
-- Name: COLUMN publication_supplement.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication_supplement.id IS 'A synthetic numerical ID, primary key';


--
-- Name: COLUMN publication_supplement.publicationid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication_supplement.publicationid IS 'A foreign-key reference to the publication this is a supplement for';


--
-- Name: COLUMN publication_supplement.description; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication_supplement.description IS 'An optional free text description of the supplemental file';


--
-- Name: COLUMN publication_supplement.url; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication_supplement.url IS 'The publicly-accessible URL to the supplemental file';


--
-- Name: COLUMN publication_supplement.version; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.publication_supplement.version IS 'The version number, iterates on modification';


--
-- Name: recommendation_alleles_view; Type: VIEW; Schema: cpic; Owner: -
--

CREATE VIEW cpic.recommendation_alleles_view AS
 SELECT a.genesymbol,
    g.chr,
    g.lookupmethod,
    array_agg(DISTINCT a.name ORDER BY a.name) AS alleles,
    count(DISTINCT a.name) AS allele_count
   FROM (cpic.allele a
     JOIN cpic.gene g ON (((a.genesymbol)::text = (g.symbol)::text)))
  WHERE ((a.clinicalfunctionalstatus IS NOT NULL) AND (g.lookupmethod <> 'ALLELE_STATUS'::text))
  GROUP BY a.genesymbol, g.chr, g.lookupmethod
UNION
 SELECT g.symbol AS genesymbol,
    g.chr,
    g.lookupmethod,
    array_agg(DISTINCT a.value ORDER BY a.value) AS alleles,
    count(DISTINCT a.value) AS allele_count
   FROM (cpic.recommendation r
     JOIN cpic.drug d ON (((r.drugid)::text = (d.drugid)::text))),
    (LATERAL jsonb_each_text(r.lookupkey) a(key, value)
     JOIN cpic.gene g ON ((a.key = (g.symbol)::text)))
  WHERE ((r.allelestatus IS NOT NULL) AND (g.lookupmethod = 'ALLELE_STATUS'::text) AND (upper(a.value) !~~ '%NO%RESULT%'::text))
  GROUP BY g.symbol, g.chr, g.lookupmethod;


--
-- Name: VIEW recommendation_alleles_view; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON VIEW cpic.recommendation_alleles_view IS 'A list of genes that are used for recommendation lookup and the alleles to use for those lookups';


--
-- Name: sequence_location; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.sequence_location (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    version integer DEFAULT 1,
    name text,
    chromosomelocation text,
    genelocation text,
    proteinlocation text,
    genesymbol character varying(50) NOT NULL,
    dbsnpid text,
    "position" integer,
    CONSTRAINT chromosomelocation_nn CHECK ((chromosomelocation IS NOT NULL)),
    CONSTRAINT position_nn CHECK (("position" IS NOT NULL))
);


--
-- Name: TABLE sequence_location; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.sequence_location IS 'A location on a sequence';


--
-- Name: COLUMN sequence_location.name; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.sequence_location.name IS 'The short name of this sequence location, arbitrary but often the gene location and nucleotide change';


--
-- Name: COLUMN sequence_location.chromosomelocation; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.sequence_location.chromosomelocation IS 'The partial HGVS representation of the location on the chromosomal sequence';


--
-- Name: COLUMN sequence_location.genelocation; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.sequence_location.genelocation IS 'The partial HGVS representation of the location on the gene sequence';


--
-- Name: COLUMN sequence_location.proteinlocation; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.sequence_location.proteinlocation IS 'The partial HGVS representation of the location on the protein sequence';


--
-- Name: COLUMN sequence_location.genesymbol; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.sequence_location.genesymbol IS 'The HGNC symbol fo the gene this squence location falls in';


--
-- Name: COLUMN sequence_location.dbsnpid; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.sequence_location.dbsnpid IS 'The DBSNP identifier (rs#) for this location, optional';


--
-- Name: COLUMN sequence_location."position"; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.sequence_location."position" IS 'The position, or starting position, of this variation on the chromosomal/mitochondrial sequence';


--
-- Name: statistic; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.statistic (
    createdon timestamp without time zone NOT NULL,
    stattype text NOT NULL,
    statvalue numeric NOT NULL
);


--
-- Name: TABLE statistic; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.statistic IS 'A collection of numerical statistics with metadata about this database and other CPIC data';


--
-- Name: term; Type: TABLE; Schema: cpic; Owner: -
--

CREATE TABLE cpic.term (
    id integer DEFAULT nextval('cpic.cpic_id'::regclass) NOT NULL,
    category text NOT NULL,
    term text NOT NULL,
    functionaldef text,
    geneticdef text,
    loinc text,
    version integer DEFAULT 1
);


--
-- Name: TABLE term; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON TABLE cpic.term IS 'Standardized terms for clinical PGx test results';


--
-- Name: COLUMN term.id; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.term.id IS 'A synthetic numerical ID, auto-assigned, primary key';


--
-- Name: COLUMN term.category; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.term.category IS 'Category group this term falls into';


--
-- Name: COLUMN term.term; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.term.term IS 'The term name';


--
-- Name: COLUMN term.functionaldef; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.term.functionaldef IS 'The functional definition of the term';


--
-- Name: COLUMN term.geneticdef; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.term.geneticdef IS 'The genetic definition of the term';


--
-- Name: COLUMN term.loinc; Type: COMMENT; Schema: cpic; Owner: -
--

COMMENT ON COLUMN cpic.term.loinc IS 'The LOINC identifier for the term';




--
-- Data for Name: allele_definition; Type: TABLE DATA; Schema: cpic; Owner: -
--

COPY cpic.allele_definition (id, version, genesymbol, name, pharmvarid, matchesreferencesequence, structuralvariation) FROM stdin;
9000	1	HLA-A	*31:01	\N	f	f
9001	1	HLA-B	*15:02	\N	f	f
9002	1	HLA-B	*57:01	\N	f	f
9003	1	HLA-B	*58:01	\N	f	f
777442	159	CYP2B6	*11	PV00749	f	f
777444	159	CYP2B6	*12	PV00750	f	f
2091246	103	CYP2D6	*157	PV01947	f	f
2091250	103	CYP2D6	*159	PV01954	f	f
777732	159	CYP2C9	*33	PV00569	f	f
777746	159	CYP2C9	*40	PV00576	f	f
777758	159	CYP2C9	*46	PV00582	f	f
777448	159	CYP2B6	*14	PV00752	f	f
777450	159	CYP2B6	*15	PV00753	f	f
777452	159	CYP2B6	*17	PV00755	f	f
777454	159	CYP2B6	*18	PV00756	f	f
777456	159	CYP2B6	*19	PV00757	f	f
777460	159	CYP2B6	*21	PV00759	f	f
777462	159	CYP2B6	*22	PV00760	f	f
777464	159	CYP2B6	*23	PV00761	f	f
777466	159	CYP2B6	*24	PV00762	f	f
777468	159	CYP2B6	*25	PV00763	f	f
777470	159	CYP2B6	*26	PV00764	f	f
777474	159	CYP2B6	*28	PV00766	f	f
777476	154	CYP2B6	*29	PV00767	f	t
777478	154	CYP2B6	*30	PV00770	f	t
777480	159	CYP2B6	*31	PV00771	f	f
777482	159	CYP2B6	*32	PV00772	f	f
777484	159	CYP2B6	*33	PV00848	f	f
777486	159	CYP2B6	*34	PV00774	f	f
777490	159	CYP2B6	*36	PV00776	f	f
777492	159	CYP2B6	*37	PV00777	f	f
777494	159	CYP2B6	*38	PV00778	f	f
777428	159	CYP2B6	*4	PV00742	f	f
2899154	73	CYP2B6	*45	PV02278	f	f
2899156	73	CYP2B6	*46	PV02280	f	f
2899158	73	CYP2B6	*47	PV02282	f	f
2899162	73	CYP2B6	*49	PV02286	f	f
777430	159	CYP2B6	*5	PV00743	f	f
5997308	6	CYP2B6	*50	PV02841	f	f
777766	159	CYP2C9	*50	PV00586	f	f
777776	159	CYP2C9	*55	PV00591	f	f
777678	159	CYP2C9	*6	PV00542	f	f
777794	159	CYP2C9	*64	PV01419	f	f
777680	159	CYP2C9	*7	PV00543	f	f
777432	159	CYP2B6	*6	PV00744	f	f
1406321	129	CYP2C9	*75	PV01742	f	f
777682	159	CYP2C9	*8	PV00544	f	f
777434	159	CYP2B6	*7	PV00745	f	f
1933003	109	CYP2C9	*85	PV01798	f	f
777436	159	CYP2B6	*8	PV00746	f	f
777958	159	CYP2D6	*12	PV00437	f	f
778178	159	CYP2D6	*130	PV00685	f	f
778180	159	CYP2D6	*131	PV00686	f	f
778182	159	CYP2D6	*132	PV00687	f	f
778184	159	CYP2D6	*133	PV00688	f	f
778186	159	CYP2D6	*134	PV00689	f	f
778188	159	CYP2D6	*135	PV00690	f	f
778190	159	CYP2D6	*136	PV00691	f	f
778192	159	CYP2D6	*137	PV00692	f	f
778196	159	CYP2D6	*139	PV00728	f	f
778200	159	CYP2D6	*141	PV02389	f	f
778202	159	CYP2D6	*142	PV01434	f	f
778204	159	CYP2D6	*143	PV01435	f	f
778206	159	CYP2D6	*144	PV01436	f	f
778208	159	CYP2D6	*145	PV01437	f	f
1103377	141	CYP2D6	*146	PV01717	f	f
777438	159	CYP2B6	*9	PV00747	f	f
777578	159	CYP2C19	*26	PV00621	f	f
777580	159	CYP2C19	*28	PV00622	f	f
777333	90	CFTR	E56K	\N	f	f
777357	90	CFTR	P67L	\N	f	f
1103379	141	CYP2D6	*147	PV01805	f	f
1609527	122	CYP2D6	*148	PV01745	f	f
1103381	141	CYP2D6	*149	PV01730	f	f
2677011	81	CYP2D6	*150	PV02524	f	f
2677013	81	CYP2D6	*151	PV02194	f	f
2091236	103	CYP2D6	*152	PV02155	f	f
2091238	103	CYP2D6	*153	PV02157	f	f
2091242	103	CYP2D6	*155	PV01936	f	f
2091244	103	CYP2D6	*156	PV01943	f	f
777440	159	CYP2B6	*10	PV00748	f	f
777592	159	CYP2C19	*34	PV02143	f	f
6235063	2	CYP2C19	*40	PV02894	f	f
6235065	2	CYP2C19	*41	PV02896	f	f
777690	159	CYP2C9	*12	PV00548	f	f
777704	159	CYP2C9	*19	PV00555	f	f
777716	159	CYP2C9	*25	PV00561	f	f
778040	159	CYP2D6	*54	PV00478	f	f
2677047	81	CYP2D6	*168	PV02161	f	f
777530	159	CYP2C19	*38	PV02145	t	f
2677039	81	CYP2D6	*164	PV02199	f	f
2677043	81	CYP2D6	*166	PV02203	f	f
2677045	81	CYP2D6	*167	PV02159	f	f
2677049	81	CYP2D6	*169	PV02163	f	f
2677051	81	CYP2D6	*170	PV02165	f	f
2677053	81	CYP2D6	*171	PV02189	f	f
3318539	58	CYP2D6	*172	PV02301	f	f
5175550	20	CYP2D6	*173	PV02498	f	f
778060	159	CYP2D6	*64	PV00488	f	f
778076	159	CYP2D6	*74	PV00496	f	f
778088	159	CYP2D6	*85	PV00502	f	f
3318593	58	CYP4F2	*12	PV02322	f	f
778020	159	CYP2D6	*44	PV00468	f	f
778022	159	CYP2D6	*45	PV00469	f	f
778024	159	CYP2D6	*46	PV00470	f	f
778026	159	CYP2D6	*47	PV00471	f	f
778028	159	CYP2D6	*48	PV00472	f	f
778030	159	CYP2D6	*49	PV00473	f	f
778032	159	CYP2D6	*50	PV00474	f	f
778034	159	CYP2D6	*51	PV00475	f	f
778052	159	CYP2D6	*60	PV00484	f	f
778036	159	CYP2D6	*52	PV00476	f	f
778038	159	CYP2D6	*53	PV00477	f	f
778056	159	CYP2D6	*62	PV00486	f	f
778042	159	CYP2D6	*55	PV00479	f	f
778044	159	CYP2D6	*56	PV00480	f	f
778048	159	CYP2D6	*58	PV00482	f	f
778050	159	CYP2D6	*59	PV00483	f	f
777946	159	CYP2D6	*6	PV00431	f	f
778054	154	CYP2D6	*61	PV00485	f	t
778068	159	CYP2D6	*70	PV00492	f	f
778058	154	CYP2D6	*63	PV00487	f	t
778072	159	CYP2D6	*72	PV00494	f	f
778062	159	CYP2D6	*65	PV00489	f	f
778064	154	CYP2D6	*68	PV00490	f	t
778066	159	CYP2D6	*69	PV00491	f	f
777948	159	CYP2D6	*7	PV00432	f	f
778070	159	CYP2D6	*71	PV00493	f	f
778080	159	CYP2D6	*81	PV00498	f	f
778074	159	CYP2D6	*73	PV00495	f	f
778084	159	CYP2D6	*83	PV02385	f	f
778078	159	CYP2D6	*75	PV00497	f	f
777950	159	CYP2D6	*8	PV00433	f	f
778082	159	CYP2D6	*82	PV00499	f	f
778108	159	CYP2D6	*95	PV00512	f	f
778086	159	CYP2D6	*84	PV00501	f	f
778114	159	CYP2D6	*98	PV00515	f	f
778090	159	CYP2D6	*86	PV00503	f	f
778092	159	CYP2D6	*87	PV00504	f	f
778094	159	CYP2D6	*88	PV00505	f	f
778096	159	CYP2D6	*89	PV00506	f	f
777952	159	CYP2D6	*9	PV00434	f	f
778112	159	CYP2D6	*97	PV00514	f	f
777978	159	CYP2D6	*23	PV00447	f	f
778116	159	CYP2D6	*99	PV00516	f	f
778016	159	CYP2D6	*42	PV02297	f	f
5175552	20	CYP2D6	*174	PV02500	f	f
3318599	58	CYP4F2	*15	PV02328	f	f
5175554	20	CYP2D6	*175	PV02502	f	f
4058604	35	CYP4F2	*17	PV02391	f	f
778240	158	CYP4F2	*2	PV02213	f	f
5409119	16	CYP2D6	*176	PV02519	f	f
5763832	10	CYP2D6	*177	PV02522	f	f
5998158	6	CYP2D6	*178	PV02809	f	f
5998160	6	CYP2D6	*179	PV02811	f	f
5998162	6	CYP2D6	*180	PV02813	f	f
5998164	6	CYP2D6	*181	PV02815	f	f
5998166	6	CYP2D6	*182	PV02817	f	f
5998168	6	CYP2D6	*183	PV02819	f	f
5998170	6	CYP2D6	*184	PV02821	f	f
5998172	6	CYP2D6	*185	PV02823	f	f
777970	159	CYP2D6	*19	PV02196	f	f
777988	159	CYP2D6	*28	PV00452	f	f
778014	159	CYP2D6	*41	PV00465	f	f
778018	159	CYP2D6	*43	PV00467	f	f
778242	158	CYP4F2	*3	PV02214	f	f
3318595	58	CYP4F2	*13	PV02324	f	f
3318601	58	CYP4F2	*16	PV02312	f	t
3318585	58	CYP4F2	*8	PV02314	f	f
3318587	58	CYP4F2	*9	PV02316	f	f
779080	158	NUDT15	*9	PV01605	f	f
2784572	77	CYP4F2	*4	PV02221	f	f
779297	152	SLCO1B1	*11	PV01628	f	f
2784576	77	CYP4F2	*6	PV02225	f	f
779301	152	SLCO1B1	*13	PV01630	f	f
779339	152	SLCO1B1	*32	PV01645	f	f
1002623	143	SLCO1B1	*1	PV01618	t	f
2784578	77	CYP4F2	*7	PV02227	f	f
779315	152	SLCO1B1	*20	PV01635	f	f
779299	152	SLCO1B1	*12	PV01629	f	f
779307	152	SLCO1B1	*16	PV01633	f	f
779279	152	SLCO1B1	*2	PV01619	f	f
779323	152	SLCO1B1	*24	PV01637	f	f
779335	152	SLCO1B1	*30	PV01643	f	f
779327	152	SLCO1B1	*26	PV01639	f	f
1002685	143	SLCO1B1	*37	PV01649	f	f
6235320	2	CYP2C9	*86	PV02929	f	f
779333	152	SLCO1B1	*29	PV01642	f	f
779281	152	SLCO1B1	*3	PV01620	f	f
1002701	143	SLCO1B1	*45	PV01657	f	f
779343	152	SLCO1B1	*34	PV01647	f	f
779347	152	SLCO1B1	*36	PV01648	f	f
1002693	143	SLCO1B1	*41	PV01653	f	f
1002687	143	SLCO1B1	*38	PV01650	f	f
779283	152	SLCO1B1	*4	PV01621	f	f
1002695	143	SLCO1B1	*42	PV01654	f	f
779303	152	SLCO1B1	*14	PV01631	f	f
1002697	143	SLCO1B1	*43	PV01655	f	f
1002703	143	SLCO1B1	*46	PV01658	f	f
779305	152	SLCO1B1	*15	PV01632	f	f
1357091	131	SLCO1B1	*48	PV01732	f	t
6235322	2	CYP2C9	*87	PV02931	f	f
6235324	2	CYP2C9	*88	PV02933	f	f
2091252	103	CYP2D6	*160	PV01958	f	f
779321	152	SLCO1B1	*23	PV01636	f	f
2091254	103	CYP2D6	*161	PV01963	f	f
779325	152	SLCO1B1	*25	PV01638	f	f
779331	152	SLCO1B1	*28	PV01641	f	f
779337	152	SLCO1B1	*31	PV01644	f	f
1002689	143	SLCO1B1	*39	PV01651	f	f
777532	159	CYP2C19	*1	PV00598	f	f
2091256	103	CYP2D6	*162	PV01967	f	f
2091258	103	CYP2D6	*163	PV01969	f	f
3685906	29	RYR1	c.14209C>T	\N	f	f
3685908	29	RYR1	c.14210G>A	\N	f	f
3685960	29	RYR1	c.14782A>G	\N	f	f
3685962	29	RYR1	c.14803G>A	\N	f	f
3685964	29	RYR1	c.14813T>C	\N	f	f
3685966	29	RYR1	c.14814C>G	\N	f	f
3685968	29	RYR1	c.14817C>A	\N	f	f
3685970	29	RYR1	c.14818G>A	\N	f	f
3685972	29	RYR1	c.14825G>T	\N	f	f
3685974	29	RYR1	c.14879T>A	\N	f	f
3685976	29	RYR1	c.14918C>T	\N	f	f
3685978	29	RYR1	c.14968A>G	\N	f	f
3685980	29	RYR1	c.15059G>C	\N	f	f
777534	159	CYP2C19	*2	PV00599	f	f
777570	159	CYP2C19	*22	PV00617	f	f
777572	159	CYP2C19	*23	PV00618	f	f
777574	159	CYP2C19	*24	PV00619	f	f
777576	159	CYP2C19	*25	PV00620	f	f
777536	159	CYP2C19	*3	PV00600	f	f
777594	159	CYP2C19	*35	PV00629	f	f
777598	154	CYP2C19	*37	PV00732	f	t
777600	159	CYP2C19	*39	PV01528	f	f
778337	90	DPYD	c.295_298delTCAT (*7)	\N	f	f
778435	90	DPYD	c.1905C>G	\N	f	f
778453	90	DPYD	c.2279C>T	\N	f	f
778485	90	DPYD	c.2983G>T (*10)	\N	f	f
778954	90	G6PD	Puerto Limon	\N	f	f
777538	159	CYP2C19	*4	PV00601	f	f
778990	90	G6PD	Santiago de Cuba, Morioka	\N	f	f
777540	159	CYP2C19	*5	PV02131	f	f
777542	159	CYP2C19	*6	PV00603	f	f
777544	159	CYP2C19	*7	PV02134	f	f
777548	159	CYP2C19	*9	PV00606	f	f
777944	154	CYP2D6	*5	PV00430	f	t
1357093	131	SLCO1B1	*49	PV01734	f	t
779285	152	SLCO1B1	*5	PV01622	f	f
779287	152	SLCO1B1	*6	PV01623	f	f
779289	152	SLCO1B1	*7	PV01624	f	f
779291	152	SLCO1B1	*8	PV01625	f	f
779293	152	SLCO1B1	*9	PV01626	f	f
778780	92	G6PD	Taipei, Chinese-3	\N	f	f
778872	90	G6PD	West Virginia	\N	f	f
779041	90	IFNL3	rs12979860 reference (C)	\N	t	f
779043	90	IFNL3	rs12979860 variant (T)	\N	f	f
3685874	29	RYR1	c.13673G>A	\N	f	f
3685876	29	RYR1	c.13672C>T	\N	f	f
3685878	29	RYR1	c.13702C>G	\N	f	f
3685880	29	RYR1	c.13760C>T	\N	f	f
3685882	29	RYR1	c.13913G>A	\N	f	f
3685886	29	RYR1	c.13934G>A	\N	f	f
3685888	29	RYR1	c.13990T>C	\N	f	f
3685890	29	RYR1	c.13994_13995delTCinsCT	\N	f	f
3685892	29	RYR1	c.14002C>T	\N	f	f
3685894	29	RYR1	c.14051T>C	\N	f	f
3685896	29	RYR1	c.14126C>T	\N	f	f
3685898	29	RYR1	c.14168G>A	\N	f	f
3685900	29	RYR1	c.14186A>C	\N	f	f
3685910	29	RYR1	c.14270G>A	\N	f	f
779232	90	RYR1	c.14387A>G	\N	f	f
3685916	29	RYR1	c.14424C>A	\N	f	f
3685918	29	RYR1	c.14449A>T	\N	f	f
3685920	29	RYR1	c.14458G>A	\N	f	f
3685922	29	RYR1	c.14458G>T	\N	f	f
3685924	29	RYR1	c.14471T>C	\N	f	f
779234	90	RYR1	c.14477C>T	\N	f	f
779236	90	RYR1	c.14497C>T	\N	f	f
3685930	29	RYR1	c.14510delA	\N	f	f
3685932	29	RYR1	c.14509C>G	\N	f	f
779238	90	RYR1	c.14512C>G	\N	f	f
3685936	29	RYR1	c.14524G>A	\N	f	f
3685938	29	RYR1	c.14539G>C	\N	f	f
779240	90	RYR1	c.14545G>A	\N	f	f
3685942	29	RYR1	c.14558C>T	\N	f	f
3685944	29	RYR1	c.14567C>G	\N	f	f
779242	90	RYR1	c.14582G>A	\N	f	f
3685948	29	RYR1	c.14581C>T	\N	f	f
3685950	29	RYR1	c.14627A>G	\N	f	f
3685952	29	RYR1	c.14639T>C	\N	f	f
3685954	29	RYR1	c.14678G>A	\N	f	f
3685956	29	RYR1	c.14680G>A	\N	f	f
777550	159	CYP2C19	*10	PV00607	f	f
777552	159	CYP2C19	*11	PV00608	f	f
777554	159	CYP2C19	*12	PV00609	f	f
777556	159	CYP2C19	*13	PV00610	f	f
3685902	29	RYR1	c.14197T>G	\N	f	f
3685904	29	RYR1	c.14201G>A	\N	f	f
779244	90	RYR1	c.14693T>C	\N	f	f
777558	159	CYP2C19	*14	PV00611	f	f
777560	159	CYP2C19	*15	PV00612	f	f
777562	159	CYP2C19	*16	PV02139	f	f
777564	159	CYP2C19	*17	PV00614	f	f
777566	159	CYP2C19	*18	PV00615	f	f
777568	159	CYP2C19	*19	PV00616	f	f
777730	159	CYP2C9	*32	PV00568	f	f
777734	159	CYP2C9	*34	PV00570	f	f
777738	159	CYP2C9	*36	PV00572	f	f
777740	159	CYP2C9	*37	PV00573	f	f
777742	159	CYP2C9	*38	PV00574	f	f
777744	159	CYP2C9	*39	PV00575	f	f
778483	90	DPYD	c.2977C>T	\N	f	f
778714	90	G6PD	202G>A_376A>G_1264C>G	\N	f	f
778752	90	G6PD	A	\N	f	f
778712	90	G6PD	A- 202A_376G	\N	f	f
778742	90	G6PD	Acrokorinthos	\N	f	f
779002	90	G6PD	Andalus	\N	f	f
777748	159	CYP2C9	*41	PV00577	f	f
1932985	109	CYP2C9	*76	PV01780	f	f
1932987	109	CYP2C9	*77	PV01782	f	f
1932989	109	CYP2C9	*78	PV01784	f	f
1932991	109	CYP2C9	*79	PV01786	f	f
1932993	109	CYP2C9	*80	PV01788	f	f
1932997	109	CYP2C9	*82	PV01792	f	f
1932999	109	CYP2C9	*83	PV01794	f	f
1933001	109	CYP2C9	*84	PV01796	f	f
777684	159	CYP2C9	*9	PV00545	f	f
777994	159	CYP2D6	*31	PV00455	f	f
6235905	2	CYP4F2	*18	PV02945	f	f
6235907	2	CYP4F2	*19	PV02947	f	f
6235909	2	CYP4F2	*20	PV02949	f	f
6235911	2	CYP4F2	*21	PV02951	f	f
778826	90	G6PD	Asahikawa	\N	f	f
778938	90	G6PD	Beverly Hills, Genova, Iwate, Niigata, Yamaguchi	\N	f	f
779038	90	G6PD	Brighton	\N	f	f
6235913	2	CYP4F2	*22	PV02953	f	f
6235915	2	CYP4F2	*23	PV02955	f	f
777750	159	CYP2C9	*42	PV00578	f	f
777752	159	CYP2C9	*43	PV00579	f	f
777756	159	CYP2C9	*45	PV00581	f	f
777760	159	CYP2C9	*47	PV00583	f	f
777762	159	CYP2C9	*48	PV00584	f	f
777764	159	CYP2C9	*49	PV00585	f	f
778774	90	G6PD	Gond	\N	f	f
778906	90	G6PD	Ierapetra	\N	f	f
777676	159	CYP2C9	*5	PV00541	f	f
777768	159	CYP2C9	*51	PV00587	f	f
777770	159	CYP2C9	*52	PV00588	f	f
777772	159	CYP2C9	*53	PV00589	f	f
777774	159	CYP2C9	*54	PV00590	f	f
778724	90	G6PD	Lagosanto	\N	f	f
778800	91	G6PD	Mediterranean, Dallas, Panama, Sassari, Cagliari, Birmingham	\N	f	f
778802	90	G6PD	Pedoplis-Ckaro	\N	f	f
778744	90	G6PD	Santa Maria	\N	f	f
3685694	29	RYR1	c.7771C>T	\N	f	f
3685726	29	RYR1	c.8518C>T	\N	f	f
777778	159	CYP2C9	*56	PV00592	f	f
777780	159	CYP2C9	*57	PV00593	f	f
777782	159	CYP2C9	*58	PV00594	f	f
777784	159	CYP2C9	*59	PV00595	f	f
777786	159	CYP2C9	*60	PV00596	f	f
777788	159	CYP2C9	*61	PV00597	f	f
777790	159	CYP2C9	*62	PV00851	f	f
777792	159	CYP2C9	*63	PV01418	f	f
777796	159	CYP2C9	*65	PV01420	f	f
777798	159	CYP2C9	*66	PV01421	f	f
777800	159	CYP2C9	*67	PV01422	f	f
3685758	29	RYR1	c.9758T>C	\N	f	f
3685790	29	RYR1	c.10891G>T	\N	f	f
3685822	29	RYR1	c.11953T>C	\N	f	f
777802	159	CYP2C9	*68	PV01423	f	f
777804	159	CYP2C9	*69	PV01424	f	f
777806	159	CYP2C9	*70	PV01425	f	f
1406315	129	CYP2C9	*72	PV01736	f	f
1406317	129	CYP2C9	*73	PV01738	f	f
1406319	129	CYP2C9	*74	PV01803	f	f
3685856	29	RYR1	c.12553G>A	\N	f	f
777686	159	CYP2C9	*10	PV00546	f	f
777692	159	CYP2C9	*13	PV00549	f	f
777694	159	CYP2C9	*14	PV00550	f	f
777698	159	CYP2C9	*16	PV00552	f	f
777700	159	CYP2C9	*17	PV00553	f	f
777702	159	CYP2C9	*18	PV00554	f	f
777670	159	CYP2C9	*2	PV00538	f	f
777706	159	CYP2C9	*20	PV00556	f	f
777712	159	CYP2C9	*23	PV00559	f	f
777714	159	CYP2C9	*24	PV00560	f	f
777720	159	CYP2C9	*27	PV00563	f	f
777722	159	CYP2C9	*28	PV00564	f	f
777724	159	CYP2C9	*29	PV00565	f	f
777672	159	CYP2C9	*3	PV00539	f	f
777726	159	CYP2C9	*30	PV00566	f	f
777728	159	CYP2C9	*31	PV00567	f	f
777472	159	CYP2B6	*27	PV00765	f	f
2899142	73	CYP2B6	*39	PV02266	f	f
2899146	73	CYP2B6	*41	PV02270	f	f
2899148	73	CYP2B6	*42	PV02272	f	f
2899150	73	CYP2B6	*43	PV02274	f	f
2899152	73	CYP2B6	*44	PV02276	f	f
777936	159	CYP2D6	*1	PV00426	t	f
777954	159	CYP2D6	*10	PV00435	f	f
778118	159	CYP2D6	*100	PV00517	f	f
778120	159	CYP2D6	*101	PV00518	f	f
778122	159	CYP2D6	*102	PV00519	f	f
778124	159	CYP2D6	*103	PV00520	f	f
778126	159	CYP2D6	*104	PV00521	f	f
778128	159	CYP2D6	*105	PV00522	f	f
778130	159	CYP2D6	*106	PV00523	f	f
778132	159	CYP2D6	*107	PV00524	f	f
778136	159	CYP2D6	*109	PV00526	f	f
777956	159	CYP2D6	*11	PV00436	f	f
778138	159	CYP2D6	*110	PV00527	f	f
778140	159	CYP2D6	*111	PV00528	f	f
778142	159	CYP2D6	*112	PV00529	f	f
778144	159	CYP2D6	*113	PV00530	f	f
777962	159	CYP2D6	*14	PV00439	f	f
777964	159	CYP2D6	*15	PV00440	f	f
777966	159	CYP2D6	*17	PV00441	f	f
777968	159	CYP2D6	*18	PV01591	f	f
777938	159	CYP2D6	*2	PV00427	f	f
777972	159	CYP2D6	*20	PV01749	f	f
777974	159	CYP2D6	*21	PV02825	f	f
777976	159	CYP2D6	*22	PV00446	f	f
777980	159	CYP2D6	*24	PV00448	f	f
777982	159	CYP2D6	*25	PV00449	f	f
777984	159	CYP2D6	*26	PV00450	f	f
777986	159	CYP2D6	*27	PV00451	f	f
777990	159	CYP2D6	*29	PV00453	f	f
777940	159	CYP2D6	*3	PV00428	f	f
777992	159	CYP2D6	*30	PV00454	f	f
777996	159	CYP2D6	*32	PV00456	f	f
777998	159	CYP2D6	*33	PV00457	f	f
778000	159	CYP2D6	*34	PV00458	f	f
778002	159	CYP2D6	*35	PV00459	f	f
778004	159	CYP2D6	*36	PV02379	f	f
778006	159	CYP2D6	*37	PV00461	f	f
778008	159	CYP2D6	*38	PV01592	f	f
778010	159	CYP2D6	*39	PV00463	f	f
777942	159	CYP2D6	*4	PV00429	f	f
778012	159	CYP2D6	*40	PV00464	f	f
6237969	2	SLCO1B1	*50	PV02969	f	f
6237971	2	SLCO1B1	*51	PV02971	f	f
6237973	2	SLCO1B1	*52	PV02973	f	f
6237975	2	SLCO1B1	*53	PV02975	f	f
6237977	2	SLCO1B1	*54	PV02977	f	f
777379	90	CFTR	S549R(A>C)	\N	f	f
777339	90	CFTR	F1074L	\N	f	f
778160	159	CYP2D6	*121	PV00631	f	f
778162	159	CYP2D6	*122	PV00632	f	f
779412	90	TPMT	*9	\N	f	f
779414	90	TPMT	*10	\N	f	f
779416	90	TPMT	*11	\N	f	f
779418	90	TPMT	*12	\N	f	f
779420	90	TPMT	*13	\N	f	f
3827884	23	MT-RNR1	m.827A>G	\N	f	f
3827886	23	MT-RNR1	m.839A>G	\N	f	f
3827888	23	MT-RNR1	m.896A>G	\N	f	f
3827890	23	MT-RNR1	m.930A>G	\N	f	f
778164	159	CYP2D6	*123	PV00633	f	f
778166	159	CYP2D6	*124	PV00634	f	f
778168	159	CYP2D6	*125	PV00681	f	f
778170	159	CYP2D6	*126	PV00682	f	f
778172	159	CYP2D6	*127	PV00635	f	f
3827892	23	MT-RNR1	m.951G>A	\N	f	f
3827894	23	MT-RNR1	m.960C>del	\N	f	f
3827896	23	MT-RNR1	m.961T>G	\N	f	f
3827898	23	MT-RNR1	m.961T>del	\N	f	f
3827900	23	MT-RNR1	m.961T>del+Cn	\N	f	f
3827902	23	MT-RNR1	m.988G>A	\N	f	f
3827904	23	MT-RNR1	m.1095T>C	\N	f	f
3827906	23	MT-RNR1	m.1189T>C	\N	f	f
3827908	23	MT-RNR1	m.1243T>C	\N	f	f
3827910	23	MT-RNR1	m.1494C>T	\N	f	f
3827912	23	MT-RNR1	m.1520T>C	\N	f	f
3827914	23	MT-RNR1	m.1537C>T	\N	f	f
3827916	23	MT-RNR1	m.1555A>G	\N	f	f
3827918	23	MT-RNR1	m.1556C>T	\N	f	f
3685982	29	RYR1	c.15060G>C	\N	f	f
3685984	29	RYR1	c.14364+1G>T	\N	f	f
779422	90	TPMT	*14	\N	f	f
779424	90	TPMT	*15	\N	f	f
779426	90	TPMT	*16	\N	f	f
779428	90	TPMT	*17	\N	f	f
779430	90	TPMT	*18	\N	f	f
779432	90	TPMT	*19	\N	f	f
779434	90	TPMT	*20	\N	f	f
779436	90	TPMT	*21	\N	f	f
779438	90	TPMT	*22	\N	f	f
779440	90	TPMT	*23	\N	f	f
779442	90	TPMT	*24	\N	f	f
779444	90	TPMT	*25	\N	f	f
6238518	1	CYP2D6	*68+*4	\N	f	f
778174	159	CYP2D6	*128	PV01408	f	f
778176	159	CYP2D6	*129	PV00684	f	f
778098	159	CYP2D6	*90	PV00507	f	f
3318597	58	CYP4F2	*14	PV02326	f	f
2784574	77	CYP4F2	*5	PV02223	f	f
779295	152	SLCO1B1	*10	PV01627	f	f
779313	152	SLCO1B1	*19	PV01634	f	f
779329	152	SLCO1B1	*27	PV01640	f	f
779341	152	SLCO1B1	*33	PV01646	f	f
1002691	143	SLCO1B1	*40	PV01652	f	f
1002705	143	SLCO1B1	*47	PV01659	f	f
779392	90	TPMT	*1	\N	t	f
779394	90	TPMT	*2	\N	f	f
779396	90	TPMT	*3A	\N	f	f
779398	90	TPMT	*3B	\N	f	f
779400	90	TPMT	*3C	\N	f	f
779402	90	TPMT	*4	\N	f	f
6238520	1	CYP2D6	*36+*10	\N	f	f
6238522	1	CYP2D6	*13+*1	\N	f	f
6238525	1	CYP2D6	*13+*2	\N	f	f
6238527	1	CYP2D6	*13+*68x2+*4	\N	f	f
6238529	1	CYP2D6	*36x2+*10	\N	f	f
6238532	1	CYP2D6	*68+*2	\N	f	f
777446	159	CYP2B6	*13	PV00751	f	f
777458	159	CYP2B6	*20	PV00758	f	f
777488	159	CYP2B6	*35	PV00775	f	f
777546	159	CYP2C19	*8	PV02136	f	f
777688	159	CYP2C9	*11	PV00547	f	f
777696	159	CYP2C9	*15	PV00551	f	f
777710	159	CYP2C9	*22	PV00558	f	f
777674	159	CYP2C9	*4	PV00540	f	f
779404	90	TPMT	*5	\N	f	f
779406	90	TPMT	*6	\N	f	f
828095	89	MT-RNR1	Reference	\N	t	f
3827872	23	MT-RNR1	m.663A>G	\N	f	f
3827874	23	MT-RNR1	m.669T>C	\N	f	f
3827876	23	MT-RNR1	m.747A>G	\N	f	f
3827878	23	MT-RNR1	m.786G>A	\N	f	f
3827880	23	MT-RNR1	m.807A>C	\N	f	f
3827882	23	MT-RNR1	m.807A>G	\N	f	f
778146	159	CYP2D6	*114	PV00531	f	f
778148	159	CYP2D6	*115	PV00532	f	f
778150	159	CYP2D6	*116	PV00533	f	f
778152	159	CYP2D6	*117	PV00534	f	f
777262	90	CACNA1S	Reference	\N	t	f
777266	90	CACNA1S	c.3257G>A	\N	f	f
777307	90	CFTR	ivacaftor non-responsive CFTR sequence	\N	t	f
779408	90	TPMT	*7	\N	f	f
779410	90	TPMT	*8	\N	f	f
778156	159	CYP2D6	*119	PV00536	f	f
779160	90	RYR1	c.742G>A	\N	f	f
3685398	29	RYR1	c.1144C>A	\N	f	f
3685428	29	RYR1	c.1565A>G	\N	f	f
3685458	29	RYR1	c.2537C>T	\N	f	f
3685488	29	RYR1	c.4024A>G	\N	f	f
779498	90	UGT1A1	*37	\N	f	f
779500	90	UGT1A1	*80	\N	f	f
779502	90	UGT1A1	*80+*28	\N	f	f
779504	90	UGT1A1	*80+*37	\N	f	f
779507	90	VKORC1	rs9923231 reference (C)	\N	t	f
3685520	29	RYR1	c.5440A>G	\N	f	f
779509	90	VKORC1	rs9923231 variant (T)	\N	f	f
778218	159	CYP3A5	*1	PV01323	t	f
3685550	29	RYR1	c.6488G>T	\N	f	f
3685580	29	RYR1	c.6743G>A	\N	f	f
779202	90	RYR1	c.7063C>T	\N	f	f
779206	90	RYR1	c.7282G>A	\N	f	f
3685646	29	RYR1	c.7292A>T	\N	f	f
779220	90	RYR1	c.7373G>A	\N	f	f
1508724	71	ABCG2	rs2231142 reference (G)	\N	t	f
778222	159	CYP3A5	*3	PV01325	f	f
778230	159	CYP3A5	*7	PV01329	f	f
778232	159	CYP3A5	*8	PV01330	f	f
778234	159	CYP3A5	*9	PV01331	f	f
779064	158	NUDT15	*1	PV01597	t	f
779082	158	NUDT15	*10	PV01606	f	f
779084	158	NUDT15	*11	PV01607	f	f
779086	158	NUDT15	*12	PV01608	f	f
779088	158	NUDT15	*13	PV01609	f	f
779090	158	NUDT15	*14	PV01610	f	f
779092	158	NUDT15	*15	PV01611	f	f
779094	158	NUDT15	*16	PV01612	f	f
779096	158	NUDT15	*17	PV01613	f	f
779098	158	NUDT15	*18	PV01614	f	f
779100	158	NUDT15	*19	PV01615	f	f
779066	158	NUDT15	*2	PV01598	f	f
779102	158	NUDT15	*20	PV01616	f	f
5881976	8	NUDT15	*21	PV02804	f	f
3685704	29	RYR1	c.7879G>C	\N	f	f
3685734	29	RYR1	c.8654C>G	\N	f	f
3685764	29	RYR1	c.9850T>A	\N	f	f
3685794	29	RYR1	c.11120G>T	\N	f	f
3685824	29	RYR1	c.11958C>G	\N	f	f
3685854	29	RYR1	c.12533G>T	\N	f	f
3685884	29	RYR1	c.13918A>G	\N	f	f
3685914	29	RYR1	c.14422_14423delinsAA	\N	f	f
779446	90	TPMT	*26	\N	f	f
779448	90	TPMT	*27	\N	f	f
779450	90	TPMT	*28	\N	f	f
779452	90	TPMT	*29	\N	f	f
779454	90	TPMT	*30	\N	f	f
779456	90	TPMT	*31	\N	f	f
779458	90	TPMT	*32	\N	f	f
779460	90	TPMT	*33	\N	f	f
779462	90	TPMT	*34	\N	f	f
779464	90	TPMT	*35	\N	f	f
779466	90	TPMT	*36	\N	f	f
779468	90	TPMT	*37	\N	f	f
779470	90	TPMT	*38	\N	f	f
779472	90	TPMT	*39	\N	f	f
779474	90	TPMT	*40	\N	f	f
779476	90	TPMT	*41	\N	f	f
779068	158	NUDT15	*3	PV01599	f	f
779070	158	NUDT15	*4	PV01600	f	f
779072	158	NUDT15	*5	PV01601	f	f
779074	158	NUDT15	*6	PV01602	f	f
779076	158	NUDT15	*7	PV01603	f	f
779478	90	TPMT	*42	\N	f	f
779078	158	NUDT15	*8	PV01604	f	f
1002699	143	SLCO1B1	*44	PV01656	f	f
779480	90	TPMT	*43	\N	f	f
779482	90	TPMT	*44	\N	f	f
779488	90	UGT1A1	*1	\N	t	f
779490	90	UGT1A1	*6	\N	f	f
779492	90	UGT1A1	*27	\N	f	f
779494	90	UGT1A1	*28	\N	f	f
779496	90	UGT1A1	*36	\N	f	f
3685308	29	RYR1	c.38T>G	\N	f	f
779148	90	RYR1	Reference	\N	t	f
3318589	58	CYP4F2	*10	PV02318	f	f
3685310	29	RYR1	c.51_53del	\N	f	f
3685312	29	RYR1	c.97A>G	\N	f	f
778228	159	CYP3A5	*6	PV01328	f	f
779150	90	RYR1	c.103T>C	\N	f	f
3685316	29	RYR1	c.119G>C	\N	f	f
779152	90	RYR1	c.130C>T	\N	f	f
3685320	29	RYR1	c.131G>A	\N	f	f
3685322	29	RYR1	c.152C>A	\N	f	f
3685324	29	RYR1	c.178G>A	\N	f	f
3685326	29	RYR1	c.178G>T	\N	f	f
3685328	29	RYR1	c.190T>C	\N	f	f
3685330	29	RYR1	c.212C>A	\N	f	f
3685332	29	RYR1	c.251C>T	\N	f	f
3685334	29	RYR1	c.418G>A	\N	f	f
3685336	29	RYR1	c.455C>A	\N	f	f
3685338	29	RYR1	c.463C>A	\N	f	f
3685340	29	RYR1	c.467G>A	\N	f	f
3685342	29	RYR1	c.479A>G	\N	f	f
779154	90	RYR1	c.487C>T	\N	f	f
3685524	29	RYR1	c.5890C>T	\N	f	f
779156	90	RYR1	c.488G>T	\N	f	f
3685348	29	RYR1	c.488G>A	\N	f	f
3685350	29	RYR1	c.493G>A	\N	f	f
3685352	29	RYR1	c.496G>A	\N	f	f
3685354	29	RYR1	c.497A>G	\N	f	f
3685356	29	RYR1	c.526G>A	\N	f	f
3685358	29	RYR1	c.528G>T	\N	f	f
3685360	29	RYR1	c.529C>T	\N	f	f
3685362	29	RYR1	c.533A>G	\N	f	f
3685364	29	RYR1	c.533A>C	\N	f	f
3685368	29	RYR1	c.641C>T	\N	f	f
3685370	29	RYR1	c.652G>A	\N	f	f
3685372	29	RYR1	c.677T>A	\N	f	f
3685374	29	RYR1	c.680A>T	\N	f	f
779158	90	RYR1	c.742G>C	\N	f	f
3685380	29	RYR1	c.946C>T	\N	f	f
3685382	29	RYR1	c.947G>T	\N	f	f
779162	90	RYR1	c.982C>T	\N	f	f
3685386	29	RYR1	c.992_994dup	\N	f	f
779164	90	RYR1	c.1021G>A	\N	f	f
779166	90	RYR1	c.1021G>C	\N	f	f
3685392	29	RYR1	c.1024G>A	\N	f	f
3685394	29	RYR1	c.1100G>A	\N	f	f
3685396	29	RYR1	c.1100G>T	\N	f	f
779168	90	RYR1	c.1201C>T	\N	f	f
3685402	29	RYR1	c.1201C>A	\N	f	f
3685404	29	RYR1	c.1201C>G	\N	f	f
3685406	29	RYR1	c.1202G>T	\N	f	f
3685408	29	RYR1	c.1202G>A	\N	f	f
779170	90	RYR1	c.1209C>G	\N	f	f
3685412	29	RYR1	c.1411C>T	\N	f	f
3685414	29	RYR1	c.1422G>T	\N	f	f
3685416	29	RYR1	c.1453A>G	\N	f	f
3685418	29	RYR1	c.1459C>G	\N	f	f
3685420	29	RYR1	c.1460T>C	\N	f	f
3685422	29	RYR1	c.1475G>A	\N	f	f
3685424	29	RYR1	c.1553T>C	\N	f	f
779172	90	RYR1	c.1565A>C	\N	f	f
779174	90	RYR1	c.1589G>A	\N	f	f
779176	90	RYR1	c.1597C>T	\N	f	f
3685434	29	RYR1	c.1597C>A	\N	f	f
779178	90	RYR1	c.1598G>A	\N	f	f
3685438	29	RYR1	c.1615T>C	\N	f	f
3685440	29	RYR1	c.1615T>G	\N	f	f
3685442	29	RYR1	c.1630G>T	\N	f	f
779180	90	RYR1	c.1654C>T	\N	f	f
3685446	29	RYR1	c.1834G>C	\N	f	f
779182	90	RYR1	c.1840C>T	\N	f	f
779184	90	RYR1	c.1841G>T	\N	f	f
3685452	29	RYR1	c.2050G>C	\N	f	f
3685454	29	RYR1	c.2122G>A	\N	f	f
3685456	29	RYR1	c.2447C>T	\N	f	f
3685460	29	RYR1	c.2654G>A	\N	f	f
3685462	29	RYR1	c.2797G>A	\N	f	f
3685464	29	RYR1	c.2924G>A	\N	f	f
3685466	29	RYR1	c.2996G>A	\N	f	f
3685468	29	RYR1	c.3095G>A	\N	f	f
3685470	29	RYR1	c.3127C>T	\N	f	f
3685472	29	RYR1	c.3166G>C	\N	f	f
3685474	29	RYR1	c.3166G>A	\N	f	f
3685476	29	RYR1	c.3172G>A	\N	f	f
3685478	29	RYR1	c.3224G>A	\N	f	f
3685480	29	RYR1	c.3418C>T	\N	f	f
3685482	29	RYR1	c.3527C>T	\N	f	f
3685484	29	RYR1	c.3656A>C	\N	f	f
3685486	29	RYR1	c.3667G>A	\N	f	f
3685490	29	RYR1	c.4178A>G	\N	f	f
3685492	29	RYR1	c.4400A>G	\N	f	f
3685494	29	RYR1	c.4711A>G	\N	f	f
3685496	29	RYR1	c.4747C>T	\N	f	f
3685498	29	RYR1	c.4763C>T	\N	f	f
3685500	29	RYR1	c.4775C>T	\N	f	f
3685502	29	RYR1	c.5024T>C	\N	f	f
3685504	29	RYR1	c.5033A>G	\N	f	f
3685506	29	RYR1	c.5036G>A	\N	f	f
3685508	29	RYR1	c.5132A>G	\N	f	f
3685510	29	RYR1	c.5183C>T	\N	f	f
3685512	29	RYR1	c.5186T>G	\N	f	f
3685514	29	RYR1	c.5317C>T	\N	f	f
3685516	29	RYR1	c.5341T>C	\N	f	f
3685518	29	RYR1	c.5360C>T	\N	f	f
3685522	29	RYR1	c.5441T>A	\N	f	f
3685526	29	RYR1	c.6037A>C	\N	f	f
3685528	29	RYR1	c.6178G>T	\N	f	f
3685530	29	RYR1	c.6302T>A	\N	f	f
3685532	29	RYR1	c.6304G>C	\N	f	f
3685534	29	RYR1	c.6349G>C	\N	f	f
3685536	29	RYR1	c.6377G>A	\N	f	f
3685538	29	RYR1	c.6387C>G	\N	f	f
3685540	29	RYR1	c.6388G>A	\N	f	f
3685542	29	RYR1	c.6478G>A	\N	f	f
779186	90	RYR1	c.6487C>T	\N	f	f
779188	90	RYR1	c.6488G>A	\N	f	f
3685548	29	RYR1	c.6488G>C	\N	f	f
779190	90	RYR1	c.6502G>A	\N	f	f
3685554	29	RYR1	c.6544A>T	\N	f	f
3685556	29	RYR1	c.6548G>A	\N	f	f
3685558	29	RYR1	c.6599C>T	\N	f	f
778104	159	CYP2D6	*93	PV00510	f	f
778238	158	CYP4F2	*1	PV02212	t	f
3318591	58	CYP4F2	*11	PV02320	f	f
777736	159	CYP2C9	*35	PV00571	f	f
778329	90	DPYD	c.46C>G	\N	f	f
778347	90	DPYD	c.498G>A	\N	f	f
778331	90	DPYD	c.61C>T	\N	f	f
778349	90	DPYD	c.525G>A	\N	f	f
778351	90	DPYD	c.557A>G	\N	f	f
778353	90	DPYD	c.601A>C	\N	f	f
778355	90	DPYD	c.632A>G	\N	f	f
778357	90	DPYD	c.703C>T (*8)	\N	f	f
778158	159	CYP2D6	*120	PV00630	f	f
2091248	103	CYP2D6	*158	PV01951	f	f
2677041	81	CYP2D6	*165	PV02201	f	f
778359	90	DPYD	c.775A>G	\N	f	f
778361	90	DPYD	c.868A>G	\N	f	f
778363	90	DPYD	c.929T>C	\N	f	f
778365	90	DPYD	c.934C>T	\N	f	f
778367	90	DPYD	c.967G>A	\N	f	f
778369	90	DPYD	c.1003G>T (*11)	\N	f	f
778371	90	DPYD	c.1024G>A	\N	f	f
778333	90	DPYD	c.62G>A	\N	f	f
778335	90	DPYD	c.85T>C (*9A)	\N	f	f
777754	159	CYP2C9	*44	PV00580	f	f
778339	90	DPYD	c.313G>A	\N	f	f
778373	90	DPYD	c.1057C>T	\N	f	f
778375	90	DPYD	c.1108A>G	\N	f	f
3942827	22	DPYD	c.1129-5923C>G	\N	f	f
778377	90	DPYD	c.1129-5923C>G, c.1236G>A (HapB3)	\N	f	f
778379	90	DPYD	c.1156G>T (*12)	\N	f	f
778381	90	DPYD	c.1180C>T	\N	f	f
778383	90	DPYD	c.1181G>T	\N	f	f
778385	90	DPYD	c.1218G>A	\N	f	f
778387	90	DPYD	c.1260T>A	\N	f	f
778389	90	DPYD	c.1278G>T	\N	f	f
778391	90	DPYD	c.1294G>A	\N	f	f
778393	90	DPYD	c.1314T>G	\N	f	f
778395	90	DPYD	c.1349C>T	\N	f	f
3685578	29	RYR1	c.6742C>T	\N	f	f
778397	90	DPYD	c.1358C>G	\N	f	f
778399	90	DPYD	c.1371C>T	\N	f	f
778401	90	DPYD	c.1403C>A	\N	f	f
778403	90	DPYD	c.1475C>T	\N	f	f
778405	90	DPYD	c.1484A>G	\N	f	f
778407	90	DPYD	c.1519G>A	\N	f	f
778409	90	DPYD	c.1543G>A	\N	f	f
778411	90	DPYD	c.1577C>G	\N	f	f
778413	90	DPYD	c.1601G>A (*4)	\N	f	f
778415	90	DPYD	c.1615G>A	\N	f	f
778417	90	DPYD	c.1627A>G (*5)	\N	f	f
778419	90	DPYD	c.1679T>G (*13)	\N	f	f
778421	90	DPYD	c.1682G>T	\N	f	f
778423	90	DPYD	c.1774C>T	\N	f	f
778425	90	DPYD	c.1775G>A	\N	f	f
778427	90	DPYD	c.1777G>A	\N	f	f
778429	90	DPYD	c.1796T>C	\N	f	f
778431	90	DPYD	c.1896T>C	\N	f	f
778433	90	DPYD	c.1898delC (*3)	\N	f	f
778437	90	DPYD	c.1905+1G>A (*2A)	\N	f	f
778445	90	DPYD	c.2161G>A	\N	f	f
778447	90	DPYD	c.2186C>T	\N	f	f
778449	90	DPYD	c.2194G>A (*6)	\N	f	f
778451	90	DPYD	c.2195T>G	\N	f	f
778455	90	DPYD	c.2303C>A	\N	f	f
778457	90	DPYD	c.2336C>A	\N	f	f
778459	90	DPYD	c.2482G>A	\N	f	f
778461	90	DPYD	c.2582A>G	\N	f	f
778463	90	DPYD	c.2623A>C	\N	f	f
778465	90	DPYD	c.2639G>T	\N	f	f
778467	90	DPYD	c.2656C>T	\N	f	f
778469	90	DPYD	c.2657G>A (*9B)	\N	f	f
778471	90	DPYD	c.2846A>T	\N	f	f
778473	90	DPYD	c.2872A>G	\N	f	f
778475	90	DPYD	c.2915A>G	\N	f	f
778477	90	DPYD	c.2921A>T	\N	f	f
778479	90	DPYD	c.2933A>G	\N	f	f
778481	90	DPYD	c.2978T>G	\N	f	f
778487	90	DPYD	c.3049G>A	\N	f	f
778489	90	DPYD	c.3061G>C	\N	f	f
778491	90	DPYD	c.3067C>A	\N	f	f
3685366	29	RYR1	c.625G>A	\N	f	f
3685560	29	RYR1	c.6612C>G	\N	f	f
779192	90	RYR1	c.6617C>G	\N	f	f
779194	90	RYR1	c.6617C>T	\N	f	f
3685566	29	RYR1	c.6628G>T	\N	f	f
3685568	29	RYR1	c.6635T>A	\N	f	f
3685570	29	RYR1	c.6640G>A	\N	f	f
3685572	29	RYR1	c.6671G>A	\N	f	f
3685574	29	RYR1	c.6670C>T	\N	f	f
3685576	29	RYR1	c.6710G>A	\N	f	f
3685582	29	RYR1	c.6757C>T	\N	f	f
3685584	29	RYR1	c.6838G>A	\N	f	f
3685586	29	RYR1	c.6847A>C	\N	f	f
3685588	29	RYR1	c.6961A>G	\N	f	f
779196	90	RYR1	c.7007G>A	\N	f	f
3685592	29	RYR1	c.7018T>C	\N	f	f
2899144	73	CYP2B6	*40	PV02268	f	f
2899160	73	CYP2B6	*48	PV02284	f	f
777586	159	CYP2C19	*31	PV00625	f	f
777596	154	CYP2C19	*36	PV00730	f	t
777668	159	CYP2C9	*1	PV00537	t	f
777708	159	CYP2C9	*21	PV00557	f	f
777718	159	CYP2C9	*26	PV00562	f	f
777808	159	CYP2C9	*71	PV01444	f	f
1932995	109	CYP2C9	*81	PV01790	f	f
778134	159	CYP2D6	*108	PV00525	f	f
777960	154	CYP2D6	*13	PV00438	f	t
778194	159	CYP2D6	*138	PV00722	f	f
778198	159	CYP2D6	*140	PV01361	f	f
778341	90	DPYD	c.343A>G	\N	f	f
778343	90	DPYD	c.451A>G	\N	f	f
778154	159	CYP2D6	*118	PV00535	f	f
2091240	103	CYP2D6	*154	PV01934	f	f
778327	90	DPYD	Reference	\N	t	f
778345	90	DPYD	c.496A>G	\N	f	f
1508726	71	ABCG2	rs2231142 variant (T)	\N	f	f
777264	90	CACNA1S	c.520C>T	\N	f	f
777371	90	CFTR	R74W	\N	f	f
777321	90	CFTR	D110E	\N	f	f
777323	90	CFTR	D110H	\N	f	f
777363	90	CFTR	R117C	\N	f	f
777365	90	CFTR	R117H	\N	f	f
777347	90	CFTR	G178R	\N	f	f
777331	90	CFTR	E193K	\N	f	f
777315	90	CFTR	711+3A->G	\N	f	f
777355	90	CFTR	L206W	\N	f	f
777367	90	CFTR	R347H	\N	f	f
777369	90	CFTR	R352Q	\N	f	f
777319	90	CFTR	A455E	\N	f	f
777377	90	CFTR	S549N	\N	f	f
777381	90	CFTR	S549R(T>G)	\N	f	f
777351	90	CFTR	G551S	\N	f	f
777349	90	CFTR	G551D	\N	f	f
777329	90	CFTR	D579G	\N	f	f
777335	90	CFTR	E831X	\N	f	f
777309	90	CFTR	2789+5G->A	\N	f	f
777383	90	CFTR	S945L	\N	f	f
777385	90	CFTR	S977F	\N	f	f
777311	90	CFTR	3272-26A->G	\N	f	f
777337	90	CFTR	F1052V	\N	f	f
777353	90	CFTR	K1060T	\N	f	f
777317	90	CFTR	A1067T	\N	f	f
777341	90	CFTR	G1069R	\N	f	f
777359	90	CFTR	R1070Q	\N	f	f
777361	90	CFTR	R1070W	\N	f	f
777325	90	CFTR	D1152H	\N	f	f
777313	90	CFTR	3849+10kbC->T	\N	f	f
777343	90	CFTR	G1244E	\N	f	f
777373	90	CFTR	S1251N	\N	f	f
777375	90	CFTR	S1255P	\N	f	f
777327	90	CFTR	D1270N	\N	f	f
777345	90	CFTR	G1349D	\N	f	f
777422	159	CYP2B6	*1	PV00738	t	f
777424	159	CYP2B6	*2	PV00740	f	f
777426	159	CYP2B6	*3	PV00741	f	f
777582	159	CYP2C19	*29	PV00623	f	f
777584	159	CYP2C19	*30	PV02141	f	f
777588	159	CYP2C19	*32	PV00626	f	f
777590	159	CYP2C19	*33	PV00627	f	f
778100	159	CYP2D6	*91	PV00508	f	f
778102	159	CYP2D6	*92	PV00509	f	f
778106	159	CYP2D6	*94	PV00511	f	f
778110	159	CYP2D6	*96	PV00513	f	f
778439	90	DPYD	c.1906A>C	\N	f	f
778441	90	DPYD	c.1990G>T	\N	f	f
778443	90	DPYD	c.2021G>A	\N	f	f
778666	91	G6PD	B (reference)	\N	t	f
778748	90	G6PD	A- 680T_376G	\N	f	f
778750	90	G6PD	A- 968C_376G	\N	f	f
778916	90	G6PD	Aachen	\N	f	f
778962	90	G6PD	Abeno	\N	f	f
778950	90	G6PD	Alhambra	\N	f	f
778702	90	G6PD	Amazonia	\N	f	f
779006	90	G6PD	Amiens	\N	f	f
778700	90	G6PD	Amsterdam	\N	f	f
778956	90	G6PD	Anadia	\N	f	f
778746	90	G6PD	Ananindeua	\N	f	f
779036	90	G6PD	Arakawa	\N	f	f
778708	90	G6PD	Asahi	\N	f	f
778686	90	G6PD	Aures	\N	f	f
778836	90	G6PD	Aveiro	\N	f	f
778858	90	G6PD	Bajo Maumere	\N	f	f
778844	90	G6PD	Bangkok	\N	f	f
779008	90	G6PD	Bangkok Noi	\N	f	f
778738	90	G6PD	Bao Loc	\N	f	f
778952	90	G6PD	Bari	\N	f	f
778766	90	G6PD	Belem	\N	f	f
779034	90	G6PD	Buenos Aires	\N	f	f
778762	90	G6PD	Cairo	\N	f	f
778922	90	G6PD	Calvo Mackenna	\N	f	f
779032	90	G6PD	Campinas	\N	f	f
779012	90	G6PD	Canton, Taiwan-Hakka, Gifu-like, Agrigento-like	\N	f	f
778994	90	G6PD	Cassano	\N	f	f
778894	90	G6PD	Chatham	\N	f	f
778794	90	G6PD	Chikugo	\N	f	f
778854	90	G6PD	Chinese-1	\N	f	f
778900	90	G6PD	Chinese-5	\N	f	f
778816	90	G6PD	Cincinnati	\N	f	f
778840	90	G6PD	Cleveland Corum	\N	f	f
779010	90	G6PD	Cosenza	\N	f	f
778698	90	G6PD	Costanzo	\N	f	f
778958	90	G6PD	Covao do Lobo	\N	f	f
778740	90	G6PD	Crispim	\N	f	f
778810	90	G6PD	Dagua	\N	f	f
778830	90	G6PD	Durham	\N	f	f
778888	90	G6PD	Farroupilha	\N	f	f
779004	90	G6PD	Figuera da Foz	\N	f	f
779018	90	G6PD	Flores	\N	f	f
779030	90	G6PD	Fukaya	\N	f	f
778896	90	G6PD	Fushan	\N	f	f
778674	90	G6PD	Gaohe	\N	f	f
778960	90	G6PD	Clinic	\N	f	f
778804	90	G6PD	Coimbra Shunde	\N	f	f
778978	90	G6PD	Georgia	\N	f	f
778680	90	G6PD	Gidra	\N	f	f
778936	90	G6PD	Guadalajara	\N	f	f
778726	90	G6PD	Guangzhou	\N	f	f
778852	90	G6PD	Haikou	\N	f	f
778734	90	G6PD	Hammersmith	\N	f	f
778818	90	G6PD	Harilaou	\N	f	f
778998	90	G6PD	Harima	\N	f	f
778940	90	G6PD	Hartford	\N	f	f
778710	90	G6PD	Hechi	\N	f	f
778996	90	G6PD	Hermoupolis	\N	f	f
778676	90	G6PD	Honiara	\N	f	f
778770	90	G6PD	Ilesha	\N	f	f
778890	90	G6PD	Insuli	\N	f	f
778934	90	G6PD	Iowa, Walter Reed, Springfield	\N	f	f
778908	90	G6PD	Iwatsuki	\N	f	f
778970	90	G6PD	Japan, Shinagawa	\N	f	f
779022	90	G6PD	Kaiping, Anant, Dhon, Sapporo-like, Wosera	\N	f	f
778880	90	G6PD	Kalyan-Kerala, Jamnaga, Rohini	\N	f	f
778688	90	G6PD	Kambos	\N	f	f
779016	90	G6PD	Kamiube, Keelung	\N	f	f
778692	90	G6PD	Kamogawa	\N	f	f
778972	90	G6PD	Kawasaki	\N	f	f
778690	90	G6PD	Kozukata	\N	f	f
778944	90	G6PD	Krakow	\N	f	f
778848	90	G6PD	La Jolla	\N	f	f
778672	90	G6PD	Lages	\N	f	f
779026	90	G6PD	Laibin	\N	f	f
778842	90	G6PD	Lille	\N	f	f
778768	90	G6PD	Liuzhou	\N	f	f
778914	90	G6PD	Loma Linda	\N	f	f
778878	90	G6PD	Ludhiana	\N	f	f
778930	90	G6PD	Lynwood	\N	f	f
778932	90	G6PD	Madrid	\N	f	f
778776	90	G6PD	Mahidol	\N	f	f
778796	90	G6PD	Malaga	\N	f	f
778884	90	G6PD	Manhattan	\N	f	f
778984	90	G6PD	Mediterranean Haplotype	\N	f	f
778696	90	G6PD	Metaponto	\N	f	f
778822	90	G6PD	Mexico City	\N	f	f
778790	90	G6PD	Miaoli	\N	f	f
778814	90	G6PD	Minnesota, Marion, Gastonia, LeJeune	\N	f	f
778902	90	G6PD	Mira d'Aire	\N	f	f
778860	90	G6PD	Mizushima	\N	f	f
778868	90	G6PD	Montalbano	\N	f	f
778920	90	G6PD	Montpellier	\N	f	f
778754	90	G6PD	Mt Sinai	\N	f	f
778974	90	G6PD	Munich	\N	f	f
778718	90	G6PD	Murcia Oristano	\N	f	f
778704	90	G6PD	Musashino	\N	f	f
778716	90	G6PD	Namouru	\N	f	f
778788	90	G6PD	Nankang	\N	f	f
778828	90	G6PD	Nanning	\N	f	f
778784	90	G6PD	Naone	\N	f	f
778882	90	G6PD	Nara	\N	f	f
778948	90	G6PD	Nashville, Anaheim, Portici	\N	f	f
779024	90	G6PD	Neapolis	\N	f	f
779014	90	G6PD	Nice	\N	f	f
778808	90	G6PD	Nilgiri	\N	f	f
778668	90	G6PD	No name	\N	f	f
778824	90	G6PD	North Dallas	\N	f	f
778926	90	G6PD	Olomouc	\N	f	f
778876	90	G6PD	Omiya	\N	f	f
778684	90	G6PD	Orissa	\N	f	f
778866	90	G6PD	Osaka	\N	f	f
778694	90	G6PD	Palestrina	\N	f	f
778862	90	G6PD	Papua	\N	f	f
778904	90	G6PD	Partenope	\N	f	f
778986	90	G6PD	Pawnee	\N	f	f
778864	90	G6PD	Piotrkow	\N	f	f
778778	90	G6PD	Plymouth	\N	f	f
778942	90	G6PD	Praha	\N	f	f
778760	90	G6PD	Quing Yan	\N	f	f
778820	90	G6PD	Radlowo	\N	f	f
778886	90	G6PD	Rehevot	\N	f	f
778682	90	G6PD	Rignano	\N	f	f
778924	90	G6PD	Riley	\N	f	f
778968	90	G6PD	Riverside	\N	f	f
778838	90	G6PD	Roubaix	\N	f	f
778992	90	G6PD	S. Antioco	\N	f	f
778758	90	G6PD	Salerno Pyrgos	\N	f	f
778806	90	G6PD	Santiago	\N	f	f
778736	90	G6PD	Sao Borja	\N	f	f
778856	90	G6PD	Seattle, Lodi, Modena, Ferrara II, Athens-like	\N	f	f
778874	90	G6PD	Seoul	\N	f	f
778910	90	G6PD	Serres	\N	f	f
778772	90	G6PD	Shenzen	\N	f	f
778792	90	G6PD	Shinshu	\N	f	f
778812	90	G6PD	Sibari	\N	f	f
778730	90	G6PD	Sierra Leone	\N	f	f
778670	90	G6PD	Sinnai	\N	f	f
778706	90	G6PD	Songklanagarind	\N	f	f
779028	90	G6PD	Split	\N	f	f
778832	90	G6PD	Stonybrook	\N	f	f
778846	90	G6PD	Sugao	\N	f	f
778982	90	G6PD	Sumare	\N	f	f
778678	90	G6PD	Sunderland	\N	f	f
778980	90	G6PD	Surabaya	\N	f	f
778966	90	G6PD	Suwalki	\N	f	f
778720	90	G6PD	Swansea	\N	f	f
3564276	31	G6PD	Telti, Kobe	\N	f	f
778918	90	G6PD	Tenri	\N	f	f
778976	90	G6PD	Tokyo, Fukushima	\N	f	f
778782	90	G6PD	Toledo	\N	f	f
778928	90	G6PD	Tomah	\N	f	f
778912	90	G6PD	Tondela	\N	f	f
778898	90	G6PD	Torun	\N	f	f
778798	90	G6PD	Tsukui	\N	f	f
778722	90	G6PD	Ube Konan	\N	f	f
779000	90	G6PD	Union,Maewo, Chinese-2, Kalo	\N	f	f
778728	90	G6PD	Urayasu	\N	f	f
778964	90	G6PD	Utrecht	\N	f	f
778764	90	G6PD	Valladolid	\N	f	f
778732	90	G6PD	Vancouver	\N	f	f
778756	90	G6PD	Vanua Lava	\N	f	f
778870	90	G6PD	Viangchan, Jammu	\N	f	f
778892	90	G6PD	Villeurbanne	\N	f	f
778786	90	G6PD	Volendam	\N	f	f
778834	90	G6PD	Wayne	\N	f	f
778850	90	G6PD	Wexham	\N	f	f
3685594	29	RYR1	c.7025A>G	\N	f	f
3685596	29	RYR1	c.7032G>C	\N	f	f
3685598	29	RYR1	c.7035C>A	\N	f	f
3685600	29	RYR1	c.7036G>A	\N	f	f
779198	90	RYR1	c.7042_7044delGAG	\N	f	f
3685604	29	RYR1	c.7043A>G	\N	f	f
778946	90	G6PD	Wisconsin	\N	f	f
779020	90	G6PD	Yunan	\N	f	f
779200	90	RYR1	c.7048G>A	\N	f	f
3685608	29	RYR1	c.7060G>A	\N	f	f
3685612	29	RYR1	c.7073T>A	\N	f	f
3685614	29	RYR1	c.7076G>A	\N	f	f
3685616	29	RYR1	c.7075C>T	\N	f	f
3685618	29	RYR1	c.7084G>A	\N	f	f
3685620	29	RYR1	c.7085A>G	\N	f	f
3685622	29	RYR1	c.7089C>G	\N	f	f
3685624	29	RYR1	c.7090T>G	\N	f	f
3685626	29	RYR1	c.7097C>G	\N	f	f
3685628	29	RYR1	c.7099G>A	\N	f	f
3685630	29	RYR1	c.7112A>G	\N	f	f
3685632	29	RYR1	c.7123G>A	\N	f	f
779204	90	RYR1	c.7124G>C	\N	f	f
3685636	29	RYR1	c.7199A>G	\N	f	f
3685638	29	RYR1	c.7210G>A	\N	f	f
3685642	29	RYR1	c.7291G>A	\N	f	f
3685644	29	RYR1	c.7291G>T	\N	f	f
779208	90	RYR1	c.7300G>A	\N	f	f
779210	90	RYR1	c.7304G>A	\N	f	f
3685652	29	RYR1	c.7304G>T	\N	f	f
3685654	29	RYR1	c.7307G>A	\N	f	f
3685656	29	RYR1	c.7310C>T	\N	f	f
3685658	29	RYR1	c.7317G>C	\N	f	f
779212	90	RYR1	c.7354C>T	\N	f	f
3685662	29	RYR1	c.7355G>A	\N	f	f
3685664	29	RYR1	c.7355G>C	\N	f	f
3685666	29	RYR1	c.7358T>C	\N	f	f
779214	90	RYR1	c.7360C>T	\N	f	f
779216	90	RYR1	c.7361G>A	\N	f	f
779218	90	RYR1	c.7372C>T	\N	f	f
3685676	29	RYR1	c.7373G>T	\N	f	f
3685678	29	RYR1	c.7385C>T	\N	f	f
3685680	29	RYR1	c.7487C>T	\N	f	f
779222	90	RYR1	c.7522C>T	\N	f	f
779224	90	RYR1	c.7522C>G	\N	f	f
779226	90	RYR1	c.7523G>A	\N	f	f
3685688	29	RYR1	c.7528T>C	\N	f	f
3685690	29	RYR1	c.7760A>G	\N	f	f
3685692	29	RYR1	c.7771C>G	\N	f	f
3685696	29	RYR1	c.7777C>G	\N	f	f
3685698	29	RYR1	c.7778G>A	\N	f	f
3685700	29	RYR1	c.7787C>T	\N	f	f
3685702	29	RYR1	c.7816T>A	\N	f	f
3685706	29	RYR1	c.7879G>A	\N	f	f
3685708	29	RYR1	c.8005G>A	\N	f	f
3685710	29	RYR1	c.8026C>T	\N	f	f
3685712	29	RYR1	c.8054C>T	\N	f	f
3685714	29	RYR1	c.8188G>C	\N	f	f
3685716	29	RYR1	c.8189A>G	\N	f	f
3685718	29	RYR1	c.8198G>A	\N	f	f
3685720	29	RYR1	c.8290G>A	\N	f	f
3685722	29	RYR1	c.8327C>T	\N	f	f
3685724	29	RYR1	c.8360C>G	\N	f	f
3685728	29	RYR1	c.8527T>C	\N	f	f
3685730	29	RYR1	c.8600T>A	\N	f	f
3685732	29	RYR1	c.8638G>A	\N	f	f
3685736	29	RYR1	c.8729C>T	\N	f	f
3685738	29	RYR1	c.8926C>T	\N	f	f
3685740	29	RYR1	c.9152G>A	\N	f	f
3685742	29	RYR1	c.9268G>A	\N	f	f
779228	90	RYR1	c.9310G>A	\N	f	f
3685746	29	RYR1	c.9356G>A	\N	f	f
3685748	29	RYR1	c.9499C>T	\N	f	f
3685750	29	RYR1	c.9635A>G	\N	f	f
3685752	29	RYR1	c.9649T>C	\N	f	f
3685754	29	RYR1	c.9652G>A	\N	f	f
3685756	29	RYR1	c.9676G>C	\N	f	f
3685760	29	RYR1	c.9797T>C	\N	f	f
3685762	29	RYR1	c.9848G>A	\N	f	f
3685766	29	RYR1	c.9868G>A	\N	f	f
3685768	29	RYR1	c.10042C>T	\N	f	f
3685770	29	RYR1	c.10043G>A	\N	f	f
3685772	29	RYR1	c.10097G>A	\N	f	f
3685774	29	RYR1	c.10100A>G	\N	f	f
3685776	29	RYR1	c.10229C>A	\N	f	f
3685778	29	RYR1	c.10237A>T	\N	f	f
3685780	29	RYR1	c.10252A>G	\N	f	f
3685782	29	RYR1	c.10556C>T	\N	f	f
3685784	29	RYR1	c.10616G>A	\N	f	f
3685786	29	RYR1	c.10747G>C	\N	f	f
3685788	29	RYR1	c.10750G>C	\N	f	f
3685792	29	RYR1	c.11086G>C	\N	f	f
3685796	29	RYR1	c.11126C>T	\N	f	f
3685798	29	RYR1	c.11132C>T	\N	f	f
3685800	29	RYR1	c.11266C>G	\N	f	f
3685802	29	RYR1	c.11315G>A	\N	f	f
3685804	29	RYR1	c.11314C>T	\N	f	f
3685806	29	RYR1	c.11416G>A	\N	f	f
3685808	29	RYR1	c.11518G>A	\N	f	f
3685810	29	RYR1	c.11708G>A	\N	f	f
3685812	29	RYR1	c.11723A>T	\N	f	f
3685814	29	RYR1	c.11748T>G	\N	f	f
3685816	29	RYR1	c.11798A>G	\N	f	f
3685818	29	RYR1	c.11813G>A	\N	f	f
3685820	29	RYR1	c.11947C>T	\N	f	f
779230	90	RYR1	c.11969G>T	\N	f	f
3685828	29	RYR1	c.12028G>A	\N	f	f
3685830	29	RYR1	c.12064A>G	\N	f	f
3685832	29	RYR1	c.12115A>T	\N	f	f
3685834	29	RYR1	c.12121C>T	\N	f	f
3685836	29	RYR1	c.12149C>A	\N	f	f
3685838	29	RYR1	c.12242C>T	\N	f	f
3685840	29	RYR1	c.12310G>C	\N	f	f
3685842	29	RYR1	c.12355A>T	\N	f	f
3685844	29	RYR1	c.12383C>T	\N	f	f
3685846	29	RYR1	c.12398A>G	\N	f	f
3685848	29	RYR1	c.12406C>A	\N	f	f
3685850	29	RYR1	c.12413T>C	\N	f	f
3685852	29	RYR1	c.12532G>A	\N	f	f
3685858	29	RYR1	c.12689T>G	\N	f	f
3685860	29	RYR1	c.12700G>C	\N	f	f
3685862	29	RYR1	c.12700G>T	\N	f	f
3685864	29	RYR1	c.12848A>T	\N	f	f
3685866	29	RYR1	c.12881C>T	\N	f	f
3685868	29	RYR1	c.12884C>T	\N	f	f
3685870	29	RYR1	c.13505A>G	\N	f	f
3685872	29	RYR1	c.13513G>C	\N	f	f
\.


--
-- Data for Name: allele_frequency; Type: TABLE DATA; Schema: cpic; Owner: -
--

COPY cpic.allele_frequency (alleleid, population, frequency, label, version) FROM stdin;
2091251	6344341	\N	\N	1
2091253	6344341	\N	\N	1
2091255	6344341	\N	\N	1
2091257	6344341	\N	\N	1
2091259	6344341	\N	\N	1
779035	6345335	\N	\N	1
779688	6344342	\N	\N	1
1777304	6344342	\N	\N	1
777939	6344342	\N	\N	1
779691	6344342	\N	\N	1
1777307	6344342	\N	\N	1
777941	6344342	\N	\N	1
779694	6344342	\N	\N	1
777943	6344342	\N	\N	1
1777311	6344342	\N	\N	1
1777312	6344342	\N	\N	1
777945	6344342	\N	\N	1
777947	6344342	\N	\N	1
779699	6344342	\N	\N	1
777949	6344342	\N	\N	1
777951	6344342	\N	\N	1
777953	6344342	\N	\N	1
779703	6344342	\N	\N	1
777955	6344342	0.0663	0.0663	1
779705	6344342	0	0.0	1
777957	6344342	\N	\N	1
777959	6344342	\N	\N	1
777961	6344342	\N	\N	1
777963	6344342	\N	\N	1
777965	6344342	\N	\N	1
777967	6344342	\N	\N	1
779712	6344342	\N	\N	1
777969	6344342	\N	\N	1
777971	6344342	\N	\N	1
777973	6344342	\N	\N	1
777975	6344342	\N	\N	1
777977	6344342	\N	\N	1
777979	6344342	\N	\N	1
777981	6344342	\N	\N	1
777983	6344342	\N	\N	1
777985	6344342	\N	\N	1
777987	6344342	\N	\N	1
777989	6344342	\N	\N	1
777991	6344342	\N	\N	1
779725	6344342	\N	\N	1
777993	6344342	\N	\N	1
777995	6344342	\N	\N	1
777997	6344342	\N	\N	1
777999	6344342	\N	\N	1
778001	6344342	\N	\N	1
778003	6344342	\N	\N	1
779732	6344342	\N	\N	1
778005	6344342	0.0098	0.0098	1
779734	6344342	0	0.0	1
778007	6344342	\N	\N	1
778009	6344342	\N	\N	1
778011	6344342	\N	\N	1
778013	6344342	\N	\N	1
778015	6344342	\N	\N	1
779740	6344342	\N	\N	1
779741	6344342	\N	\N	1
778017	6344342	\N	\N	1
778019	6344342	\N	\N	1
779744	6344342	\N	\N	1
778021	6344342	\N	\N	1
778023	6344342	\N	\N	1
779747	6344342	\N	\N	1
778025	6344342	\N	\N	1
778027	6344342	\N	\N	1
778029	6344342	\N	\N	1
778031	6344342	\N	\N	1
778033	6344342	\N	\N	1
778035	6344342	\N	\N	1
778037	6344342	\N	\N	1
778039	6344342	\N	\N	1
778041	6344342	\N	\N	1
778043	6344342	\N	\N	1
778045	6344342	\N	\N	1
778049	6344342	\N	\N	1
778051	6344342	\N	\N	1
778053	6344342	\N	\N	1
778055	6344342	\N	\N	1
778057	6344342	\N	\N	1
778059	6344342	\N	\N	1
778061	6344342	\N	\N	1
778063	6344342	\N	\N	1
778065	6344342	\N	\N	1
778067	6344342	\N	\N	1
778069	6344342	\N	\N	1
778071	6344342	\N	\N	1
778073	6344342	\N	\N	1
778075	6344342	\N	\N	1
778077	6344342	\N	\N	1
778079	6344342	\N	\N	1
778081	6344342	\N	\N	1
778083	6344342	\N	\N	1
778085	6344342	\N	\N	1
778087	6344342	\N	\N	1
778089	6344342	\N	\N	1
778091	6344342	\N	\N	1
778093	6344342	\N	\N	1
778095	6344342	\N	\N	1
778097	6344342	\N	\N	1
778099	6344342	\N	\N	1
778101	6344342	\N	\N	1
778103	6344342	\N	\N	1
778105	6344342	\N	\N	1
778107	6344342	\N	\N	1
778109	6344342	\N	\N	1
778111	6344342	\N	\N	1
778113	6344342	\N	\N	1
778115	6344342	\N	\N	1
778117	6344342	\N	\N	1
778119	6344342	\N	\N	1
778121	6344342	\N	\N	1
778123	6344342	\N	\N	1
778125	6344342	\N	\N	1
778127	6344342	\N	\N	1
778129	6344342	\N	\N	1
778131	6344342	\N	\N	1
778133	6344342	\N	\N	1
778135	6344342	\N	\N	1
778137	6344342	\N	\N	1
778139	6344342	\N	\N	1
778141	6344342	\N	\N	1
778143	6344342	\N	\N	1
778145	6344342	\N	\N	1
778147	6344342	\N	\N	1
778149	6344342	\N	\N	1
778151	6344342	\N	\N	1
778153	6344342	\N	\N	1
778155	6344342	\N	\N	1
778157	6344342	\N	\N	1
778159	6344342	\N	\N	1
778161	6344342	\N	\N	1
778163	6344342	\N	\N	1
778165	6344342	\N	\N	1
778167	6344342	\N	\N	1
778169	6344342	\N	\N	1
778171	6344342	\N	\N	1
778173	6344342	\N	\N	1
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777939	6344425	0.102	0.102	1
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778003	6344426	0.0013	0.0013	1
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778027	6344426	0.0013	0.0013	1
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778103	6344426	\N	\N	1
778105	6344426	\N	\N	1
