| Literature DB >> 27453983 |
Yejin Kim1, Yong Hyun Park2, Ji Youl Lee2, In Young Choi3, Hwanjo Yu4.
Abstract
BACKGROUND: Prostate specific antigen (PSA) is an important biomarker to monitor the response to the treatment, but has not been fully utilized as a whole sequence. We used a longitudinal biomarker PSA to discover a new prognostic pattern that predicts castration-resistant prostate cancer (CRPC) after androgen deprivation therapy.Entities:
Keywords: Frequent sequential pattern mining; Longitudinal biomarker; Prediction; Prostate specific antigen
Mesh:
Substances:
Year: 2016 PMID: 27453983 PMCID: PMC4959354 DOI: 10.1186/s12911-016-0297-0
Source DB: PubMed Journal: BMC Med Inform Decis Mak ISSN: 1472-6947 Impact factor: 2.796
Characteristics and p-value of patients that have PSA after nadir
| Total | CRPC |
| |
|---|---|---|---|
| Number of patients | 261 | 96 | - |
| Mean follow-up ± s.d. | 38.7 ± 3.5 | 15.8 ± 2.4 | - |
| Mean age ± s.d. | 74 ± 0.9 | 75.2 ± 1.7 | 0.011 |
| Mean time to nadir ± s.d. | 10.3 ± 1.3 | 8.9 ± 1.9 | 0.001 |
| Mean pretreatment PSA ± s.d. | 119.4 ± 39.4 | 151.5 ± 80.3 | 0.054 |
| Mean PSA nadir ± s.d. | 12.8 ± 11.7 | 6.6 ± 4.2 | 0.142 |
| Bone metastasis | |||
| Yes | 41 | 15 | 0.490 |
| No | 220 | 79 | |
| Gleason score | 0.117 | ||
| ≤ 6 | 59 (22.6 %) | 20 (21.2 %) | |
| 7 | 72 (27.5 %) | 21 (22.3 %) | |
| ≥ 8 | 130 (49.8 %) | 53 (56.3 %) | |
| ADT type | |||
| Leuprin only | 154 | 44 | 0.012 |
| Zoladex only | 36 | 10 | |
| Leuprin → Zoladex | 9 | 6 | |
| Zoladex → Leuprin | 49 | 27 | |
| Anti-androgen only | 13 | 7 |
Fig. 1PSA sequence. Example of transformation based on after-nadir longitudinal PSA by entropy-bases discretization
Fig. 2PSAV sequence and PSAV state. Example of transformation based on after-nadir longitudinal PSA by entropy-bases discretization. PSA sequence (Fig. 1) was transformed to PSAV sequence (Fig. 2), then PSAV state (L ,M ,H ) sequence. Dashed lines: borders between PSAV states (labeled)
Example of PrefixSpan
| PSAV state sequences | |
|---|---|
| 1 |
|
| 2 |
|
| 3 |
|
| 4 |
|
Discretization to PSAV state after nadir by equal-frequency binning
| PSAV state | Interval | |
|---|---|---|
| Frequency [%] | Value [ng/(ml ·mo)] | |
|
| (0, 20] | (, −0.005] |
|
| (20, 40] | (−0.005, 0.005] |
|
| (40, 60] | (0.005, 0.068] |
|
| (60, 80] | (0.068, 0.454] |
|
| (80, 100] | (0.454,) |
L = Low, M L = Medium low, M = Medium, M H = Medium high, H = High
Discretization to PSAV state after nadir by entropy-based discretization
| PSAV state | Interval | |
|---|---|---|
| Frequency [%] | Value [ng/(ml ·mo)] | |
|
| (0, 14.1] | (, −0.048] |
|
| (14.1, 99.2] | (−0.048, 5.43] |
|
| (99.2, 100] | (5.43,) |
L = Low, M = Medium, H = High
After-nadir candidate patterns by equal-frequency binning
| Pattern (support) | |||||
|---|---|---|---|---|---|
| HSPC | CRPC | ||||
|
| (0.51), |
| (0.34) |
| (0.45) |
|
| (0.54), |
| (0.31) |
| (0.43) |
|
| (0.54), |
| (0.35) |
| (0.36) |
|
| (0.54), |
| (0.40) | ||
|
| (0.48), |
| (0.31) | ||
|
| (0.36) | ||||
|
| (0.34) | ||||
|
| (0.32) | ||||
L ,M L ,M ,M H ,H = PSAV state (Table 3)
After-nadir candidate patterns by entropy-based discretization
| Pattern (support) | |||
|---|---|---|---|
| HSPC | CRPC | ||
|
| (0.49) |
| (0.88) |
|
| (0.95) |
| (0.55) |
|
| (0.33) | ||
|
| (0.38) | ||
|
| (0.49) | ||
|
| (0.81) | ||
L ,M = PSAV state (Table 4)
Mean and s.d. of logistic regression and Cox regression when each candidate pattern is added to baseline
| Pattern | Logistic regression | Cox regression | ||
|---|---|---|---|---|
| Mean AUC | s.d. | Mean C-index | s.d. | |
| Baseline | 0.6951 | 0.0686 | 0.6898 | 0.0429 |
|
| 0.8102 | 0.0549 | 0.7938 | 0.0323 |
|
| 0.8110 | 0.0500 | 0.7815 | 0.0384 |
|
| 0.8103 | 0.0665 | 0.8090 | 0.0442 |
|
| 0.8245 | 0.0352 | 0.7733 | 0.0623 |
|
| 0.8446 | 0.0459 | 0.8174 | 0.0411 |
Fig. 3Pattern L →L . Time vs. CRPC-free rate to measure survival difference. p≤0.001
Fig. 4Pretreatment PSA. Time vs. CRPC-free rate to measure survival difference. p=0.003
Fig. 5PSA nadir. Time vs. CRPC-free rate to measure survival difference. p=0.031
Fig. 6Time to PSA nadir. Time vs. CRPC-free rate to measure survival difference. p=0.021
Discretization to PSAV state before nadir by equal-frequency binning
| PSAV state | Interval | |
|---|---|---|
| Frequency [%] | Value [ng/(ml ·mo)] | |
|
| (0, 20] | (, −5.567] |
|
| (20, 40] | (−5.567, −0.611] |
|
| (40, 60] | (−0.611, −0.026] |
|
| (60, 80] | (−0.026, 0.005] |
|
| (80, 100] | (0.005,) |
L = Low, M L = Medium low, M = Medium, M H = Medium high, H = High
Before-nadir candidate patterns by equal-frequency binning
| Pattern (support) | |||
|---|---|---|---|
| HSPC | CRPC | ||
|
| (0.78) |
| (0.64) |
|
| (0.52) |
| (0.61) |
|
| (0.41) |
| (0.52) |
|
| (0.36) |
| (0.31) |
|
| (0.37) |
| (0.33) |
|
| (0.33) | ||
L ,M L ,M ,M H ,H = PSAV state (Table 8)