Treatment determination and impact analysis
A method, software, database and system for determining an optimal treatment for an illness in an individual and for determining the impact (e.g., side effects and intended benefits) of the treatment in the individual are presented in which an attribute profile of the individual containing genetic and non-genetic attributes is compared against a database containing combinations genetic and non-genetic attributes that are statistically associated with successful treatment of the illness in other individuals.
1. A computer-implemented method comprising:
discovering, via processor-based statistical testing on a first attribute profile database, a set of core single nucleotide polymorphism (SNP) attributes that are statistically associated above a first threshold with a non-monogenic health attribute, wherein the first attribute profile database is associated with a population of individuals and contains SNP attributes and behavioral phenotype attributes;
discovering, via processor-based statistical testing on the first attribute profile database, a set of behavioral phenotype attributes that are statistically associated above a second threshold with the non-monogenic health attribute and statistically associated above a third threshold with the set of core SNP attributes;
receiving a query that is representative of the non-monogenic health attribute with respect to an individual;
accessing a second attribute profile database associated with the individual, the second attribute profile database comprising SNP attributes and behavioral phenotype attributes associated with the individual;
calculating, based on the second attribute profile database, a genetic risk associated with the non-monogenic health attribute, wherein the genetic risk is determined at least in part based on a degree of overlap between the SNP attributes of the individual and the set of core SNP attributes;
identifying, based on the genetic risk, a reportable set of behavioral phenotype attributes from the set of behavioral phenotype attributes that are statistically associated above a fourth threshold with the non-monogenic health attribute, wherein the reportable set of behavioral phenotype attributes indicate behaviors that, when modified, have an observable statistical correlation with a propensity of the individual to exhibit a non-monogenic health condition associated with the non-monogenic health attribute; and
transmitting, in response to the query, the reportable set of behavioral phenotype attributes as modifiable attributes related to the non-monogenic health condition.
2. The computer-implemented method of claim 1 , wherein the reportable set of behavioral phenotype attributes is transmitted as a list ranked according to the observable statistical correlation of the propensity of the individual to exhibit the non-monogenic health condition.
3. The computer-implemented method of claim 1 , further comprising:
transmitting representations of the degree of overlap of the SNP attributes of the individual and the set of core SNP attributes.
4. The computer-implemented method of claim 1 , further comprising:
transmitting representations of a number of SNP attributes of the individual from the set of core SNP attributes indicating a higher propensity to exhibit the non-monogenic health condition.
5. The computer-implemented method of claim 1 , wherein the set of core SNP attributes is discovered at least in part through attribute expansion of an initial set of SNP attributes correlated with the non-monogenic health attribute into surrounding genetic regions and selection of core SNP attributes that are statistically associated above a fifth threshold with the non-monogenic health attribute.
6. The computer-implemented method of claim 1 , wherein the set of core SNP attributes is discovered at least in part through attribute expansion of an initial set of SNP attributes correlated with the non-monogenic health attribute above a fifth threshold and selection of core SNP attributes that are statistically associated above the first threshold with the non-monogenic health attribute.
7. The computer-implemented method of claim 1 , wherein the set of core SNP attributes is discovered at least in part through attribute expansion of an initial set of SNP attributes correlated with the non-monogenic health attribute into the set of core SNP attributes that are statistically associated above the first threshold with the non-monogenic health attribute.
8. An article of manufacture including a non-transitory computer-readable medium, having stored thereon program instructions that, upon execution by a computing device, cause the computing device to perform operations comprising:
discovering, via processor-based statistical testing on a first attribute profile database, a set of core single nucleotide polymorphism (SNP) attributes that are statistically associated above a first threshold with a non-monogenic health attribute, wherein the first attribute profile database is associated with a population of individuals and contains SNP attributes and behavioral phenotype attributes;
discovering, via processor-based statistical testing on the first attribute profile database, a set of behavioral phenotype attributes that are statistically associated above a second threshold with the non-monogenic health attribute and statistically associated above a third threshold with the set of core SNP attributes;
receiving a query that is representative of the non-monogenic health attribute with respect to an individual;
accessing a second attribute profile database associated with the individual, the second attribute profile database comprising SNP attributes and behavioral phenotype attributes associated with the individual;
calculating, based on the second attribute profile database, a genetic risk associated with the non-monogenic health attribute, wherein the genetic risk is determined at least in part based on a degree of overlap between the SNP attributes of the individual and the set of core SNP attributes;
identifying, based on the genetic risk, a reportable set of behavioral phenotype attributes from the set of behavioral phenotype attributes that are statistically associated above a fourth threshold with the non-monogenic health attribute, wherein the reportable set of behavioral phenotype attributes indicate behaviors that, when modified, have an observable statistical correlation with a propensity of the individual to exhibit a non-monogenic health condition associated with the non-monogenic health attribute; and
transmitting, in response to the query, the reportable set of behavioral phenotype attributes as modifiable attributes related to the non-monogenic health condition.
9. The article of manufacture of claim 8 , wherein the reportable set of behavioral phenotype attributes is transmitted as a list ranked according to the observable statistical correlation of the propensity of the individual to exhibit the non-monogenic health condition.
10. The article of manufacture of claim 8 , wherein the operations further comprise:
transmitting representations of the degree of overlap of the SNP attributes of the individual and the set of core SNP attributes.
11. The article of manufacture of claim 8 , wherein the operations further comprise:
transmitting representations of a number of SNP attributes of the individual from the set of core SNP attributes indicating a higher propensity to exhibit the non-monogenic health condition.
12. The article of manufacture of claim 8 , wherein the set of core SNP attributes is discovered at least in part through attribute expansion of an initial set of SNP attributes correlated with the non-monogenic health attribute into surrounding genetic regions and selection of core SNP attributes that are statistically associated above a fifth threshold with the non-monogenic health attribute.
13. The article of manufacture of claim 8 , wherein the set of core SNP attributes is discovered at least in part through attribute expansion of an initial set of SNP attributes correlated with the non-monogenic health attribute above a fifth threshold and selection of core SNP attributes that are statistically associated above the first threshold with the non-monogenic health attribute.
14. The article of manufacture of claim 8 , wherein the set of core SNP attributes is discovered at least in part through attribute expansion of an initial set of SNP attributes correlated with the non-monogenic health attribute into the set of core SNP attributes that are statistically associated above the first threshold with the non-monogenic health attribute.
15. A computer-implemented method comprising:
receiving a query that is representative of a non-monogenic health attribute with respect to an individual, wherein a set of core single nucleotide polymorphism (SNP) attributes are statistically associated above a first threshold with the non-monogenic health attribute, and wherein a set of behavioral phenotype attributes are statistically associated above a second threshold with the non-monogenic health attribute and statistically associated above a third threshold with the set of core SNP attributes;
accessing an attribute profile database associated with the individual, the attribute profile database comprising SNP attributes and behavioral phenotype attributes associated with the individual;
calculating, based on the attribute profile database, a genetic risk associated with the non-monogenic health attribute, wherein the genetic risk is determined at least in part based on a degree of overlap between the SNP attributes of the individual and the set of core SNP attributes;
identifying, based on the genetic risk, a reportable set of behavioral phenotype attributes from the set of behavioral phenotype attributes that are statistically associated above a fourth threshold with the non-monogenic health attribute, wherein the set of core SNP attributes is discovered at least in part through attribute expansion of an initial set of SNP attributes correlated with the non-monogenic health attribute above a fifth threshold and selection of core SNP attributes that are statistically associated above the first threshold with the non-monogenic health attribute; and
transmitting, in response to the query, the reportable set of behavioral phenotype attributes as modifiable attributes related to a non-monogenic health condition associated with the non-monogenic health attribute.
16. The computer-implemented method of claim 15 , wherein the reportable set of behavioral phenotype attributes is transmitted as a list ranked according to an observable statistical correlation of a propensity of the individual to exhibit the non-monogenic health condition.
17. The computer-implemented method of claim 15 , further comprising:
transmitting representations of the degree of overlap of the SNP attributes of the individual and the set of core SNP attributes.
18. The computer-implemented method of claim 15 , further comprising:
transmitting representations of a number of SNP attributes of the individual from the set of core SNP attributes indicating a higher propensity to exhibit the non-monogenic health condition.
19. The computer-implemented method of claim 15 , wherein the attribute expansion is into surrounding genetic regions.
20. The computer-implemented method of claim 15 , wherein the attribute expansion is into the set of core SNP attributes.