- Research article
- Open Access
- Open Peer Review
Biomarker enhanced risk prediction for development of AKI after cardiac surgery
BMC Nephrology volume 19, Article number: 102 (2018)
Acute kidney injury (AKI) is a common post-cardiac surgery complication and influences patient morbidity and prognosis. This study was designed to identify preoperative candidate urine biomarkers in patients undergoing cardiac surgery.
A prospective cohort study of adults undergoing cardiac surgery at increased risk for AKI at a single hospital between July 2010 and September 2012 was performed. The primary outcome was the development of AKI, defined as an absolute serum creatinine (SCr) level increase ≥ 0.5 mg/dL or a ≥ 50% relative increase within 72 h of surgery. A secondary outcome was development of AKI defined by Kidney Disease Improving Global Outcomes (KDIGO). Urine collected by voiding within 4 h prior to surgery was used for proteomic analysis and confirmatory enzyme linked immunosorbent assays (ELISAs) studies. Biomarkers were tested for AKI-prediction using Cox and Snell R2, area under the receiver operating curve (AUROC), and percent of corrected classifications. To evaluate the added effect of each candidate biomarker on AKI discrimination, receiver operator characteristic (ROC) curves, integrated discrimination improvement (IDI), and net reclassification improvement (NRI) were calculated.
Forty-seven of 755 patients met screening criteria including 15 with AKI. Proteomic analysis identified 29 proteins with a significant ≥2-fold change. Confirmatory ELISA measurements of five candidate markers showed urinary complement factor B (CFB) and histidine rich glycoprotein (HRG) concentrations were significantly increased in patients with AKI. By multivariate analysis, NRI, and IDI the addition of CFB and HRG to the standard clinical assessment significantly improved risk prediction for the primary outcome. Only HRG was a significant predictor in the 21 patients with AKI defined by KDIGO criteria.
Pre-operative urine measurement of CFB or HRG significantly enhanced the current post-surgery AKI risk stratification for more restrictive definition of AKI. HRG, but not CFB or clinical risk stratification, predicted AKI defined by KDIGO. The ability of these biomarkers to predict risk for dialysis-requiring AKI or death could not be reliably assessed in our study due to a small number of patients with either outcome.
Acute kidney injury (AKI) is a common and serious complication after cardiac surgery. Using standardized definitions of AKI based primarily on an increased serum creatinine (SCr), 10% to 40% of patients undergoing cardiac surgery develop AKI [1,2,3,4,5,6,7]. AKI after cardiac surgery is associated with increased short-term and long-term mortality, increases in length of ICU and hospital stay, ventilator days, cost of hospitalization, and risk of developing chronic kidney disease (CKD) and end-stage renal disease (ESRD) [8,9,10,11]. Staging AKI according to RIFLE (Risk, Injury, Failure, Loss of kidney function, and End-stage kidney disease), AKIN (Acute Kidney Injury Network), and/or KDIGO (Kidney Disease Improving Global Outcomes) criteria showed that even mild forms of AKI not requiring dialysis are associated with increased morbidity, mortality, and risk of CKD [8, 12,13,14,15]. The diagnosis of AKI primarily depends on an increase in SCr concentration, which typically does not occur until 24 h to 72 h after injury . The delay in diagnosis until injury contributes to the failure in human trials to reproduce successful interventions of experimental animal models [17, 18]. Without effective treatment of AKI, clinical management focuses on prevention and risk management.
Due to the importance of post-cardiac surgery AKI and influence on patient morbidity and prognosis, it is critical that patients and providers have a realistic pre-surgical understanding of AKI risk. Preoperative risk stratification for AKI after cardiac surgery is necessary for clinical decision making, for pre- and intra-operative treatment to minimize the risk of AKI, and to identify high-risk patients for clinical trials. A model developed at the Cleveland Clinic, using a combination of laboratory (including SCr) and clinical findings , was reported to best predict cardiac surgery-related AKI [3, 20]. That model, however, was developed to predict the risk of AKI requiring dialysis, and its ability to predict AKI of less severity is more limited . Kiers et al.  reported an area under receiver operating curve (AUROC) of 0.75 for AKI-Risk and 0.81 for AKI-Injury, compared to an AUROC of 0.93 for AKI requiring dialysis.
A number of urine and blood biomarkers, including neutrophil gelatinase-associated lipocalin (NGAL), interleukin-18, cystatin C, and kidney injury molecule-1 (KIM-1), increase before SCr, improving the early diagnosis of AKI [4, 22,23,24,25,26]. Addition of pre-operative cystatin C in place of SCr to the clinical AKI risk assessment was reported to modestly improve risk stratification . Identification of new biomarkers that replace or enhance current clinical risk stratification is needed to allow clinicians to apply appropriate preventive measures and to design clinical trials to identify effective therapies. The purpose of the present study was to identify preoperative candidate urine biomarkers in patients undergoing cardiac surgery that, alone or in combination with the current clinical scoring tool, would improve prediction of AKI. The data indicate that addition of preoperative urine HRG or complement factor B to the clinical scoring tools may improve the accuracy of prediction of AKI after open-heart surgery [19, 27].
The primary objective of this study was to identify pre-surgical biomarkers for AKI. We performed a prospective cohort study of adults undergoing cardiac surgery (coronary artery bypass grafting [CABG], surgery for valve disease, and both) at the Jewish Hospital of Louisville between July 2010 and September 2012 who were at risk for AKI. Risk for AKI was defined as a risk score of 5 or greater, based on the clinical algorithm published by Thakar et al. . Exclusion criteria included age less than 18 years, stage 5 CKD or end stage renal disease, oliguria prior to surgery, fluctuations in SCr greater than 25% or 0.5 mg/dl prior to surgery, pregnancy, or inability to provide informed consent. Clinical data and measurement of baseline SCr were obtained on each subject within 2 days prior to surgery. Post-surgical clinical data and blood draws used for SCr measurement were obtained at 24 h, 48 h, and 72 h after surgery. Urine output after surgery was recorded at 2 h, 6 h and 24 h. Clinical data included demographics (age, sex, and race), comorbid conditions (hypertension, diabetes mellitus, heart failure, prior myocardial infarction, chronic obstructive pulmonary disease, peripheral vascular disease, stroke), surgery characteristics (elective or urgent; bypass, valvular surgery, or both; prior cardiac operation), and medications. Patients requiring emergent surgery were excluded from this study. SCr was measured in the hospital’s clinical laboratory, using a modified Jaffé assay. This study was approved by the Human Studies Committees at the Robley Rex VAMC and the University of Louisville, School of Medicine and adheres to the Declaration of Helsinki. A total of 67 patients of the 755 patients screened met eligibility requirements and provided written informed consent. Of those 67 patients, 12 failed to meet eligibility during pre-operative laboratory evaluation, and surgery was canceled for 4 patients. The remaining 51 patients form the study population.
The primary outcome was the development of AKI, defined as an absolute SCr level increase ≥0.5 mg/dL or a ≥ 50% relative increase within 72 h of surgery when compared to the baseline SCr determined in all subjects prior to surgery. A definition of AKI more restrictive than that used by AKIN or KDIGO was employed (AKIR), as changes in fluid balance after cardiac surgery may lead to over diagnosis of AKI . AKI as defined by KDIGO, an increase in SCr of 0.3 mg/dl within 48 h of surgery or a reduction in urine output to less than 0.5 ml/kg/h for 6 h, was determined as a secondary outcome (AKIKDIGO). All baseline SCr values were measured within 2 days prior to surgery. A total of 15 patients satisfied criteria for AKIR.
Urine (50 ml) was collected by voiding within 4 h prior to surgery. Fresh urine samples were added to 50 ml tubes containing a protease inhibitor (Roche) and centrifuged at 1200 g for 15 min at 4 °C to remove cellular debris. Supernatants were aliquoted into 15 ml vials and stored at − 80 °C until use.
AKI biomarker measurements
Personnel performing the biomarker measurements were blinded to each patient’s clinical information. All biomarkers were measured from frozen aliquots that did not undergo any additional freeze-thaw cycles.
Proteomic analysis of urine samples
Pre-surgery urine samples were randomly selected from available AKI case (n = 9) and control (n = 7) patients and used for proteomic analysis. Urine samples were clarified of cells, bacteria or dispersed membrane fragments using sequential centrifugation, concentrated using Amicon Ultra-4 spin filters (10,000 MWCO membranes) and buffer exchanged into 0.01 M Hepes, 0.5 mM EDTA, pH 7.5 prior to proteomic analysis as previously described [29,30,31] using an LTQ-Orbitrap ELITE mass spectrometer. For comparative proteomics Scaffold Batch (v4.3.4) (ProteomeSoftware, Portland, OR) was used for label-free measurements based on both normalized MS2 spectral counting methods (NSAF) [32, 33] and MS1-based intensity based absolute quantification (iBAQ)  methods following correction for the false discovery rate using the Peptide and Protein Prophet algorithms [35, 36] and annotated with human gene ontology information from the Gene Ontology Annotations Database (ftp.ebi.ac.uk) . Urinary proteins were analyzed using Ingenuity Pathways Analysis (IPA) software (http://ingenuity.com) to determine the extent of regulated proteins were enriched into known canonical biologic pathways or protein-protein interaction networks.
Urine enzyme linked immunosorbent assays
Enzyme linked immunosorbent assays (ELISAs) were used to confirm quantitative differences in urine proteins on 47 subjects. The proteins were selected using a set of quantitative and qualitative filters to examine the spectral counting data for frequency of observation (observed in at least 80% of AKI positive and/or 80% of AKI negative samples), fold-change (increased or decreased by 2-fold with AKI), statistical importance by p-value (< 0.05) and biological importance by IPA pathways analysis. ELISA assays were conducted according to manufacturer protocols for use of urine and use of dilutions to bring analyte within calibration curve. C3 (ab108823) and Factor B (ab137973) kits were from Abcam (Cambridge, MA). CD59 (027694) and Histidine-rich glycoprotein (025685) kits were from US Biological (Salem, MA). Angiotensinogen (27412A kit was from Takara/Clonetech (Mountain View, CA).
Continuous variables were compared using two sample t-test. Biomarkers were tested for the prediction of AKIR and AKIKDIGO using univariate and multivariate logistic regression. Goodness of fit was determined by calculating the Cox and Snell R squared, area under the receiver operating curve (AUROC), and percent of corrected classifications. To evaluate the added effect of each candidate biomarker on AKI discrimination, we constructed receiver operator characteristic (ROC) curves and calculated the c-statistic, tested using integrated discrimination improvement (IDI), and net reclassification improvement (NRI) using the method developed by Pickering and Endre . Both IDI and NRI are newer techniques to evaluate the incremental improvement in prediction over a baseline prediction model [39, 40]. The NRI evaluates the appropriateness of reclassification between models before and after the candidate biomarker is added, tabulating the frequency of appropriate versus inappropriate reclassification. A significant P value indicates that significantly more cases are being reclassified appropriately than inappropriately . In contrast, the IDI determines how much an individual’s predicted risk changes with the use of different models . IDI and NRI were compared to KR and KDIGO risk scores. Statistics (ANOVA and post-hoc t-test) on LCMS data used normalized spectral counts and Scaffold Q + S Batch (ProteomeSoftware.com) software. Statistics on ELISA data and clinical parameters was by SPSS (ver24.0; Cary, NC).
A total of 47 patients from the 755 patients screened met eligibility requirements, provided written informed consent, underwent cardiac surgery, and had a complete set of data. The characteristics of those 47 patients who comprised this study are shown in Table 1. Of those patients 15 developed AKIR based on a SCr level increase of ≥0.5 mg/dL or a ≥ 50% relative increase, while 32 did not meet that definition of AKIR. The age, race, and gender of those two groups were similar. Patients with AKIR demonstrated a significantly higher risk factor score and a significantly higher pre-operative SCr level. None of the AKIR patients required renal replacement therapy. There were no differences in the underlying pre-operative complications, pre-operative use of medications that interrupt the renin/angiotensin system, type of surgery performed, post-operative blood pressure, or post-operative urine output. Twenty-one subjects developed AKI using the KDIGO definition of AKI. Only peak SCr was different between patients with and without AKIKDIGO (data not shown).
Five hundred sixty-six identified proteins (Additional file 1) were curated to 160 proteins by eliminating all proteins that were not present in at least 80% either AKIR-positive or AKIR -negative patients pre-surgery urine samples (Additional file 2). 56 proteins had a 2-fold or greater change; 38 were increased in AKIR (+)and 18 proteins were increased in AKIR (−) pre-surgical urine. When tested using a student’s t-test, 21 of 38 proteins increased in the AKIR -positive group had a p-value < 0.05 (Additional file 3: Table S1A), and 8 of 18 proteins increased in the AKIR -negative group had a p-value < 0.05 (Additional file 3: Table S1B). A volcano plot (Fig. 1) is presented and annotated with the final 29 protein data points by respective gene name. While kidney injury molecule 1 (KIM-1), neutrophil gelatinase-associated lipocalin (NGAL), liver-type fatty acid–binding protein (L-FABP), insulin-like growth factor–binding protein 7 (IGFBP7), and calprotectin (S100A8/S100A9) were observed within the original urine proteomic data set, none of those proteins differed statistically between AKIR and non-AKIR groups. Thus, those proteins were excluded from confirmatory studies. Based on the direction and magnitude of the Log2 fold change values for differential urinary abundance and the IPA analyses (Additional file 3: Table S2), angiotensinogen (AGT), complement factor C3 (C3), complement factor B (CFB), CD59 glycoprotein (CD59), and histidine rich glycoprotein (HRG) were selected for confirmatory ELISA studies.
Risk prediction of urine biomarkers in AKI
The urinary concentration of each of the 5 proteins was determined in all patients using ELISA assays (Fig. 2). The concentration of two proteins, HRG and CFB, was significantly higher in the AKIR -positive group, compared to the AKIR -negative group. Based on calibration curve analysis the performance of ELISA assays for HRG and CFB varied little between assay dates (HRG mean R2 0.98 with a 0.2% CV; CFB mean R2 0.99 with a 0.07% CV). Results of the univariate logistic regression analysis are shown in Table 2. HRG and CFB resulted in the best predictions of AKIR with little difference in Cox and Snell R2 and no difference in the percent of correct classifications. Although statistically significant, both risk factor score and preoperative SCr had lower r2 values and between 8 and 13% lower correct classifications for patients with AKIR. Multivariate analysis demonstrated the utility of combining one or more of these factors in the logistic regression analysis. Combinations of risk factor score and either HRG or CFB resulted in the best predictions of AKIR with 85.1 and 87.2% correct classifications, respectively (Table 2). The combination of all three factors together did not improve the overall fit. To evaluate the improvement of risk prediction with the addition of biomarkers to the established clinical model, we determined the NRI and the IDI indices. The NRI determines the appropriateness of reclassification of AKI risk between models before and after addition HRG or CFB. The IDI index determines the change in direction and amount of an individual’s predicted risk with the addition of HRG or CFB to the established model. Based on the IDI index, both HRG and CFB provided improved risk prediction over the pre-operative clinical model alone (Table 3). The IDI values show the magnitude of the improvement in prediction of AKIR /no AKIR, was positive for both HRG (IDI = 0.34 CI 0.067 to 0.46) and Factor B (IDI = 0.35 CI 0.12 to 0.64) with the larger contribution to the total score due to the increased prediction of AKIR.
The ability of the five urinary proteins, pre-operative SCr, and risk factor score to predict postoperative AKI was determined for the 21 patients with the less restrictive KDIGO definition. Table 2 shows the results of the univariate logistic regression analysis. HRG and CFB were, again, the best predictors of AKIKDIGO with an area under the ROC curve similar to that for AKIR. Risk factor score and preoperative SCr were no longer significantly predictive for AKIKDIGO. Multivariate analysis failed to find any utility of combining risk factor score or preoperative SCr with either HRG or CFB, nor did combining urine HRG and CFB improve prediction of either, alone, for AKIKDIGO (Table 2). Percent correct classification was lower in the AKIKDIGO group, compared to AKIR, for all variables, alone or in combination (Table 2).
Patients who develop AKI after cardiac surgery exhibit prolonged hospital stay, increased short-term and long-term mortality, and an increased risk of CKD . As no effective treatment for established AKI exists, current clinical management focuses on risk factor assessment and prophylaxis. Sensitive and specific prediction of the risk of developing AKI is critical to identifying patients in whom the risk of AKI outweighs the benefits of surgery or in whom aggressive preoperative risk-reduction management is appropriate. The combination of preoperative laboratory and clinical evaluation was shown to be the best predictor of AKI whether or not dialysis was required . That evaluation was highly predictive of AKI requiring dialysis with an AUROC of 0.93, however, the AUROC for AKI not requiring dialysis was only 0.75. As even milder forms of AKI are associated with worse short-term and long-term outcomes, improved risk assessment for AKI not requiring dialysis is needed. The current study tested the hypothesis that preoperative prognostic urinary biomarkers of post-surgical AKIR could be identified using a proteomic approach and would be valuable adjunctive biomarkers for risk assessment. Six recognized diagnostic markers of AKIR were detected, of which five (KIM1, NGAL, L-FABP, IGFBP7 and S100A8/S100A9) were not significantly different in patients developing AKI and one (AGT) was significantly different. AGT and four additional proteins (C3, CFB, HRG, IGFBP3), selected using rank ordering of abundance differences and pathways analysis, were studied by ELISA on the entire sample set. Two proteins in preoperative urine samples, HRG (AUROC 0.79) and CFB (AUROC 0.75), performed as well as the risk factor score (AUROC 0.73) and preoperative SCr (AUROC 0.79).
A multivariate model for the prediction of AKIR performed better than any single factor measured. The addition of HRG or CFB to the risk factor score significantly improved the AUROC to 0.90 and 0.89, respectively. Differences in preoperative SCr observed between patients with and without AKI were corrected for in the model building process and did not explain the contribution of the newly discovered biomarkers to the prediction of AKIR. Despite the sensitivity of the CFB ELISA being at or near the measured concentration of nearly one-half of the samples analyzed, CFB still performed well in the multivariate model. CFB should not be ruled out as an important predictor of AKIR and the development of a more sensitive assay could benefit this biomarker. The contribution of HRG and CFB to the improvement in the prediction of AKIR (event) or no AKIR (non-event) was evaluated using logistic regression and two statistical tests, NRI and IDI, developed specifically for the evaluation of potential biomarkers. NRI calculates the contribution using the binary values of 0 and 1 based on group membership (event, non-event) and IDI calculates the contribution based on probability 0.0 to 1.0 of the event occurring . NRI and IDI were applied when factors were identified using logistic regression and were used to identify where prediction was improved (event, non-event, both) and as such are additive to the information displayed in the c-statistic. HRG and CFB influenced both the prediction of event (IDI only) and non-event (IDI only). The combined prediction (event + non-event) was also significant for CFB using both NRI and IDI. Use of HRG in the prediction of AKIR resulted in an improvement in sensitivity over risk factor score from 0.38 to 0.63, a 25% improvement. There was improvement in 1-specificity from 0.23 to 0.15, an 8% improvement. Use of CFB in the prediction of AKIR resulted in an improvement in sensitivity over risk factor score from 0.38 to 0.64, a 26% improvement, and an improvement in 1-specificity from 0.23 to 0.15, an 8% improvement.
The primary definition of AKI (AKIR) in the current study was more restrictive that those proposed using RIFLE, AKIN, or KDIGO criteria. We initially used a more restrictive definition, to reduce over diagnosis of AKI due to changes in fluid balance after cardiac surgery potentially leading to misleading changes in SCr or urine output . Based on the improvement in predictive capability with CFB and HRG for AKIR, we re-analyzed predictive capability using the KDIGO criteria for AKI. That analysis showed that HRG and CFB continued to significantly predict development of AKI, although the prediction was less sensitive than for AKIR. Clinical risk factor score and preoperative SCr failed to predict AKIKDIGO. It is not possible to determine whether there was increased misdiagnosis of AKI using KDIGO criteria or if the predictors of AKI are less reliable for very mild cases.
CFB is a C3-convertase involved in alternative complement pathway activation and amplification [42, 43]. Genetic deletion of CFB or administration of anti-CFB monoclonal antibodies significantly impaired development of AKI in mice subjected to ischemia/reperfusion injury [44,45,46]. That reduction in CFB also significantly reduced the deposition of C3b on tubular epithelial cells and accumulation of neutrophils in the renal interstitium. Renal tubular cells showed increased CFB production in mice subjected to cecal ligation and puncture model of microbial sepsis and in cultured human proximal tubular cells stimulated with toll-like receptor agonists [46, 47]. Thus, increased CFB in the urine of patients undergoing cardiac surgery may identify those patients with underlying tubular cells CFB production that predisposes to complement-mediated tubular cell injury during surgery.
HRG is an abundant plasma glycoprotein with a multidomain structure that allows the molecule to interact with many ligands, including the complement components C1q, factor H, C8, C4, and C3 . In addition to binding to a number of complement components, HRG was reported to inhibit complement factor D-mediated cleavage of CFB . Although no association of HRG with AKI has been reported previously, the multiple protein-protein interactions with HRG regulates formation of immune complexes, removal of apoptotic cells, microbial invasion, cell adhesion, angiogenesis, coagulation, and progression of tumor growth .
The strengths of our study included a clear and restrictive definition of AKI using pre-operative and multiple post-operative serum and urine data to define the patient populations studied. A second strength of this study was utilization of high-sensitivity, high-mass accuracy proteomic methods to address the novel hypothesis that the pre-operative urine proteome was associated with post-cardiac surgery AKI. Importantly, confirmation of two candidate risk biomarkers using ELISA, an orthogonal method, was performed on all subjects. Those candidate biomarkers significantly enhanced the value of the clinical risk score for milder forms of AKI prediction. The clinical benefits of enhanced AKI prediction include: (1) improved application of prophylactic measures to a high risk population, (2) improved clinical assessment of the risk-to-benefit ratio of surgery, and (3) better patient cohort design for studies investigating AKI management and treatment.
Our study has some limitations. First, our data are specific to patients at higher risk for AKI who underwent cardiac surgery, and may not generalize as well to other patient populations. Additionally, using the risk factor score to focus our study on patients at higher risk skewed the scoring range in our population. This could confound the comparison of the risk factor score with urinary biomarkers. However, the AUROC for the risk factor score in our study (0.73) was similar to that previously reported in similar group of patients developing AKI not requiring dialysis (0.75) . As patients in our study had AKI of mild severity, our urinary biomarkers may not improve risk prediction in patients with AKI requiring dialysis. Second, we did not study other biomarkers, except SCr, that have been associated with AKI following cardiac surgery. A previous study showed that pre-surgical serum cystatin C levels had a stronger and a more linear association with AKI risk than pre-surgical SCr . A reduced urine uromodulin to SCr ratio was reported to be associated with an increased risk of AKI after cardiac surgery upon univariate, but not multivariate, analysis . In neither report was the risk assessment determined by adding cystatin C or uromodulin values to the standard clinical risk assessment. Third, we did not have a validation set for our study, so confirmation will require further investigation. A larger cohort of unselected patients should generate a more powerful evaluation of whether HRG and CFB can improve risk discrimination for AKI.
Pre-operative urine measurement of CFB or HRG significantly enhanced the current post-surgery AKI risk stratification. The ability of these biomarkers to predict risk for dialysis-requiring AKI or death could not be reliably assessed in our study due to a small number of patients with either outcome. If validated in future studies, our results suggest that urine concentration of HRG or CFB, alone or in addition to the past or current risk assessment tools [19, 27], will significantly enhance prediction of milder forms of AKI after cardiac surgery. In addition to providing improved clinical decision making, that enhanced prediction will assist patient selection in future studies of AKI management and treatment.
Acute kidney injury
Acute kidney injury by KDIGO classification
Acute Kidney Injury Network
Acute kidney injury by restrictive classification
Area under the receiver operating curve
Complement factor C3
Coronary artery bypass grafting
Complement factor B
Chronic kidney disease
Enzyme linked immunosorbent assay
End-stage renal disease
Histidine rich glycoprotein
Intensity based absolute quantification
Integrated discrimination improvement
Insulin-like growth factor–binding protein 7
Ingenuity Pathways Analysis
Kidney Disease Improving Global Outcomes
Kidney injury molecule-1
Liver-type fatty acid–binding protein
Neutrophil gelatinase-associated lipocalin NGAL
Net reclassification improvement
Normalized spectral counting methods
Risk, Injury, Failure, Loss of kidney function, and End-stage kidney disease
Receiver operator characteristic
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We gratefully acknowledge the contribution of Rachael Anderson and Melissa Schlegel who coordinated the study, the contribution of Ming Li and Daniel Wilkey who conducted liquid-chromatography mass spectrometry experiments and the contribution of Shweta Tandon who conducted urine ELISA experiments. The authors also acknowledge the contribution of the surgical staff at the Jewish Hospital, Louisville.
This research was supported in part by a VA Clinical Merit Award (CAMM-004-06S) (KRM).
Availability of data and materials
Data files for acquired LCMS data (.RAW), for peak lists (.mgf), and compressed search results (.mzIdentML) files will be deposited in MassIVE (http://massive.ucsd.edu/) data repository (MSV000082139) with the Center for Computational Mass Spectrometry at the University of California, San Diego and shared with the ProteomeXchange (PXD009145) (www.proteomexchange.org).
Ethics approval and consent to participate
This study was approved by the Institutional Review Board at the Robley Rex VAMC and the Institutional Review Board at the University of Louisville, School of Medicine and adheres to the Declaration of Helsinki. Written informed consent was obtained from all participants prior to study enrollment.
This work has previously been presented in abstract for to the 2015 Human Proteome Organization meeting and the American Society of Nephrology 2015 Kidney Week. The authors declare no other competing interests.
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Proteomic Data. Lists of all proteins identified with high confidence in pre-operative urine samples collected from AKI positive and AKI negative patients. Data are presented based on NSAF (normalized spectral abundance factor) estimations of relative abundance. Data include protein name, gene name, accession number, UniprotKB Entry Name, per patient NSAF values, group average NSAF, standard deviation of the average, and count based on fraction observed (n, %) as well as prevalence. Missing values were replaced by minimum observed NSAF value divided by the square root of 2. (PDF 505 kb)
Proteomic Methods. Detailed methods and materials for urine sample handling, acquisition and analysis of LCMS data sets. (DOCX 26 kb)
Table S1A. Proteins whose urinary abundance was decreased in patients with post-cardiac surgery AKI. Data are presented as gene symbols with associated relative abundance values (NSAF), t-test p-values, log2 fold changes, differences of relative abundance values and standard errors of the differences. Table S1B. Proteins whose urinary abundance was increased in patients with post-cardiac surgery AKI. Data are presented as gene names with associated relative abundance values (NSAF), t-test p-values, log2 fold changes, differences of relative abundance values and standard errors of the differences. Bolded and asterisk-marked entries represent targets selected for further confirmatory analysis by ELISA. Table S2. Ingenuity pathways analysis results for differentially abundance pre-surgical urine proteome listing statistically significant (p-value< 0.05) top networks and canonical pathways. Data are presented as network or pathway name with associated gene symbols and significance score for network (Z-score) and canonical pathway (p-value). Bolded and underlined entries represent targets selected for further confirmatory analysis by ELISA. (DOCX 17 kb)