Early diagnosis of bladder cancer through the detection of urinary tyrosine-phosphorylated proteins.

BACKGROUND: A noninvasive, highly sensitive and specific urine test is needed for bladder cancer (BC) diagnosis and surveillance in addition to the invasive cystoscopy. We previously described the diagnostic effectiveness of urinary tyrosine-phosphorylated proteins (UPY) and a new assay (UPY-A) for their measurement in a pilot study. The aim of this work was to evaluate the performances of the UPY-A using an independent cohort of 262 subjects.
METHODS: Urinary tyrosine-phosphorylated proteins were measured by UPY-A test. The area under ROC curve, cutoff, sensitivity, specificity and predictive values of UPY-A were determined. The association of UPY levels with tumour staging, grading, recurrence and progression risk was analysed by Kruskal-Wallis and Wilcoxon's test. To test the probability to be a case if positive at the UPY-A, a logistic test adjusted for possible confounding factor was used.
RESULTS: Results showed a significant difference of UPY levels between patients with BC vs healthy controls. For the best cutoff value, 261.26 Standard Units (SU), the sensitivity of the assay was 80.43% and the specificity was 78.82%. A statistically significant difference was found in the levels of UPY at different BC stages and grades between Ta and T1 and with different risk of recurrence and progression. A statistically significant increased risk for BC at UPY-A ⩾261.26 SU was observed.
CONCLUSIONS: The present study supplies important information on the diagnostic characteristics of UPY-A revealing remarkable performances for early stages and allowing its potential use for different applications encompassing the screening of high-risk subjects, primary diagnosis and posttreatment surveillance.

Urinary bladder cancer (BC) ranks ninth in cancer incidence worldwide (Ploeg ; Chavan ). The diagnosis is made after symptom observation and urethrocystoscopy (UCS) (Boman ; Babjuk ). More than 50% of non-muscle-invasive (NMIBC: CIS, Ta, T1) patients experienced at least one recurrence, whereas 10–15% have a progression to an invasive form (Simon ). Patients undergo a lifelong follow-up, and also for this reason BC is the most costly cancer from diagnosis to death (Hong and Loughlin, 2008; Gore and Gilbert, 2013).

Several markers have been proposed, but none of them was able to replace the UCS in the diagnosis and follow-up of BC (Cheung ) as documented by the current urological guidelines (AUA, EAU and NCCN). It should be noted that estimates of UCS false negative range from 10 to 40% (Kriegmair ; Schneeweiss ; Zaak ), and specificity can be as low as 37% (Sarosdy ). Although available urine markers are not usually considered to possess sufficient sensitivity and specificity for the screening of BC in the general population (Parker and Spiess, 2011; Cheung ), many markers have shown potential value in improving diagnostic accuracy when used to complement current strategies or when multiple markers are used (Miremami and Kyprianou, 2014). Nevertheless, it should be noted that some markers with comparable performances are used for the screening of other tumours (Greene ). As a possible cause of their limited use, the urinary tests showing better diagnostic performances such as uCyt+/immunoCyt, microsatellite and FISH require personnels with specific training, have low throughput and are very expensive (Cheung ). Therefore, to be widely usable and to allow a wide clinical validation, new urinary tests for BC should be standardised, easier to interpret and cost-effective (Cheung ).

The present study grounds on our previous proteomic analyses of BC tissue and urine revealing the presence of anomalous levels of tyrosine-phosphorylated proteins (Khadjavi ). Urinary tyrosine-phosphorylated proteins (UPY) showed remarkable stability in urine but their low concentration initially required complex and expensive proteomic techniques for their measurement (Khadjavi ), thus limiting their practical utility. Substantial work was then required to miniaturise the method encompassing all purification and detection steps, to standardise the results and to limit the assay costs. Its performances were investigated in a training set of subjects (Khadjavi ). Therefore, the aim of the present study was to evaluate the UPY assay (UPY-A) in an independent set of subjects and its diagnostic performances at different tumour stages and grades, its association with tumour progression and recurrence risk and the effects of possible confounding factors such as age, smoking status and gender.

Materials and methods

Patients and sample collection

Urine samples from newly diagnosed BC patients were collected at the Urology Clinic of Città della Salute e della Scienza, Hospital San Giovanni Battista, University of Turin. Urine samples from healthy volunteers were obtained from the Blood Bank of the same hospital. Patients with suspected BC were enrolled in this study before undergoing transurethral resection of the bladder. Patients with a histological diagnosis (reference standard) different from BC or with a previous BC history were subsequently excluded. The list of recruited patients included people who: (1) received a first diagnosis of BC between September 2010 to May 2012; (2) lived in the study area at the time of diagnosis; (3) were over age 18 years; (4) were able to provide interview data. Healthy controls included people who did not present symptoms or signs of BC, previous BC history and meeting the criteria 2, 3 and 4. All recruited subjects underwent the test. The study was approved by the local research Ethical Committee and was conducted according to Declaration of Helsinki's prescriptions. All the subjects included in the protocol signed a declaration of informed consent and received a brief questionnaire covering detailed medical and personal information. The subjects were classified as ‘current smokers', ‘former smokers' (quit smoking for at least 10 years) and ‘nonsmokers'. A total of 260 participants provided age information, 239 smoking status and 262 gender information. Bladder cancer grade and stage were determined according to the WHO (1973 and 2004) criteria and TNM classification, respectively. Risk scores for recurrence and progression were calculated for each patient affected by NMIBC according to the EORTC definition. These factors comprise tumour grade, stage, size, number and concomitant CIS. Based on these scores, patients were considered to have very low (score 0), low (score 1–4), moderate (scores 5–9) or high (scores 10–17) risk for recurrence and very low (score 0), low (scores 2–6), moderate (scores 7–13) or high (scores 14–23) risk for progression (Babjuc ). Voided urine samples (10–50 ml) were collected from the second micturition of the morning. Samples were stored at −20 °C within 2 h from collection. The test was performed within 6 months from collection. No significant decay of UPY levels have been noticed after 2 years of cold storage.

Measurement of urine tyrosine-phosphorylated proteins

Urine samples were centrifuged for 20 min at 700 g at 10 °C and supernatants were collected. Five hundred microlitres of supernatant from each patient were processed using the UPY-A (Khadjavi ). Detection was performed by using a standard chemiluminescence reader (Synergy HT Multi-Mode Microplate Reader; Biotek, AHSI, Milano, Italy): luminescence end point, sensitivity 100% and integration time 1.0 s. Using an external peptide calibration curve, UPY levels were interpolated and expressed as Standard Units (SU).

Statistical analyses

Summary data are presented as means, medians and standard deviations for continuous variables and as percentages for categorical variables. Differences between BC cases and healthy controls were tested using the nonparametric Wilcoxon's rank-sum test or χ2 test for continuous variables or categorical variables, respectively. The accuracy of the UPY-A biomarker was tested computing the area under the ROC curve (AUC). Different cutoff levels were used to determine which performs better. Positive predictive value (PPV) and negative predictive value (NPV) were also computed at each cutoff point. The Kruskal–Wallis test was used to assess if UPY levels were different between groups characterised by different tumour stage and grade, as well as different recurrence or progression risks. The increase in the prediction performance in predicting recurrence and progression given by the UPY-A marker with respect to the EORTC risk class was evaluated computing the AUC of three logistic models, including age, gender, smoke: model 1, +EORTC risk class; model 2, +UPY-A marker; model 3, +UPY-A marker+EORTC risk class. The AUC of the three models were compared by means of the DeLong test (DeLong ). To test the probability to be a case if positive at the UPY-A, we used a multivariate logistic regression adjusted for age, smoking status and gender. All tests were two-sided and we considered a 5% significance level. Analyses were performed using SAS software, version 9.2 (SAS Institute Inc., Milano, Italy).

Results

Evaluation and optimisation of urine tyrosine-phosphorylated protein assay

To evaluate the results concerning UPY obtained in the pilot study (Khadjavi ) in an independent cohort of subjects, 262 new urinary samples collected from 92 BC patients and 170 healthy subjects were analysed (Table 1). Urinary tyrosine-phosphorylated protein levels showed a significant difference (P=1.71 × 10−23 Wilcoxon's rank-sum test) between patients with BC vs healthy controls (means: 434.8±258.4 vs 157.9±114.6 SU), corresponding to an ∼4-fold increase of UPY (Figure 1A). We performed the ROC curve analysis (Figure 1B), and the ROC AUC including UPY-A, age, smoking status and gender as predictors was 0.92, with a 95% confidence interval (CI) of 0.89–0.97. For the best cutoff value (261.26 SU), the performances of the UPY-A, using only the test as a predictor, were calculated, displaying a sensitivity of 80.43% and a specificity of 78.82%, with a PPV of 67.3% and an NPV of 88.2%. It should be noted that the sensitivity of the assay is still 57.61%, with 95.29% of specificity. To evaluate possible interferences, we tested 16 urine samples from patients with cystitis and variable levels of leukocyturia and hematuria. The obtained results (mean values: 179.1±117.1 SU) were not significantly different from control subjects (P=0.364 Wilcoxon's rank-sum test).

Table 1

Clinical and pathologic characteristics of subjects

	Controls		Bladder cancer cases
	No.	%	No.	%
Total (n=262)	170	65	92	35
Sex
Women	39	15	6	2
Man	131	50	86	33
Age (years)
⩽55	53	20	11	4
56–65	72	28	25	9
66–75	28	11	37	14
>75	15	6	19	7
Missing	2	1
Smoking
Current smokers	28	11	53	20
Former smokers	10	4	20	8
Non-smokers	111	42	17	6
Missing	21	8	2	1
Histology at first diagnosis
CIS			4	4
Ta			53	53
T1			20	22
T2–3			15	16
Grading at first diagnosis
CIS			4	4
1			29	33
2			29	33
3			30	34
WHO 2004
Low grade			43	47
High grade			43	47
Missing			6	6
Risk of recurrence (n=73)
Very low			24	33
Low			40	55
Moderate			9	12
Risk of progression (n=73)
Very low			40	55
Low			17	23
Moderate			16	22

Abbreviations: CIS=carcinoma in situ; WHO=World Health Organisation.

Figure 1

Urinary tyrosine-phosphorylated protein levels in urine samples. (A) Analysis of urinary UPY levels in samples of healthy subjects (n=170) and BC patients (n=92) using the UPY-A. Healthy subject (control (CTRL)) mean levels: 157.9±114.5 SU; BC mean levels: 434.8±258.4 SU. Significance of the differences: P=1.71 × 10−23 by Wilcoxon's rank-sum test. The solid lines indicate the mean values; the dotted line indicates the best cutoff value. (B) ROC curve of total UPY levels adjusted for age, smoking status and gender. (C) Estimated risks of BC: results of the regression model including UPY-A, age, smoking status and gender as predictors.

Diagnostic performances of urine tyrosine-phosphorylated protein assay at different stages and grades of BC

The diagnostic performances of the assay have been evaluated according to tumour stages and grades. Figure 2A shows the levels of UPY-A in control, CIS, Ta, T1, T2–3 tumour stages, whereas Figure 2B shows the variations observed in G1, G2 and G3. A statistically significant difference was found in UPY levels between the control group and the groups of patients at different tumour stages and grades (P=8.10 × 10−22 and P=6.99 × 10−22, respectively by Kruskal–Wallis test). Table 2 shows the P-values for the pairwise Wilcoxon's rank-sum test, evaluating different levels of UPY among different stages (A), and grades (B) and the P values (on the bottom) for the overall Kruskall–Wallis test, taking control samples as reference. In particular, a statistically significant difference was observed through UPY-A at early stages between Ta and T1 (P=0.008 by Wilcoxon's rank-sum test) (see also Figures 2A). The sensitivity and specificity of the assay at various stages and grades are displayed in Table 3, with the specificity being fixed at 78.82% to facilitate the comparison of the sensitivities. Consistently with the results shown in Figure 2, the sensitivity of the assay displayed striking increases from Ta to T1 or T2–3 (from 69.81 to 95.00% or 93.33%) and a less pronounced increase from G1 to G2 (from 68.97 to 79.31%). A remarkable increase of sensitivity was also observed from G2 to G3 (from 79.31 to 90.00%). With fixed specificity at 90% (cutoff value: 335.57 SU), the sensitivities were 50.94% for Ta and 80.00% for T1 and T2–3. By increasing the cutoff value to 373.39 SU (thus leading specificity to 95.29%), a sensitivity decrease was observed, especially for the earlier stages of BC, but the observed values were still above 47.17% and 75.00% in Ta and T1, respectively. We also performed the analysis of UPY levels in patients classified according to the WHO 2004 classification of BC and we observed a statistically significant difference between the low- and high-grade patients as shown in Figure 3 (P=0.0005 by Wilcoxon's rank-sum test). Moreover, a statistically significant difference was found in the levels of UPY in groups of patients with different risk of recurrence (P=0.002 by Kruskal–Wallis test) (Figure 4A) and progression (P=0.001 by Kruskal–Wallis test) (Figure 4B). In particular, UPY levels in the very low/low recurrence risk groups were lower compared with those in the moderate risk group (P=0.004 and P=0.002, respectively, by Wilcoxon's rank-sum test), whereas levels of UPY in the very low progression risk group were lower compared with those in moderate risk group (P=0.001 by Wilcoxon's rank-sum test), strengthening the biological plausibility of the association and indicating that UPY-A could help in the prediction of progression and recurrence of BC. The increase in the prediction of recurrence and progression given by the UPY-A marker was also evaluated. The AUC of the model including EORTC risk class as predictor (model 1) was 0.61 (0.45–0.76); the AUC of the model including UPY-A marker as predictor (model 2) was 0.69 (0.54–0.83); finally, the AUC of the model including both variables (model 3) was 0.70 (0.56–0.84). The increase in prediction performance was evaluated by the De Long test (model 2 vs model 1 P=0.30; model 3 vs model 1 P=0.21).

Figure 2

Urinary tyrosine-phosphorylated protein levels in subjects with different BC stages and grades. (A) Distribution of UPY levels in subjects with different BC stages. Control (CTRL), n=170, mean 157.9±114.5 SU; carcinoma in situ (CIS), n=4, mean 400.8±114.8 SU; Ta, n=53, mean 356.3±181.0 SU; T1, n=20, mean 540.9±346.6 SU; and T2–3, n=15, mean 579.5±290.6 SU. Urinary tyrosine-phosphorylated protein levels are significantly different in groups of BC patients with different BC stages (Kruskal–Wallis test, P=8.10 × 10−22). (B) Distribution of UPY levels in subjects with different BC grades. Control, n=170, mean 157.9±114.5 SU; G1, n=29, mean 357.6±217.9 SU; G2, n=29, mean 361.7±122.9 SU; and G3, n=30, mean 584.5±336.4 SU. Urinary tyrosine-phosphorylated protein levels are significantly different in groups of BC patients with different BC grades (Kruskal–Wallis test, P=6.99 × 10−22). The solid lines indicate the mean values; the dotted line indicates the best cutoff value.

Table 2

P-values for the pairwise Wilcoxon's rank-sum test, evaluating different levels of UPY among different stages (A) and grades (B)

A	CTRL	CIS	Ta	T1	T2–3	B	CTRL	G1	G2	G3
CTRL	—	0.004	4.26 × 10−13	3.11 × 10−11	1.55 × 10−7	CTRL	—	3.04 × 10−7	7.02 × 10−11	2.83 × 10−14
CIS	—	—	0.532	0.439	0.230	G1	—	—	0.592	0.002
Ta	—	—	—	0.009	0.005	G2	—	—	—	0.001
T1	—	—	—	—	0.368	G3	—	—	—	—
T2–3	—	—	—	—	—
P=8.10 × 10−22						P=6.99 × 10−22

Abbreviations: CIS=carcinoma in situ; CTRL=control; UPY=urinary tyrosine-phosphorylated proteins.

P-values on the bottom refers to the overall Kruskall–Wallis test. Control samples were taken as a reference.

Table 3

Diagnostic performances of UPY-A at different BC stages and grades

BC stage or grade	AUC	95% Confidence interval	Sensitivity (specificity 78.82%) (cut-off value 261.26 SU)	Sensitivity (specificity 90.00%) (cut-off value 335.57 SU)	Sensitivity (specificity 95.29%) (cut-off value 373.39 SU)
CIS	0.924	0.873–0.958	100%	50.00%	50.00%
Ta	0.830	0.774–0.877	69.81%	50.94%	47.17%
T1	0.954	0.914–0.979	95.00%	80.00%	75.00%
T2–3	0.909	0.858–0.946	93.33%	80.00%	73.33%
G1	0.798	0.735–0.851	68.97%	48.28%	41.38%
G2	0.879	0.826–0.921	79.31%	51.72%	48.28%
G3	0.936	0.892–0.966	90.00%	86.67%	83.33%

Abbreviations: AUC=area under ROC curve; BC=bladder cancer; CIS=carcinoma in situ; UPY-A=urinary tyrosine-phosphorylated protein assay.

Figure 3

Urinary tyrosine-phosphorylated protein levels in BC subjects classified according to the WHO 2004 classification of BC. High grade, n=43, mean 528.06±297.19 SU; low grade, n=43, mean 354.22±191.16 SU. Urinary tyrosine-phosphorylated protein levels are significantly different in groups of BC patients with different BC grade (Kruskal–Wallis test, P=0.0005).

Figure 4

Urinary tyrosine-phosphorylated protein levels in relation to classification of recurrence and progression risks. (A) Analysis of UPY levels in relation to classification of recurrence risks of BC patients (Kruskal–Wallis test, P=0.002). (B) Analysis of UPY levels in relation to classification of progression risk of BC patients (Kruskal–Wallis test, P=0.001).

Effect of possible confounding factors on the diagnostic performances of UPY-A

To assess the effect of possible confounding factors, we compared UPY levels in the healthy control group stratified for age, smoking status and gender (data are shown in Supplementary Figure S1). The differences in smoking status (P=0.51 by Kruskal–Wallis test) and gender (P=0.35 by Wilcoxon's rank-sum test) were not statistically significant. On the contrary, after comparing the group of healthy controls older than 55 years (mean 168.6±109.4 SU) with those younger than 55 years (mean 134.3±123.0 SU), age-related differences were statistically significant (P=0.017 by Wilcoxon's rank-sum test), with lower UPY levels in the younger group. Odds ratios (ORs) and 95% CIs were calculated by logistic regression for potential confounders. A statistically significant increased risk for BC among subjects presenting the UPY-A ⩾261.26 SU was observed (OR=15.30; 95% CI=8.12–28.82). Odds ratio was still significant after the adjustment for age, smoking status and gender. Since among healthy controls the subjects older than 55 years were significantly different for UPY-A compared with younger controls, healthy controls and BC patients were stratified in four additional different age groups. Figure 5A shows that UPY levels are significantly increased in BC patients vs healthy controls in all age groups. The figure also highlights that healthy controls under 55 years display lower UPY levels with respect to older controls, not showing reciprocal variations. On the other hand, BC patients showed a progressive increase of UPY with the age because of the increasing prevalence of more advanced tumour stages in older patients. In patients under 55 years, we observed a large prevalence of Ta and G1 (Figures 5B and C). As a matter of fact, the best cutoff limit in this age group was 180 SU instead of 261.26 SU. With this cutoff limit, sensitivity improved from 54.5 to 81.8%.

Figure 5

Urinary tyrosine-phosphorylated protein levels in subjects with different age ranges. (A) Distribution of UPY levels in control (CTRL) and BC patients with age ranges: ⩽55 years old (CTRL, n=53, mean 134.3±123.0 SU; BC, n=11, mean 326.8±164.9 SU), 56–65 years old (CTRL, n=72, mean 169.2±114.0 SU; BC, n=25, mean 437.2±354.5 SU), 66–75 years old (CTRL, n=28, mean 168.5±108.0 SU; BC, n=37, mean 431.2±187.1 SU) and >75 years old (CTRL, n=15, mean 168.2±103.4 SU; BC, n=19, mean 501.0±270.6 SU). Urinary tyrosine-phosphorylated protein levels are significantly increased in BC patients in all age groups (Wilcoxon's rank-sum test). The solid lines indicate the mean values. (B) Distribution of patients with different BC stages: data are expressed as percentage in different age groups. (C) Distribution of patients with different BC grades: data are expressed as percentage in different age groups.

Discussion

Changes of protein tyrosine-phosphorylation are involved in cell growth and differentiation and have been observed in many cancer types, usually as a consequence of altered tyrosine kinase activity (Blume-Jensen and Hunter, 2001; Lim, 2005; Harsha and Pandey, 2010). On the other hand, tyrosine kinases are among the most important oncogenes known to date, as they have a central role in cancer development and progression (Hunter, 1998; Blume-Jensen and Hunter, 2001; Lim, 2005). Robust evidence demonstrates the involvement of abnormal kinase activity in BC following mutations and/or overexpression of protein kinases (Al Hussain and Akhtar, 2013), protein hyperphosphorylation in biopsy specimens (Khadjavi ) and after using tyrosine kinase inhibitors for BC treatment (Mitra ; Wallerand ). Fluorescence in situ hybridsation analysis of Aurora kinase A has been used as a marker for BC (Park ).

Measuring the effects of abnormal protein kinase activity on protein phosphorylation takes advantage from a substantial amplification of the signal, as a consequence of increased catalytic activity of the mutated kinase. However, the instability of phosphoproteins in blood has limited their use for cancer diagnosis. On the contrary, we previously observed that protein phosphatases activity is negligible in urine, thus conferring a particular stability to urinary phosphoproteins (Khadjavi ). Nevertheless, only a small amount of phosphoproteins is associated with BC; therefore, stringent purification steps and high sensitivity detection methods are required (Khadjavi , 2013).

The present report evaluates and optimises the performances of the UPY examined in the pilot study (Khadjavi ) by confirming the high sensitivity and specificity of the assay to detect BC in an independent and larger cohort of subjects. A statistically significant difference was found in the levels of UPY at different BC stages and grades. Sensitivity values have been measured at different fixed specificities. As shown in Table 3, UPY-A with chosen specificity comparable to cytology (>93%) displays higher sensitivity in Ta (47% vs 26%) and T1 (74% vs 64%), respectively, and more than two-fold higher sensitivity in G1 subjects (41% vs 6%) (for the cytology data see Saad ). Nevertheless, the comparison with other techniques is very complex, and larger and independent studies are certainly needed. The comparison should also consider additional characteristics such as the cost, the productivity and the intra/interlaboratory standardisation of the test. With regard to this, UPY-A will be in the cost range of an ELISA test such as BTA and NMP22 tests with additional advantages as UPY-A high throughput and the possibility of automated calibration in each analytical sessions, making it simpler to standardise compared with techniques requiring larger effort for interlaboratory harmonisation (Behrens ).

In the present report, we have also observed that UPY-A can identify patients more prone to recurrence and progression. Therefore, these patients could receive closer surveillance or more aggressive therapy. Of note, the increase in the prediction performance in predicting recurrence and progression given by the UPY-A with respect to the EORTC risk class is not statistically significant, but the association of the UPY-A and the EORTC classification improves the recurrence and progression prediction. We also have excluded that age, smoking status and gender can affect the diagnostic performances of the assay as confounding factors. Nevertheless, taking into account that the average values of the test were lower in younger healthy subjects (⩽55 years old), we have found that lowering the cutoff limit in this group of subjects determined a significant improvement of sensitivity. Therefore, these results encourage further studies involving a wider number of patients younger than 55 year, to optimise the cutoff values. Interestingly, a first preliminary investigation on a group of patients with nonmalignant urological disorders did not reveal considerable interference. Large and independent studies are currently in progress to confirm the present data and to evaluate the value of UPY-A in the follow-up of BC patients.

In conclusion, the present study supplies important information on the diagnostic characteristics of UPY-A revealing remarkable performances for early stages. The efforts made to miniaturise the method markedly increased its throughput allowing its potential use for a wide range of applications encompassing the screening of high-risk subjects, primary diagnosis and posttreatment surveillance.