Methods for Measuring Therapy Resistance

Abstract

The present invention concerns methods for measuring drug resistance by correlating genotypic information with phenotypic profiles. In one embodiment, a method for interpreting genotypic information is described wherein a genetic code is generated from a patient sample, a list of mutations known or suspect to play a role in the development of resistance to one or more drugs is obtained from the generated genetic code, a genotype database is interrogated for previous samples with similar mutations relating to said one or more drugs, a phenotype for said sample is located in a phenotype database, the mean change in inhibition is determined based on all the examples located in said phenotype database, a distribution of sensitivities of one or more drugs suitable for treating a specific indication is determined.

1 . A method of optimizing therapy for a patient, comprising: 
 a) obtaining a genetic sequence of a biological sample from the patient;    b) identifying a mutation pattern of the genetic sequence of the biological sample, wherein the mutation pattern comprises at least one mutation that correlates to resistance to at least one therapy;    c) searching a relational genotype/phenotype database for at least one database mutation pattern similar to said mutation pattern of the genetic sequence of the biological sample;    d) obtaining at least one database phenotype of the at least one database mutation pattern;    e) determining the phenotype of the biological sample to the therapy from the at least one database phenotype;    f) repeating steps b) through e) for a group of therapies to obtain a series of phenotypes for the biological sample; and    g) selecting an optimal therapy for the patient from the series of phenotypes.    
   
   
       2 . A method of designing a therapy for a patient, comprising: 
 a) obtaining a genetic sequence of a biological sample of the patient;    b) identifying a mutation pattern of the genetic sequence of the biological sample, wherein the mutation pattern comprises at least one mutation that correlates to resistance to at least one therapy;    c) searching a relational genotype/phenotype database for at least one database mutation pattern similar to said mutation pattern of the genetic sequence of the biological sample;    d) obtaining at least one database phenotype of the at least one database mutation pattern;    e) determining the phenotype of the biological sample from the at least one database phenotype;    f) repeating steps b) trough e) for a group of therapies to obtain a series of phenotypes for the biological sample; and    g) designing a therapy for the patient from the series of phenotypes.