Here are the column names of the data we are plotting:
fouraminobutyrate, glutarate, lysine and pyruvate represent different parts of the butyrate synthesis pathway.
summary(coxph(Surv(tt_pfs_d, pfs_event)~log(total)+age10+strata(cohort)+imputed_ecog+ bmi + imputed_smoking_status, mixed_solid_tumor))
Call:
coxph(formula = Surv(tt_pfs_d, pfs_event) ~ log(total) + age10 +
strata(cohort) + imputed_ecog + bmi + imputed_smoking_status,
data = mixed_solid_tumor)
n= 143, number of events= 91
(4 observations deleted due to missingness)
coef exp(coef) se(coef) z
log(total) -4.888e-01 6.134e-01 2.285e-01 -2.140
age10 5.623e-02 1.058e+00 1.202e-01 0.468
imputed_ecog 2.914e-01 1.338e+00 2.107e-01 1.383
bmi -2.354e-05 1.000e+00 2.553e-02 -0.001
imputed_smoking_statusCurrent or Former -2.118e-01 8.092e-01 2.680e-01 -0.790
Pr(>|z|)
log(total) 0.0324 *
age10 0.6398
imputed_ecog 0.1666
bmi 0.9993
imputed_smoking_statusCurrent or Former 0.4294
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
exp(coef) exp(-coef) lower .95
log(total) 0.6134 1.6304 0.3920
age10 1.0578 0.9453 0.8359
imputed_ecog 1.3384 0.7472 0.8855
bmi 1.0000 1.0000 0.9512
imputed_smoking_statusCurrent or Former 0.8092 1.2359 0.4786
upper .95
log(total) 0.9598
age10 1.3388
imputed_ecog 2.0227
bmi 1.0513
imputed_smoking_statusCurrent or Former 1.3681
Concordance= 0.577 (se = 0.037 )
Likelihood ratio test= 7.72 on 5 df, p=0.2
Wald test = 7.84 on 5 df, p=0.2
Score (logrank) test = 7.9 on 5 df, p=0.2
summary(coxph(Surv(tt_os_d, event_os)~log(total)+age10+strata(cohort)+imputed_ecog+ bmi + imputed_smoking_status, mixed_solid_tumor))
Call:
coxph(formula = Surv(tt_os_d, event_os) ~ log(total) + age10 +
strata(cohort) + imputed_ecog + bmi + imputed_smoking_status,
data = mixed_solid_tumor)
n= 147, number of events= 77
coef exp(coef) se(coef) z
log(total) -0.81070 0.44455 0.25578 -3.170
age10 0.30101 1.35122 0.13667 2.202
imputed_ecog 0.49269 1.63671 0.22929 2.149
bmi 0.05787 1.05958 0.02795 2.071
imputed_smoking_statusCurrent or Former -0.56478 0.56848 0.28977 -1.949
Pr(>|z|)
log(total) 0.00153 **
age10 0.02763 *
imputed_ecog 0.03165 *
bmi 0.03838 *
imputed_smoking_statusCurrent or Former 0.05129 .
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
exp(coef) exp(-coef) lower .95
log(total) 0.4445 2.2495 0.2693
age10 1.3512 0.7401 1.0337
imputed_ecog 1.6367 0.6110 1.0442
bmi 1.0596 0.9438 1.0031
imputed_smoking_statusCurrent or Former 0.5685 1.7591 0.3222
upper .95
log(total) 0.7339
age10 1.7663
imputed_ecog 2.5653
bmi 1.1192
imputed_smoking_statusCurrent or Former 1.0032
Concordance= 0.664 (se = 0.041 )
Likelihood ratio test= 26.68 on 5 df, p=7e-05
Wald test = 25.37 on 5 df, p=1e-04
Score (logrank) test = 26.92 on 5 df, p=6e-05