IL254255A

Gene expression profile algorithm and test for determining prognosis of prostate cancer

Abstract

This record has no abstract on file.

IL254255A, drawing sheet 1
Sheet 1 of 579

Term

No projected expiry on record.

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25 claims: 16 independent, 9 dependent

  1. 1
    A method of predicting a likelihood of a clinical outcome for a patient with prostate cancer, comprising:(a) measuring levels of RNA transcripts of the following genes: FAM13C, KLK2, AZGP1, and SRD5A2, in a biological sample containing cancer cells obtained from the patient;(b) normalizing the levels of the RNA transcripts relative to the level of at least one reference RNA transcript to obtain normalized RNA expression levels;(c) calculating an androgen group score for the patient from the normalized RNA expression levels;and (d) predicting the likelihood of a clinical outcome for the patient based on the androgen group score, wherein decreased normalized RNA expression of each of FAM13C, KLK2, AZGP1, and SRD5A2 correlates with an increased likelihood of a negative clinical outcome.
  2. 6
    The method of any one of claims 1-5, wherein the clinical outcome is upgrading of prostate cancer.
  3. 7
    The method of any one of claims 1-5, wherein the clinical outcome is upstaging of prostate cancer.
  4. 8
    The method of any one of claims 1-5, wherein the clinical outcome is recurrence of prostate cancer.
  5. 9
    The method of any one of claims 1-5, wherein the clinical outcome is non-organconfined disease.
  6. 10
    The method of any one of claims 1-5, wherein the clinical outcome is adverse pathology.
  7. 11
    The method of any one of claims 1-10, wherein determination of the level of the RNA transcripts includes quantitative polymerase chain reaction.
  8. 12
    The method of any one of claims 1-11, further comprising creating a report summarizing the likelihood of a clinical outcome.
  9. 13
    The method of any one of claims 1-12, wherein the biological sample containing cancer cells is fixed, paraffin-embedded, or fresh, or frozen.
  10. 14
    The method of any one of claims 1-13, wherein part (d) comprises predicting the likelihood of a clinical outcome for the patient based on the androgen group score of the sample as compared to androgen group scores for reference prostate cancer samples.
  11. 15
    A method of predicting a likelihood of a clinical outcome for a patient with prostate cancer, comprising:(a) measuring in a biological sample containing cancer cells obtained from the patient levels of RNA transcripts of each of a set of genes of from any one of algorithms RSO, RSI, RS2, RS3, RS4, RS17, RS18, RS19, RS20, RS21, RS22, RS23, RS24, RS25, or RS26, shown in Table 4;105 (b) normalizing the levels of the RNA transcripts relative to at least one reference RNA transcript to obtain normalized RNA expression levels;(c) calculating a quantitative score for the patient using the normalized RNA expression levels according to any one of algorithms RSO, RSI, RS2, RS3, RS4, RS 17, RS18, RS19, RS20, RS21, RS22, RS23, RS24, RS25, or RS26, shown in Table 4;and (d) predicting the likelihood of a clinical outcome for the patient based on the quantitative score.
  12. 21
    The method of any one of claims 15-20, wherein the levels of the RNA transcripts are measured by a method comprising quantitative polymerase chain reaction.
  13. 22
    The method of any one of claims 15-21, further comprising creating a report summarizing the likelihood of a clinical outcome.
  14. 23
    The method of any one of claims 15-22, wherein the biological sample containing cancer cells is fixed, paraffin-embedded, or fresh, or frozen.
  15. 24
    The method of any one of claims 15-23, wherein part (d) comprises predicting the likelihood of a clinical outcome for the patient based on the quantitative score of the sample as compared to quantitative scores for reference prostate cancer samples. 106
  16. 25
    The method of any one of claims 15-24, wherein the expression levels of the RNA transcripts are normalized relative to the expression levels of ARF1, ATP5E, CLTC, GPS1, andPGKl.