# Patent

## Title
Methods and compositions for diagnosis and prognosis of renal injury and renal failure

## Abstract

The present invention relates to methods and compositions for monitoring, diagnosis, prognosis, and determination of treatment regimens in subjects suffering from or suspected of having a renal injury. In particular, the invention relates to using a plurality of assays configured to detect a kidney injury marker as diagnostic and prognostic biomarkers in renal injuries.

## Background
The present invention is filed under 35 U.S.C. §371 as the U.S. national phase of International Application No. PCT/US2011/026384, filed Sep. 26, 2011, which designated the U.S. and claims the benefit of priority to U.S. Provisional Patent Application No. 61/308,861 filed Feb. 26, 2010, which is hereby incorporated in its entirety including all tables, figures, and claims.


BACKGROUND OF THE INVENTION
The following discussion of the background of the invention is merely provided to aid the reader in understanding the invention and is not admitted to describe or constitute prior art to the present invention.
The kidney is responsible for water and solute excretion from the body. Its functions include maintenance of acid-base balance, regulation of electrolyte concentrations, control of blood volume, and regulation of blood pressure. As such, loss of kidney function through injury and/or disease results in substantial morbidity and mortality. A detailed discussion of renal injuries is provided in Harrison's Principles of Internal Medicine, 17th Ed., McGraw Hill, New York, pages 1741-1830, which are hereby incorporated by reference in their entirety. Renal disease and/or injury may be acute or chronic. Acute and chronic kidney disease are described as follows (from Current Medical Diagnosis & Treatment 2008, 47th Ed, McGraw Hill, New York, pages 785-815, which are hereby incorporated by reference in their entirety): “Acute renal failure is worsening of renal function over hours to days, resulting in the retention of nitrogenous wastes (such as urea nitrogen) and creatinine in the blood. Retention of these substances is called azotemia. Chronic renal failure (chronic kidney disease) results from an abnormal loss of renal function over months to years”.
Acute renal failure (ARF, also known as acute kidney injury, or AKI) is an abrupt (typically detected within about 48 hours to 1 week) reduction in glomerular filtration. This loss of filtration capacity results in retention of nitrogenous (urea and creatinine) and non-nitrogenous waste products that are normally excreted by the kidney, a reduction in urine output, or both. It is reported that ARF complicates about 5% of hospital admissions, 4-15% of cardiopulmonary bypass surgeries, and up to 30% of intensive care admissions. ARF may be categorized as prerenal, intrinsic renal, or postrenal in causation. Intrinsic renal disease can be further divided into glomerular, tubular, interstitial, and vascular abnormalities. Major causes of ARF are described in the following table, which is adapted from the Merck Manual, 17th ed., Chapter 222, and which is hereby incorporated by reference in their entirety.








TABLE 1





Type
Risk Factors







Prerenal



ECF volume depletion
Excessive diuresis, hemorrhage, GI losses, loss of



intravascular fluid into the extravascular space (due to



ascites, peritonitis, pancreatitis, or burns), loss of skin



and mucus membranes, renal salt- and water-wasting states


Low cardiac output
Cardiomyopathy, MI, cardiac tamponade, pulmonary



embolism, pulmonary hypertension, positive-pressure



mechanical ventilation


Low systemic vascular
Septic shock, liver failure, antihypertensive drugs


resistance



Increased renal vascular
NSAIDs, cyclosporines, tacrolimus, hypercalcemia,


resistance
anaphylaxis, anesthetics, renal artery obstruction, renal



vein thrombosis, sepsis, hepatorenal syndrome


Decreased efferent
ACE inhibitors or angiotensin II receptor blockers


arteriolar tone (leading to



decreased GFR from



reduced glomerular



transcapillary pressure,



especially in patients with



bilateral renal artery



stenosis)



Intrinsic Renal



Acute tubular injury
Ischemia (prolonged or severe prerenal state): surgery,



hemorrhage, arterial or venous obstruction; Toxins:



NSAIDs, cyclosporines, tacrolimus, aminoglycosides,



foscarnet, ethylene glycol, hemoglobin, myoglobin,



ifosfamide, heavy metals, methotrexate, radiopaque



contrast agents, streptozotocin


Acute glomerulonephritis
ANCA-associated: Crescentic glomerulonephritis,



polyarteritis nodosa, Wegener's granulomatosis; Anti-



GBM glomerulonephritis: Goodpasture's syndrome;



Immune-complex: Lupus glomerulonephritis,



postinfectious glomerulonephritis, cryoglobulinemic



glomerulonephritis


Acute tubulointerstitial
Drug reaction (eg, β-lactams, NSAIDs, sulfonamides,


nephritis
ciprofloxacin, thiazide diuretics, furosemide, phenytoin,



allopurinol, pyelonephritis, papillary necrosis


Acute vascular
Vasculitis, malignant hypertension, thrombotic


nephropathy
microangiopathies, scleroderma, atheroembolism


Infiltrative diseases
Lymphoma, sarcoidosis, leukemia


Postrenal



Tubular precipitation
Uric acid (tumor lysis), sulfonamides, triamterene,



acyclovir, indinavir, methotrexate, ethylene glycol



ingestion, myeloma protein, myoglobin


Ureteral obstruction
Intrinsic: Calculi, clots, sloughed renal tissue, fungus



ball, edema, malignancy, congenital defects; Extrinsic:



Malignancy, retroperitoneal fibrosis, ureteral trauma



during surgery or high impact injury


Bladder obstruction
Mechanical: Benign prostatic hyperplasia, prostate



cancer, bladder cancer, urethral strictures, phimosis,



paraphimosis, urethral valves, obstructed indwelling



urinary catheter; Neurogenic: Anticholinergic drugs,



upper or lower motor neuron lesion









In the case of ischemic ARF, the course of the disease may be divided into four phases. During an initiation phase, which lasts hours to days, reduced perfusion of the kidney is evolving into injury. Glomerular ultrafiltration reduces, the flow of filtrate is reduced due to debris within the tubules, and back leakage of filtrate through injured epithelium occurs. Renal injury can be mediated during this phase by reperfusion of the kidney. Initiation is followed by an extension phase which is characterized by continued ischemic injury and inflammation and may involve endothelial damage and vascular congestion. During the maintenance phase, lasting from 1 to 2 weeks, renal cell injury occurs, and glomerular filtration and urine output reaches a minimum. A recovery phase can follow in which the renal epithelium is repaired and GFR gradually recovers. Despite this, the survival rate of subjects with ARF may be as low as about 60%.
Acute kidney injury caused by radiocontrast agents (also called contrast media) and other nephrotoxins such as cyclosporine, antibiotics including aminoglycosides and anticancer drugs such as cisplatin manifests over a period of days to about a week. Contrast induced nephropathy (CIN, which is AKI caused by radiocontrast agents) is thought to be caused by intrarenal vasoconstriction (leading to ischemic injury) and from the generation of reactive oxygen species that are directly toxic to renal tubular epithelial cells. CIN classically presents as an acute (onset within 24-48 h) but reversible (peak 3-5 days, resolution within 1 week) rise in blood urea nitrogen and serum creatinine.
A commonly reported criteria for defining and detecting AKI is an abrupt (typically within about 2-7 days or within a period of hospitalization) elevation of serum creatinine. Although the use of serum creatinine elevation to define and detect AKI is well established, the magnitude of the serum creatinine elevation and the time over which it is measured to define AKI varies considerably among publications. Traditionally, relatively large increases in serum creatinine such as 100%, 200%, an increase of at least 100% to a value over 2 mg/dL and other definitions were used to define AKI. However, the recent trend has been towards using smaller serum creatinine rises to define AKI. The relationship between serum creatinine rise, AKI and the associated health risks are reviewed in Praught and Shlipak, Curr Opin Nephrol Hypertens 14:265-270, 2005 and Chertow et al, J Am Soc Nephrol 16: 3365-3370, 2005, which, with the references listed therein, are hereby incorporated by reference in their entirety. As described in these publications, acute worsening renal function (AKI) and increased risk of death and other detrimental outcomes are now known to be associated with very small increases in serum creatinine. These increases may be determined as a relative (percent) value or a nominal value. Relative increases in serum creatinine as small as 20% from the pre-injury value have been reported to indicate acutely worsening renal function (AKI) and increased health risk, but the more commonly reported value to define AKI and increased health risk is a relative increase of at least 25%. Nominal increases as small as 0.3 mg/dL, 0.2 mg/dL or even 0.1 mg/dL have been reported to indicate worsening renal function and increased risk of death. Various time periods for the serum creatinine to rise to these threshold values have been used to define AKI, for example, ranging from 2 days, 3 days, 7 days, or a variable period defined as the time the patient is in the hospital or intensive care unit. These studies indicate there is not a particular threshold serum creatinine rise (or time period for the rise) for worsening renal function or AKI, but rather a continuous increase in risk with increasing magnitude of serum creatinine rise.
One study (Lassnigg et all, J Am Soc Nephrol 15:1597-1605, 2004, hereby incorporated by reference in its entirety) investigated both increases and decreases in serum creatinine. Patients with a mild fall in serum creatinine of −0.1 to −0.3 mg/dL following heart surgery had the lowest mortality rate. Patients with a larger fall in serum creatinine (more than or equal to −0.4 mg/dL) or any increase in serum creatinine had a larger mortality rate. These findings caused the authors to conclude that even very subtle changes in renal function (as detected by small creatinine changes within 48 hours of surgery) seriously effect patient's outcomes. In an effort to reach consensus on a unified classification system for using serum creatinine to define AKI in clinical trials and in clinical practice, Bellomo et al., Crit Care. 8(4):R204-12, 2004, which is hereby incorporated by reference in its entirety, proposes the following classifications for stratifying AKI patients:
“Risk”: serum creatinine increased 1.5 fold from baseline OR urine production of <0.5 ml/kg body weight/hr for 6 hours;
“Injury”: serum creatinine increased 2.0 fold from baseline OR urine production <0.5 ml/kg/hr for 12 h;
“Failure”: serum creatinine increased 3.0 fold from baseline OR creatinine >355 μmol/l (with a rise of >44) or urine output below 0.3 ml/kg/hr for 24 h or anuria for at least 12 hours;
And included two clinical outcomes:
“Loss”: persistent need for renal replacement therapy for more than four weeks.
“ESRD”: end stage renal disease—the need for dialysis for more than 3 months.
These criteria are called the RIFLE criteria, which provide a useful clinical tool to classify renal status. As discussed in Kellum, Crit. Care Med. 36: S141-45, 2008 and Ricci et al., Kidney Int. 73, 538-546, 2008, each hereby incorporated by reference in its entirety, the RIFLE criteria provide a uniform definition of AKI which has been validated in numerous studies.
More recently, Mehta et al., Crit. Care 11:R31 (doi:10.1186.cc5713), 2007, hereby incorporated by reference in its entirety, proposes the following similar classifications for stratifying AKI patients, which have been modified from RIFLE:
“Stage I”: increase in serum creatinine of more than or equal to 0.3 mg/dL (≧26.4 μmol/L) or increase to more than or equal to 150% (1.5-fold) from baseline OR urine output less than 0.5 mL/kg per hour for more than 6 hours;
“Stage II”: increase in serum creatinine to more than 200% (>2-fold) from baseline OR urine output less than 0.5 mL/kg per hour for more than 12 hours;
“Stage III”: increase in serum creatinine to more than 300% (>3-fold) from baseline OR serum creatinine ≧354 μmol/L accompanied by an acute increase of at least 44 μmol/L OR urine output less than 0.3 mL/kg per hour for 24 hours or anuria for 12 hours.
The CIN Consensus Working Panel (McCollough et al, Rev Cardiovasc Med. 2006; 7(4):177-197, hereby incorporated by reference in its entirety) uses a serum creatinine rise of 25% to define Contrast induced nephropathy (which is a type of AKI). Although various groups propose slightly different criteria for using serum creatinine to detect AKI, the consensus is that small changes in serum creatinine, such as 0.3 mg/dL or 25%, are sufficient to detect AKI (worsening renal function) and that the magnitude of the serum creatinine change is an indicator of the severity of the AKI and mortality risk.
Although serial measurement of serum creatinine over a period of days is an accepted method of detecting and diagnosing AKI and is considered one of the most important tools to evaluate AKI patients, serum creatinine is generally regarded to have several limitations in the diagnosis, assessment and monitoring of AKI patients. The time period for serum creatinine to rise to values (e.g., a 0.3 mg/dL or 25% rise) considered diagnostic for AKI can be 48 hours or longer depending on the definition used. Since cellular injury in AKI can occur over a period of hours, serum creatinine elevations detected at 48 hours or longer can be a late indicator of injury, and relying on serum creatinine can thus delay diagnosis of AKI. Furthermore, serum creatinine is not a good indicator of the exact kidney status and treatment needs during the most acute phases of AKI when kidney function is changing rapidly. Some patients with AKI will recover fully, some will need dialysis (either short term or long term) and some will have other detrimental outcomes including death, major adverse cardiac events and chronic kidney disease. Because serum creatinine is a marker of filtration rate, it does not differentiate between the causes of AKI (pre-renal, intrinsic renal, post-renal obstruction, atheroembolic, etc) or the category or location of injury in intrinsic renal disease (for example, tubular, glomerular or interstitial in origin). Urine output is similarly limited, Knowing these things can be of vital importance in managing and treating patients with AKI.
These limitations underscore the need for better methods to detect and assess AKI, particularly in the early and subclinical stages, but also in later stages when recovery and repair of the kidney can occur. Furthermore, there is a need to better identify patients who are at risk of having an AKI.
BRIEF SUMMARY OF THE INVENTION
It is an object of the invention to provide methods and compositions for evaluating renal function in a subject. As described herein, measurement of a plurality of assays, wherein one or more of the assays is configured to detect one or more of the biomarkers listed in Table 2 herein (collectively referred to herein as “kidney injury markers, and each individually as a “kidney injury marker”) The plurality of assays are combined to provide a “biomarker panel approach” which can be used for diagnosis, prognosis, risk stratification, staging, monitoring, categorizing and determination of further diagnosis and treatment regimens in subjects suffering or at risk of suffering from an injury to renal function, reduced renal function, and/or acute renal failure (also called acute kidney injury). Preferred biomarker panels comprise two, three, four, five, or more assays configured to detect two, three, four, five, or more of the biomarkers listed in Table 2 herein.
These kidney injury markers may be used in panels comprising a plurality of kidney injury markers, for risk stratification (that is, to identify subjects at risk for a future injury to renal function, for future progression to reduced renal function, for future progression to ARF, for future improvement in renal function, etc.); for diagnosis of existing disease (that is, to identify subjects who have suffered an injury to renal function, who have progressed to reduced renal function, who have progressed to ARF, etc.); for monitoring for deterioration or improvement of renal function; and for predicting a future medical outcome, such as improved or worsening renal function, a decreased or increased mortality risk, a decreased or increased risk that a subject will require renal replacement therapy (i.e., hemodialysis, peritoneal dialysis, hemofiltration, and/or renal transplantation, a decreased or increased risk that a subject will recover from an injury to renal function, a decreased or increased risk that a subject will recover from ARF, a decreased or increased risk that a subject will progress to end stage renal disease, a decreased or increased risk that a subject will progress to chronic renal failure, a decreased or increased risk that a subject will suffer rejection of a transplanted kidney, etc.
In a first aspect, the present invention relates to methods for evaluating renal status in a subject. These methods comprise performing an assay method that is configured to detect one or more kidney injury markers of the present invention in a body fluid sample obtained from the subject. A plurality of assay results, for example comprising a measured concentration of one or more markers selected from the group consisting of the markers listed in Table 2 herein are then correlated to the renal status of the subject. This correlation to renal status may include correlating the assay result(s) to one or more of risk stratification, diagnosis, prognosis, staging, classifying and monitoring of the subject as described herein. Thus, the present invention utilizes one or more kidney injury markers of the present invention for the evaluation of renal injury.
In certain embodiments, the methods for evaluating renal status described herein are methods for risk stratification of the subject; that is, assigning a likelihood of one or more future changes in renal status to the subject. In these embodiments, the assay result(s) is/are correlated to one or more such future changes. The following are preferred risk stratification embodiments.
In preferred risk stratification embodiments, these methods comprise determining a subject's risk for a future injury to renal function, and the assay result(s) is/are correlated to a likelihood of such a future injury to renal function. For example, the measured concentration(s) may each be compared to a threshold value. For a “positive going” kidney injury marker, an increased likelihood of suffering a future injury to renal function is assigned to the subject when the measured concentration is above the threshold, relative to a likelihood assigned when the measured concentration is below the threshold. For a “negative going” kidney injury marker, an increased likelihood of suffering a future injury to renal function is assigned to the subject when the measured concentration is below the threshold, relative to a likelihood assigned when the measured concentration is above the threshold.
In other preferred risk stratification embodiments, these methods comprise determining a subject's risk for future reduced renal function, and the assay result(s) is/are correlated to a likelihood of such reduced renal function. For example, the measured concentrations may each be compared to a threshold value. For a “positive going” kidney injury marker, an increased likelihood of suffering a future reduced renal function is assigned to the subject when the measured concentration is above the threshold, relative to a likelihood assigned when the measured concentration is below the threshold. For a “negative going” kidney injury marker, an increased likelihood of future reduced renal function is assigned to the subject when the measured concentration is below the threshold, relative to a likelihood assigned when the measured concentration is above the threshold.
In still other preferred risk stratification embodiments, these methods comprise determining a subject's likelihood for a future improvement in renal function, and the assay result(s) is/are correlated to a likelihood of such a future improvement in renal function. For example, the measured concentration(s) may each be compared to a threshold value. For a “positive going” kidney injury marker, an increased likelihood of a future improvement in renal function is assigned to the subject when the measured concentration is below the threshold, relative to a likelihood assigned when the measured concentration is above the threshold. For a “negative going” kidney injury marker, an increased likelihood of a future improvement in renal function is assigned to the subject when the measured concentration is above the threshold, relative to a likelihood assigned when the measured concentration is below the threshold.
In yet other preferred risk stratification embodiments, these methods comprise determining a subject's risk for progression to ARF, and the result(s) is/are correlated to a likelihood of such progression to ARF. For example, the measured concentration(s) may each be compared to a threshold value. For a “positive going” kidney injury marker, an increased likelihood of progression to ARF is assigned to the subject when the measured concentration is above the threshold, relative to a likelihood assigned when the measured concentration is below the threshold. For a “negative going” kidney injury marker, an increased likelihood of progression to ARF is assigned to the subject when the measured concentration is below the threshold, relative to a likelihood assigned when the measured concentration is above the threshold.
And in other preferred risk stratification embodiments, these methods comprise determining a subject's outcome risk, and the assay result(s) is/are correlated to a likelihood of the occurrence of a clinical outcome related to a renal injury suffered by the subject. For example, the measured concentration(s) may each be compared to a threshold value. For a “positive going” kidney injury marker, an increased likelihood of one or more of: acute kidney injury, progression to a worsening stage of AKI, mortality, a requirement for renal replacement therapy, a requirement for withdrawal of renal toxins, end stage renal disease, heart failure, stroke, myocardial infarction, progression to chronic kidney disease, etc., is assigned to the subject when the measured concentration is above the threshold, relative to a likelihood assigned when the measured concentration is below the threshold. For a “negative going” kidney injury marker, an increased likelihood of one or more of: acute kidney injury, progression to a worsening stage of AKI, mortality, a requirement for renal replacement therapy, a requirement for withdrawal of renal toxins, end stage renal disease, heart failure, stroke, myocardial infarction, progression to chronic kidney disease, etc., is assigned to the subject when the measured concentration is below the threshold, relative to a likelihood assigned when the measured concentration is above the threshold.
In such risk stratification embodiments, preferably the likelihood or risk assigned is that an event of interest is more or less likely to occur within 180 days of the time at which the body fluid sample is obtained from the subject. In particularly preferred embodiments, the likelihood or risk assigned relates to an event of interest occurring within a shorter time period such as 18 months, 120 days, 90 days, 60 days, 45 days, 30 days, 21 days, 14 days, 7 days, 5 days, 96 hours, 72 hours, 48 hours, 36 hours, 24 hours, 12 hours, or less. A risk at 0 hours of the time at which the body fluid sample is obtained from the subject is equivalent to diagnosis of a current condition.
In preferred risk stratification embodiments, the subject is selected for risk stratification based on the pre-existence in the subject of one or more known risk factors for prerenal, intrinsic renal, or postrenal ARF. For example, a subject undergoing or having undergone major vascular surgery, coronary artery bypass, or other cardiac surgery; a subject having pre-existing congestive heart failure, preeclampsia, eclampsia, diabetes mellitus, hypertension, coronary artery disease, proteinuria, renal insufficiency, glomerular filtration below the normal range, cirrhosis, serum creatinine above the normal range, or sepsis; or a subject exposed to NSAIDs, cyclosporines, tacrolimus, aminoglycosides, foscarnet, ethylene glycol, hemoglobin, myoglobin, ifosfamide, heavy metals, methotrexate, radiopaque contrast agents, or streptozotocin are all preferred subjects for monitoring risks according to the methods described herein. This list is not meant to be limiting. By “pre-existence” in this context is meant that the risk factor exists at the time the body fluid sample is obtained from the subject. In particularly preferred embodiments, a subject is chosen for risk stratification based on an existing diagnosis of injury to renal function, reduced renal function, or ARF.
In other embodiments, the methods for evaluating renal status described herein are methods for diagnosing a renal injury in the subject; that is, assessing whether or not a subject has suffered from an injury to renal function, reduced renal function, or ARF. In these embodiments, the assay results, for example comprising a measured concentration of one or more markers selected from the group consisting of the biomarkers listed in Table 2 herein are correlated to the occurrence or nonoccurrence of a change in renal status. The following are preferred diagnostic embodiments.
In preferred diagnostic embodiments, these methods comprise diagnosing the occurrence or nonoccurrence of an injury to renal function, and the assay result(s) is/are correlated to the occurrence or nonoccurrence of such an injury. For example, each of the measured concentration(s) may be compared to a threshold value. For a positive going marker, an increased likelihood of the occurrence of an injury to renal function is assigned to the subject when the measured concentration is above the threshold (relative to the likelihood assigned when the measured concentration is below the threshold); alternatively, when the measured concentration is below the threshold, an increased likelihood of the nonoccurrence of an injury to renal function may be assigned to the subject (relative to the likelihood assigned when the measured concentration is above the threshold). For a negative going marker, an increased likelihood of the occurrence of an injury to renal function is assigned to the subject when the measured concentration is below the threshold (relative to the likelihood assigned when the measured concentration is above the threshold); alternatively, when the measured concentration is above the threshold, an increased likelihood of the nonoccurrence of an injury to renal function may be assigned to the subject (relative to the likelihood assigned when the measured concentration is below the threshold).
In other preferred diagnostic embodiments, these methods comprise diagnosing the occurrence or nonoccurrence of reduced renal function, and the assay result(s) is/are correlated to the occurrence or nonoccurrence of an injury causing reduced renal function. For example, each of the measured concentration(s) may be compared to a threshold value. For a positive going marker, an increased likelihood of the occurrence of an injury causing reduced renal function is assigned to the subject when the measured concentration is above the threshold (relative to the likelihood assigned when the measured concentration is below the threshold); alternatively, when the measured concentration is below the threshold, an increased likelihood of the nonoccurrence of an injury causing reduced renal function may be assigned to the subject (relative to the likelihood assigned when the measured concentration is above the threshold). For a negative going marker, an increased likelihood of the occurrence of an injury causing reduced renal function is assigned to the subject when the measured concentration is below the threshold (relative to the likelihood assigned when the measured concentration is above the threshold); alternatively, when the measured concentration is above the threshold, an increased likelihood of the nonoccurrence of an injury causing reduced renal function may be assigned to the subject (relative to the likelihood assigned when the measured concentration is below the threshold).
In yet other preferred diagnostic embodiments, these methods comprise diagnosing the occurrence or nonoccurrence of ARF, and the assay result(s) is/are correlated to the occurrence or nonoccurrence of an injury causing ARF. For example, each of the measured concentration(s) may be compared to a threshold value. For a positive going marker, an increased likelihood of the occurrence of ARF is assigned to the subject when the measured concentration is above the threshold (relative to the likelihood assigned when the measured concentration is below the threshold); alternatively, when the measured concentration is below the threshold, an increased likelihood of the nonoccurrence of ARF may be assigned to the subject (relative to the likelihood assigned when the measured concentration is above the threshold). For a negative going marker, an increased likelihood of the occurrence of ARF is assigned to the subject when the measured concentration is below the threshold (relative to the likelihood assigned when the measured concentration is above the threshold); alternatively, when the measured concentration is above the threshold, an increased likelihood of the nonoccurrence of ARF may be assigned to the subject (relative to the likelihood assigned when the measured concentration is below the threshold).
In still other preferred diagnostic embodiments, these methods comprise diagnosing a subject as being in need of renal replacement therapy, and the assay result(s) is/are correlated to a need for renal replacement therapy. For example, each of the measured concentration(s) may be compared to a threshold value. For a positive going marker, an increased likelihood of the occurrence of an injury creating a need for renal replacement therapy is assigned to the subject when the measured concentration is above the threshold (relative to the likelihood assigned when the measured concentration is below the threshold); alternatively, when the measured concentration is below the threshold, an increased likelihood of the nonoccurrence of an injury creating a need for renal replacement therapy may be assigned to the subject (relative to the likelihood assigned when the measured concentration is above the threshold). For a negative going marker, an increased likelihood of the occurrence of an injury creating a need for renal replacement therapy is assigned to the subject when the measured concentration is below the threshold (relative to the likelihood assigned when the measured concentration is above the threshold); alternatively, when the measured concentration is above the threshold, an increased likelihood of the nonoccurrence of an injury creating a need for renal replacement therapy may be assigned to the subject (relative to the likelihood assigned when the measured concentration is below the threshold).
In still other preferred diagnostic embodiments, these methods comprise diagnosing a subject as being in need of renal transplantation, and the assay result (s0 is/are correlated to a need for renal transplantation. For example, each of the measured concentration(s) may be compared to a threshold value. For a positive going marker, an increased likelihood of the occurrence of an injury creating a need for renal transplantation is assigned to the subject when the measured concentration is above the threshold (relative to the likelihood assigned when the measured concentration is below the threshold); alternatively, when the measured concentration is below the threshold, an increased likelihood of the nonoccurrence of an injury creating a need for renal transplantation may be assigned to the subject (relative to the likelihood assigned when the measured concentration is above the threshold). For a negative going marker, an increased likelihood of the occurrence of an injury creating a need for renal transplantation is assigned to the subject when the measured concentration is below the threshold (relative to the likelihood assigned when the measured concentration is above the threshold); alternatively, when the measured concentration is above the threshold, an increased likelihood of the nonoccurrence of an injury creating a need for renal transplantation may be assigned to the subject (relative to the likelihood assigned when the measured concentration is below the threshold).
In still other embodiments, the methods for evaluating renal status described herein are methods for monitoring a renal injury in the subject; that is, assessing whether or not renal function is improving or worsening in a subject who has suffered from an injury to renal function, reduced renal function, or ARF. In these embodiments, the assay results, for example a measured concentration of one or more markers selected from the group consisting of the biomarkers listed in Table 2 herein are correlated to the occurrence or nonoccurrence of a change in renal status. The following are preferred monitoring embodiments.
In preferred monitoring embodiments, these methods comprise monitoring renal status in a subject suffering from an injury to renal function, and the assay result(s) is/are correlated to the occurrence or nonoccurrence of a change in renal status in the subject. For example, the measured concentration(s) may be compared to a threshold value. For a positive going marker, when the measured concentration is above the threshold, a worsening of renal function may be assigned to the subject; alternatively, when the measured concentration is below the threshold, an improvement of renal function may be assigned to the subject. For a negative going marker, when the measured concentration is below the threshold, a worsening of renal function may be assigned to the subject; alternatively, when the measured concentration is above the threshold, an improvement of renal function may be assigned to the subject.
In other preferred monitoring embodiments, these methods comprise monitoring renal status in a subject suffering from reduced renal function, and the assay result(s) is/are correlated to the occurrence or nonoccurrence of a change in renal status in the subject. For example, the measured concentration(s) may be compared to a threshold value. For a positive going marker, when the measured concentration is above the threshold, a worsening of renal function may be assigned to the subject; alternatively, when the measured concentration is below the threshold, an improvement of renal function may be assigned to the subject. For a negative going marker, when the measured concentration is below the threshold, a worsening of renal function may be assigned to the subject; alternatively, when the measured concentration is above the threshold, an improvement of renal function may be assigned to the subject.
In yet other preferred monitoring embodiments, these methods comprise monitoring renal status in a subject suffering from acute renal failure, and the assay result(s) is/are correlated to the occurrence or nonoccurrence of a change in renal status in the subject. For example, the measured concentration(s) may be compared to a threshold value. For a positive going marker, when the measured concentration is above the threshold, a worsening of renal function may be assigned to the subject; alternatively, when the measured concentration is below the threshold, an improvement of renal function may be assigned to the subject. For a negative going marker, when the measured concentration is below the threshold, a worsening of renal function may be assigned to the subject; alternatively, when the measured concentration is above the threshold, an improvement of renal function may be assigned to the subject.
In other additional preferred monitoring embodiments, these methods comprise monitoring renal status in a subject at risk of an injury to renal function due to the pre-existence of one or more known risk factors for prerenal, intrinsic renal, or postrenal ARF, and the assay result(s) is/are correlated to the occurrence or nonoccurrence of a change in renal status in the subject. For example, the measured concentration(s) may be compared to a threshold value. For a positive going marker, when the measured concentration is above the threshold, a worsening of renal function may be assigned to the subject; alternatively, when the measured concentration is below the threshold, an improvement of renal function may be assigned to the subject. For a negative going marker, when the measured concentration is below the threshold, a worsening of renal function may be assigned to the subject; alternatively, when the measured concentration is above the threshold, an improvement of renal function may be assigned to the subject.
In still other embodiments, the methods for evaluating renal status described herein are methods for classifying a renal injury in the subject; that is, determining whether a renal injury in a subject is prerenal, intrinsic renal, or postrenal; and/or further subdividing these classes into subclasses such as acute tubular injury, acute glomerulonephritis acute tubulointerstitial nephritis, acute vascular nephropathy, or infiltrative disease; and/or assigning a likelihood that a subject will progress to a particular RIFLE stage. In these embodiments, the assay results, for example a measured concentration of one or more markers selected from the group consisting of the biomarkers listed in Table 2 herein are correlated to a particular class and/or subclass. The following are preferred classification embodiments.
In preferred classification embodiments, these methods comprise determining whether a renal injury in a subject is prerenal, intrinsic renal, or postrenal; and/or further subdividing these classes into subclasses such as acute tubular injury, acute glomerulonephritis acute tubulointerstitial nephritis, acute vascular nephropathy, or infiltrative disease; and/or assigning a likelihood that a subject will progress to a particular RIFLE stage, and the assay result(s) is/are correlated to the injury classification for the subject. For example, the measured concentration may be compared to a threshold value, and when the measured concentration is above the threshold, a particular classification is assigned; alternatively, when the measured concentration is below the threshold, a different classification may be assigned to the subject.
A variety of methods may be used by the skilled artisan to arrive at a desired threshold value for use in these methods. For example, the threshold value may be determined from a population of normal subjects by selecting a concentration representing the 75th, 85th, 90th, 95th, or 99th percentile of a kidney injury marker measured in such normal subjects. Alternatively, the threshold value may be determined from a “diseased” population of subjects, e.g., those suffering from an injury or having a predisposition for an injury (e.g., progression to ARF or some other clinical outcome such as death, dialysis, renal transplantation, etc.), by selecting a concentration representing the 75th, 85th, 90th, 95th, or 99th percentile of a kidney injury marker measured in such subjects. In another alternative, the threshold value may be determined from a prior measurement of a kidney injury marker in the same subject; that is, a temporal change in the level of a kidney injury marker in the subject may be used to assign risk to the subject.
The foregoing discussion is not meant to imply, however, that the kidney injury markers of the present invention must be compared to corresponding individual thresholds. Methods for combining assay results can comprise the use of multivariate logistical regression, loglinear modeling, neural network analysis, n-of-m analysis, decision tree analysis, calculating ratios of markers, etc. This list is not meant to be limiting. In these methods, a composite result which is determined by combining individual markers may be treated as if it is itself a marker; that is, a threshold may be determined for the composite result as described herein for individual markers, and the composite result for an individual patient compared to this threshold.
The ability of a particular test or combination of tests to distinguish two populations can be established using ROC analysis. For example, ROC curves established from a “first” subpopulation which is predisposed to one or more future changes in renal status, and a “second” subpopulation which is not so predisposed can be used to calculate a ROC curve, and the area under the curve provides a measure of the quality of the test. Preferably, the tests described herein provide a ROC curve area greater than 0.5, preferably at least 0.6, more preferably 0.7, still more preferably at least 0.8, even more preferably at least 0.9, and most preferably at least 0.95.
In certain aspects, the measured concentration of one or more kidney injury markers, or a composite of such markers, may be treated as continuous variables. For example, any particular concentration can be converted into a corresponding probability of a future reduction in renal function for the subject, the occurrence of an injury, a classification, etc. In yet another alternative, a threshold that can provide an acceptable level of specificity and sensitivity in separating a population of subjects into “bins” such as a “first” subpopulation (e.g., which is predisposed to one or more future changes in renal status, the occurrence of an injury, a classification, etc.) and a “second” subpopulation which is not so predisposed. A threshold value is selected to separate this first and second population by one or more of the following measures of test accuracy:
an odds ratio greater than 1, preferably at least about 2 or more or about 0.5 or less, more preferably at least about 3 or more or about 0.33 or less, still more preferably at least about 4 or more or about 0.25 or less, even more preferably at least about 5 or more or about 0.2 or less, and most preferably at least about 10 or more or about 0.1 or less;

a specificity of greater than 0.5, preferably at least about 0.6, more preferably at least about 0.7, still more preferably at least about 0.8, even more preferably at least about 0.9 and most preferably at least about 0.95, with a corresponding sensitivity greater than 0.2, preferably greater than about 0.3, more preferably greater than about 0.4, still more preferably at least about 0.5, even more preferably about 0.6, yet more preferably greater than about 0.7, still more preferably greater than about 0.8, more preferably greater than about 0.9, and most preferably greater than about 0.95;

a sensitivity of greater than 0.5, preferably at least about 0.6, more preferably at least about 0.7, still more preferably at least about 0.8, even more preferably at least about 0.9 and most preferably at least about 0.95, with a corresponding specificity greater than 0.2, preferably greater than about 0.3, more preferably greater than about 0.4, still more preferably at least about 0.5, even more preferably about 0.6, yet more preferably greater than about 0.7, still more preferably greater than about 0.8, more preferably greater than about 0.9, and most preferably greater than about 0.95;

at least about 75% sensitivity, combined with at least about 75% specificity;

a positive likelihood ratio (calculated as sensitivity/(1−specificity)) of greater than 1, at least about 2, more preferably at least about 3, still more preferably at least about 5, and most preferably at least about 10; or

a negative likelihood ratio (calculated as (1-sensitivity)/specificity) of less than 1, less than or equal to about 0.5, more preferably less than or equal to about 0.3, and most preferably less than or equal to about 0.1.

The term “about” in the context of any of the above measurements refers to +/−5% of a given measurement.

Multiple thresholds may also be used to assess renal status in a subject. For example, a “first” subpopulation which is predisposed to one or more future changes in renal status, the occurrence of an injury, a classification, etc., and a “second” subpopulation which is not so predisposed can be combined into a single group. This group is then subdivided into three or more equal parts (known as tertiles, quartiles, quintiles, etc., depending on the number of subdivisions). An odds ratio is assigned to subjects based on which subdivision they fall into. If one considers a tertile, the lowest or highest tertile can be used as a reference for comparison of the other subdivisions. This reference subdivision is assigned an odds ratio of 1. The second tertile is assigned an odds ratio that is relative to that first tertile. That is, someone in the second tertile might be 3 times more likely to suffer one or more future changes in renal status in comparison to someone in the first tertile. The third tertile is also assigned an odds ratio that is relative to that first tertile.
In certain embodiments, the assay method is an immunoassay. Antibodies for use in such assays will specifically bind a full length kidney injury marker of interest, and may also bind one or more polypeptides that are “related” thereto, as that term is defined hereinafter. Numerous immunoassay formats are known to those of skill in the art. Preferred body fluid samples are selected from the group consisting of urine, blood, serum, saliva, tears, and plasma.
As previously noted, preferred biomarker panels comprise two, three, four, five, or more assays configured to detect two, three, four, five, or more of the biomarkers listed in Table 2 herein. That said, the foregoing method steps should not be interpreted to mean that the kidney injury marker assay result(s) is/are used in isolation in the methods described herein. Rather, additional variables or other clinical indicia may be included in the methods described herein. For example, a risk stratification, diagnostic, classification, monitoring, etc. method may combine the assay result(s) with one or more variables measured for the subject selected from the group consisting of demographic information (e.g., weight, sex, age, race), medical history (e.g., family history, type of surgery, pre-existing disease such as aneurism, congestive heart failure, preeclampsia, eclampsia, diabetes mellitus, hypertension, coronary artery disease, proteinuria, renal insufficiency, or sepsis, type of toxin exposure such as NSAIDs, cyclosporines, tacrolimus, aminoglycosides, foscarnet, ethylene glycol, hemoglobin, myoglobin, ifosfamide, heavy metals, methotrexate, radiopaque contrast agents, or streptozotocin), clinical variables (e.g., blood pressure, temperature, respiration rate), risk scores (APACHE score, PREDICT score, TIMI Risk Score for UA/NSTEMI, Framingham Risk Score, risk scores of Thakar et al. (J. Am. Soc. Nephrol. 16: 162-68, 2005), Mehran et al. (J. Am. Coll. Cardiol. 44: 1393-99, 2004), Wijeysundera et al. (JAMA 297: 1801-9, 2007), Goldstein and Chawla (Clin. J. Am. Soc. Nephrol. 5: 943-49, 2010), or Chawla et al. (Kidney Intl. 68: 2274-80, 2005)), a glomerular filtration rate, an estimated glomerular filtration rate, a urine production rate, a serum or plasma creatinine concentration, a urine creatinine concentration, a fractional excretion of sodium, a urine sodium concentration, a urine creatinine to serum or plasma creatinine ratio, a urine specific gravity, a urine osmolality, a urine urea nitrogen to plasma urea nitrogen ratio, a plasma BUN to creatnine ratio, a renal failure index calculated as urine sodium/(urine creatinine/plasma creatinine), a serum or plasma neutrophil gelatinase (NGAL) concentration, a urine NGAL concentration, a serum or plasma cystatin C concentration, a serum or plasma cardiac troponin concentration, a serum or plasma BNP concentration, a serum or plasma NTproBNP concentration, and a serum or plasma proBNP concentration. Other measures of renal function which may be combined with one or more kidney injury marker assay result(s) are described hereinafter and in Harrison's Principles of Internal Medicine, 17th Ed., McGraw Hill, New York, pages 1741-1830, and Current Medical Diagnosis & Treatment 2008, 47th Ed, McGraw Hill, New York, pages 785-815, each of which are hereby incorporated by reference in their entirety.
When more than one marker is measured, the individual markers may be measured in samples obtained at the same time, or may be determined from samples obtained at different (e.g., an earlier or later) times. The individual markers may also be measured on the same or different body fluid samples. For example, one kidney injury marker may be measured in a serum or plasma sample and another kidney injury marker may be measured in a urine sample. In addition, assignment of a likelihood may combine an individual kidney injury marker assay result with temporal changes in one or more additional variables.
In various related aspects, the present invention also relates to devices and kits for performing the methods described herein. Suitable kits comprise reagents sufficient for performing an assay for at least one of the described kidney injury markers, together with instructions for performing the described threshold comparisons.
In certain embodiments, reagents for performing such assays are provided in an assay device, and such assay devices may be included in such a kit. Preferred reagents can comprise one or more solid phase antibodies, the solid phase antibody comprising antibody that detects the intended biomarker target(s) bound to a solid support. In the case of sandwich immunoassays, such reagents can also include one or more detectably labeled antibodies, the detectably labeled antibody comprising antibody that detects the intended biomarker target(s) bound to a detectable label. Additional optional elements that may be provided as part of an assay device are described hereinafter.
Detectable labels may include molecules that are themselves detectable (e.g., fluorescent moieties, electrochemical labels, ecl (electrochemical luminescence) labels, metal chelates, colloidal metal particles, etc.) as well as molecules that may be indirectly detected by production of a detectable reaction product (e.g., enzymes such as horseradish peroxidase, alkaline phosphatase, etc.) or through the use of a specific binding molecule which itself may be detectable (e.g., a labeled antibody that binds to the second antibody, biotin, digoxigenin, maltose, oligohistidine, 2,4-dintrobenzene, phenylarsenate, ssDNA, dsDNA, etc.).
Generation of a signal from the signal development element can be performed using various optical, acoustical, and electrochemical methods well known in the art. Examples of detection modes include fluorescence, radiochemical detection, reflectance, absorbance, amperometry, conductance, impedance, interferometry, ellipsometry, etc. In certain of these methods, the solid phase antibody is coupled to a transducer (e.g., a diffraction grating, electrochemical sensor, etc) for generation of a signal, while in others, a signal is generated by a transducer that is spatially separate from the solid phase antibody (e.g., a fluorometer that employs an excitation light source and an optical detector). This list is not meant to be limiting. Antibody-based biosensors may also be employed to determine the presence or amount of analytes that optionally eliminate the need for a labeled molecule.



BRIEF DESCRIPTION OF THE FIGURES
FIGS. 1-43 provide a detailed summary of the ability of panels of biomarkers to evaluate acute kidney injury in an ICU patient population. Patients in the population are divided based on the RIFLE classification of renal status. The following analyses are provided:
FIG. 1. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is obtained 24 hours prior to RIFLE I diagnosis.
FIG. 2. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr. Diseased group sample is obtained 24 hours prior to RIFLE I diagnosis.
FIG. 3. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is obtained 24 hours prior to RIFLE I diagnosis.
FIG. 4. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is obtained 24 hours prior to RIFLE R diagnosis.
FIG. 5. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr. Diseased group sample is obtained 24 hours prior to RIFLE R diagnosis.
FIG. 6. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is obtained 24 hours prior to RIFLE R diagnosis.
FIG. 7. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is obtained 24 hours prior to RIFLE I diagnosis.
FIG. 8. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by Urine Output. Diseased group sample is obtained 24 hours prior to RIFLE I diagnosis.
FIG. 9. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is obtained at RIFLE I diagnosis.
FIG. 10. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr. Diseased group sample is obtained at RIFLE I diagnosis.
FIG. 11. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is obtained at RIFLE I diagnosis.
FIG. 12. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is obtained at RIFLE R diagnosis.
FIG. 13. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr. Diseased group sample is obtained at RIFLE R diagnosis.
FIG. 14. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is obtained at RIFLE R diagnosis.
FIG. 15. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is obtained at RIFLE I diagnosis.
FIG. 16. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr. Diseased group sample is obtained at RIFLE I diagnosis.
FIG. 17. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by Urine Output. Diseased group sample is obtained at RIFLE I diagnosis.
FIG. 18. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is obtained 48 hours prior to RIFLE I diagnosis.
FIG. 19. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr. Diseased group sample is obtained 48 hours prior to RIFLE I diagnosis.
FIG. 20. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is obtained 48 hours prior to RIFLE I diagnosis.
FIG. 21. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is obtained 48 hours prior to RIFLE R diagnosis.
FIG. 22. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr. Diseased group sample is obtained 48 hours prior to RIFLE R diagnosis.
FIG. 23. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is obtained 48 hours prior to RIFLE R diagnosis.
FIG. 24. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is obtained 48 hours prior to RIFLE I diagnosis.
FIG. 25. Progression of RIFLE R to RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output. Sample is obtained at R diagnosis.
FIG. 26. Progression of RIFLE R to RIFLE I or F. RIFLE stage adjudicated by sCr. Sample is obtained at R diagnosis.
FIG. 27. Progression of RIFLE R to RIFLE I or F. RIFLE stage adjudicated by Urine Output. Sample is obtained at R diagnosis.
FIG. 28. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output, within 48 hrs of enrollment. Sample is obtained at enrollment.
FIG. 29. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr, within 48 hrs of enrollment. Sample is obtained at enrollment.
FIG. 30. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output, within 48 hrs of enrollment. Sample is obtained at enrollment.
FIG. 31. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output, within 48 hrs of enrollment. Sample is obtained at enrollment.
FIG. 32. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr, within 48 hrs of enrollment. Sample is obtained at enrollment.
FIG. 33. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output, within 48 hrs of enrollment. Sample is obtained at enrollment.
FIG. 34. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output, within 48 hrs of enrollment. Sample is obtained at enrollment.
FIG. 35. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by Urine Output, within 48 hrs of enrollment. Sample is obtained at enrollment.
FIG. 36. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output, within 24 hrs of enrollment. Sample is obtained at enrollment.
FIG. 37. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr, within 24 hrs of enrollment. Sample is obtained at enrollment.
FIG. 38. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output, within 24 hrs of enrollment. Sample is obtained at enrollment.
FIG. 39. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output, within 24 hrs of enrollment. Sample is obtained at enrollment.
FIG. 40. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr, within 24 hrs of enrollment. Sample is obtained at enrollment.
FIG. 41. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output, within 24 hrs of enrollment. Sample is obtained at enrollment.
FIG. 42. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output, within 24 hrs of enrollment. Sample is obtained at enrollment.
FIG. 43. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by Urine Output, within 24 hrs of enrollment. Sample is obtained at enrollment.



DETAILED DESCRIPTION OF THE INVENTION
The present invention relates to methods and compositions for diagnosis, differential diagnosis, risk stratification, monitoring, classifying and determination of treatment regimens in subjects suffering or at risk of suffering from injury to renal function, reduced renal function and/or acute renal failure through measurement of one or more kidney injury markers. In various embodiments, a biomarker recited in Table 2 herein, or one or more markers related thereto, is combined with one or more additional biomarkers listed in Table 2 herein and/or with one or more other biomarkers or clinical indicia, and the combination correlated to the renal status of the subject.
For purposes of this document, the following definitions apply:
As used herein, an “injury to renal function” is an abrupt (within 14 days, preferably within 7 days, more preferably within 72 hours, and still more preferably within 48 hours) measurable reduction in a measure of renal function. Such an injury may be identified, for example, by a decrease in glomerular filtration rate or estimated GFR, a reduction in urine output, an increase in serum creatinine, an increase in serum cystatin C, a requirement for renal replacement therapy, etc. “Improvement in Renal Function” is an abrupt (within 14 days, preferably within 7 days, more preferably within 72 hours, and still more preferably within 48 hours) measurable increase in a measure of renal function. Preferred methods for measuring and/or estimating GFR are described hereinafter.
As used herein, “reduced renal function” is an abrupt (within 14 days, preferably within 7 days, more preferably within 72 hours, and still more preferably within 48 hours) reduction in kidney function identified by an absolute increase in serum creatinine of greater than or equal to 0.1 mg/dL (≧8.8 μmol/L), a percentage increase in serum creatinine of greater than or equal to 20% (1.2-fold from baseline), or a reduction in urine output (documented oliguria of less than 0.5 ml/kg per hour).
As used herein, “acute renal failure” or “ARF” is an abrupt (within 14 days, preferably within 7 days, more preferably within 72 hours, and still more preferably within 48 hours) reduction in kidney function identified by an absolute increase in serum creatinine of greater than or equal to 0.3 mg/dl (≧26.4 μmol/l), a percentage increase in serum creatinine of greater than or equal to 50% (1.5-fold from baseline), or a reduction in urine output (documented oliguria of less than 0.5 ml/kg per hour for at least 6 hours). This term is synonymous with “acute kidney injury” or “AKI.”
In the case of polypeptide biomarkers used herein, a “marker” or “biomarker” refers to polypeptides present in a biological sample that are derived from a particular biosynthetic precursor. In the case of biomarkers that are not polypeptides (e.g., Hyaluronic acid), a “marker” or “biomarker” refers to the particular molecular entity recited.
The following Table 2 provides a list of preferred biomarkers finding use in the present invention. In the table, the “recommended name” for the biomarker precursor from the Swiss-Prot “UniProtKB” database, and for most polypeptide biomarkers the Swiss-Prot entry number for the human precursor. In the event that the assay detects a complex, the Swiss Prot entry is listed for each member of the complex.










TABLE 2






Swiss-

Swiss-


Preferred Name
Prot:
Preferred Name
Prot:







60 kDa heat shock protein, mitochondrial
P10809
72 kDa type IV collagenase
P08253


72 kDa type IV collagenase:Metalloproteinase
P08253
72 kDa type IV collagenase:Metalloproteinase
P08253


inhibitor 1 complex
P01033
inhibitor 2 complex
P16035


72 kDa type IV collagenase:Metalloproteinase
P08253
Adiponectin
Q15848


inhibitor 4 complex
Q99727




Advanced glycosylation end product-specific
Q15109
Agouti-related protein
O00253


receptor





Alkaline phosphatase, tissue-nonspecific
P05186
Alpha-1-antitrypsin
P01009


isozyme





Alpha-1-antitrypsin:Neutrophil elastase
P01009
Alpha-1-antitrypsin:Plasminogen complex
P01009


complex
P08246

P00747


Alpha-2 macroglobulin
P01023
Alpha-2-HS-glycoprotein
P02765


Alpha-fetoprotein
P02771
Amphiregulin
P15514


Amyloid Beta 40
P05067
Amyloid Beta 42
P05067



(aa672-711)

(aa672-713)


Angiogenin
P03950
Angiopoietin-1
Q15389


Angiopoietin-1 receptor
Q02763
Angiopoietin-2
O15123


Angiopoietin-related protein 3
Q9Y5C1
Angiopoietin-related protein 4
Q9BY76


Angiopoietin-related protein 6
Q8NI99
Anti-Cathepsin-G (ANCA)
NA


Antileukoproteinase
P03973
Apolipoprotein A-I
P02647


Apolipoprotein A-II
P02652
Apolipoprotein B-100
P04114


Apolipoprotein C-III
P02656
Apolipoprotein E
P02649


Apolipoprotein(a)
P08519
Appetite-regulating hormone
Q9UBU3


Aspartate aminotransferase, cytoplasmic
P17174
Bactericidal permeability-increasing protein
P17213


Bcl2 antagonist of cell death
Q92934
Beta-2-glycoprotein 1
P02749


Beta-2-microglobulin
P61769
Beta-nerve growth factor
P01138


Betacellulin
P35070
Bone morphogenetic protein 7
P18075


Brain-derived neurotrophic factor
P23560
C—C motif chemokine 1
P22362


C—C motif chemokine 13
Q99616
C—C motif chemokine 15
Q16663


C—C motif chemokine 17
Q92583
C—C motif chemokine 18
P55774


C—C motif chemokine 19
Q99731
C—C motif chemokine 2
P13500


C—C motif chemokine 20
P78556
C—C motif chemokine 21
O00585


C—C motif chemokine 22
O00626
C—C motif chemokine 23
P55773


C—C motif chemokine 24
O00175
C—C motif chemokine 26
Q9Y258


C—C motif chemokine 27
Q9Y4X3
C—C motif chemokine 3
P10147


C—C motif chemokine 4
P13236
C—C motif chemokine 5
P13501


C—C motif chemokine 7
P80098
C—C motif chemokine 8
P80075


C-Peptide
P01308(aa
C-reactive protein
P02741



57-87)




C—X—C motif chemokine 10
P02778
C—X—C motif chemokine 11
O14625


C—X—C motif chemokine 13
O43927
C—X—C motif chemokine 16
Q9H2A7


C—X—C motif chemokine 2
P19875
C—X—C motif chemokine 5
P42830


C—X—C motif chemokine 6
P80162
C—X—C motif chemokine 9
Q07325


Cadherin-1
P12830
Cadherin-16
O75309


Cadherin-3
P22223
Cadherin-5
P33151


Calbindin
P05937
Calcitonin
P01258


Calcitonin (Procalcitonin)
P01258-
Cancer Antigen 15-3
NA



Pro




Cancer Antigen 19-9
NA
Carbonic anhydrase 9
Q16790


Carcinoembryonic antigen-related cell
P13688
Carcinoembryonic antigen-related cell
P06731


adhesion molecule 1

adhesion molecule 5



Caspase-1
P29466
Caspase-3, active
P42574


Caspase-8
Q14790
Caspase-9
P55211


Cathepsin B
P07858
Cathepsin D
P07339


Cathepsin S
P25774
CD40 ligand
P29965


CD44 antigen
P16070
Cellular tumor antigen p53
P04637


Choriogonadotropin subunit beta
P01233
Ciliary neurotrophic factor
P26441


Clusterin
P10909
Coagulation factor VII
P08709


Collagenase 3
P45452
Complement C3
P01024


Complement C4-B
P0C0L5
Complement C5
P01031


Complement factor H
P08603
Corticotropin
P01189(aa





138-176)


Cortisol
NA
Creatine Kinase-MB
P12277





P06732


Creatinine
NA
Cyclin-dependent kinase inhibitor 1
P38936


Cystatin-C
P01034
Cytochrome c
P99999


DDRGK domain-containing protein 1
Q96HY6
Dipeptidyl peptidase 4
P27487


E-selectin
P16581
Endoglin
P17813


Endostatin
P39060(aa
Endothelial protein C receptor
Q9UNN8



1572-1754)




Endothelin-1
P05305
Eotaxin
P51671


Epidermal growth factor receptor
P00533
Epiregulin
O14944


Epithelial cell adhesion molecule
P16422
Erythropoietin
P01588


Erythropoietin receptor
P19235
Fatty acid-binding protein, heart
P05413


Fatty acid-binding protein, intestinal
P12104
Fatty acid-binding protein, liver
P07148


Ferritin
P02792
Fibrinogen
P02671



P02794

P02675





P02679


Fibroblast growth factor 19
O95750
Fibroblast growth factor 21
Q9NSA1


Fibroblast growth factor 23
Q9GZV9
Fibronectin
P02751


Follistatin
P19883
Follitropin
P01215





P01225


Follitropin subunit beta
P01225
Fractalkine
P78423


Galectin-3
P17931
Gastric inhibitory polypeptide
P09681


Glial cell line-derived neurotrophic factor
P39905
Glial fibrillary acidic protein
P14136


Glucagon
P01275
Glucagon-like peptide 1
P01275(aa





98-127





aa98-128)


Glutathione S-transferase A1
P08263
Glutathione S-transferase P
P09211


Granulocyte colony-stimulating factor
P09919
Granulocyte-macrophage colony-stimulating
P04141




factor



Granzyme B
P10144
Granzyme M
P51124


Growth-regulated alpha protein
P09341
Haptoglobin
P00738


Heat shock 70 kDa protein 1
P08107
Heat shock protein beta-1
P04792


Heat shock protein beta-1 (phospho SER78/
P04792
Heat shock protein HSP 90-alpha
P07900


phospho SER82)
(pS78/pS82)




Heme oxygenase 1
P09601
Heparan Sulfate
NA


Heparin-binding EGF-like growth factor
Q99075
Heparin-binding growth factor 1
P05230


Heparin-binding growth factor 2
P09038
Hepatitis A virus cellular receptor 1
O43656


Hepatocyte growth factor
P14210
Hepatocyte growth factor receptor
P08581


Hyaluronic acid
NA
Hypoxia-inducible factor 1 alpha
Q16665


Immunoglobulin A
NA
Immunoglobulin E
NA


Immunoglobulin M
NA
Immunoglogulin G1
NA


Immunoglogulin G2
NA
Immunoglogulin G3
NA


Immunoglogulin G4
NA
Insulin
P01308


Insulin receptor substrate 1
P35568
Insulin-like growth factor 1 receptor
P08069


Insulin-like growth factor IA
P01343
Insulin-like growth factor-binding protein 1
P08833


Insulin-like growth factor-binding protein 2
P18065
Insulin-like growth factor-binding protein 3
P17936


Insulin-like growth factor-binding protein 4
P22692
Insulin-like growth factor-binding protein 5
P24593


Insulin-like growth factor-binding protein 6
P24592
Insulin-like growth factor-binding protein 7
Q16270


Intercellular adhesion molecule 1
P05362
Intercellular adhesion molecule 2
P13598


Intercellular adhesion molecule 3
P32942
Interferon alpha-2
P01563


Interferon gamma
P01579
Interleukin-1 alpha
P01583


Interleukin-1 beta
P01584
Interleukin-1 receptor antagonist protein
P18510


Interleukin-1 receptor type I
P14778
Interleukin-1 receptor type II
P27930


Interleukin-10
P22301
Interleukin-11
P20809


Interleukin-12
P29459
Interleukin-12 subunit beta
P29460



P29460




Interleukin-13
P35225
Interleukin-15
P40933


Interleukin-17A
Q16552
Interleukin-18
Q14116


Interleukin-2
P60568
Interleukin-2 receptor alpha chain
P01589


Interleukin-20
Q9NYY1
Interleukin-21
Q9HBE4


Interleukin-23
Q9NPF7
Interleukin-28A
Q8IZJ0



P29460




Interleukin-29
Q8IU54
Interleukin-3
P08700


Interleukin-33
O95760
Interleukin-4
P05112


Interleukin-4 receptor alpha chain
P24394
Interleukin-5
P05113


Interleukin-6
P05231
Interleukin-6 receptor subunit alpha
P08887


Interleukin-6 receptor subunit beta
P40189
Interleukin-7
P13232


Interleukin-8
P10145
Interleukin-9
P15248


Interstitial collagenase
P03956
Interstitial collagenase:Metalloproteinase
P03956




inhibitor 2 complex
P16035


Involucrin
P07476
Islet amyloid polypeptide
P10997


Keratin, type I cytoskeletal 19 (aa311-367)
P08727
Keratin, type II cytoskeletal 1; type1
P04264




cytoskeletal 10 (Keratin-1,-10 mix)
P13645


Keratin, type II cytoskeletal 6 (6A, -6B, -6C
P02538
Kit ligand
P21583


mix)
P04259





P48668




Lactotransferrin
P02788
Leptin
P41159


Leukemia inhibitory factor
P15018
Lipopolysaccharide (serotypes-K,-O)
NA


Lutropin
P01215
Lutropin subunit beta
P01229



P01229




Lymphatic vessel endothelial hyaluronic acid
Q9Y5Y7
Lymphotactin
P47992


receptor 1





Lymphotoxin-alpha
P01374
Lysozyme C
P61626


Macrophage colony-stimulating factor 1
P09603
Macrophage metalloelastase
P39900


Macrophage migration inhibitory factor
P14174
Malondialdehyde-modified low-density
NA




lipoprotein



Matrilysin
P09237
Matrix metalloproteinase-9
P14780


Matrix metalloproteinase-9:Metalloproteinase
P14780
Matrix metalloproteinase-9:Metalloproteinase
P14780


inhibitor 2 complex
P16035
inhibitor 3 complex
P35625


Metalloproteinase inhibitor 1
P01033
Metalloproteinase inhibitor 2
P16035


Metalloproteinase inhibitor 3
P35625
Metalloproteinase inhibitor 4
Q99727


Midkine
P21741
Mix of Growth-regulated alpha, beta, and
P09341




gamma proteins
P19875





P19876


Monocyte differentiation antigen CD14
P08571
Mucin-16
Q8WXI7


Myeloid differentiation primary response
Q99836
Myeloperoxidase
P05164


protein MyD88





Myoglobin
P02144
Neprilysin
P08473


Netrin-1
O95631
Neural cell adhesion molecule 1
P13591


Neuronal cell adhesion molecule
Q92823
Neutrophil collagenase
P22894


Neutrophil elastase
P08246
Neutrophil gelatinase-associated lipocalin
P80188


NF-kappa-B inhibitor alpha
P25963
Nidogen-1
P14543


Nitric oxide synthase, inducible
P35228
NT-pro-BNP
P16860


Osteocalcin
P02818
Osteopontin
P10451


Oxidized low-density lipoprotein receptor 1
P78380
P-selectin
P16109


P-selectin glycoprotein ligand 1
Q14242
Pancreatic prohormone
P01298


Pappalysin-1
Q13219
Parathyroid hormone
P01270


Peptide YY
P10082
Pigment epithelium-derived factor
P36955


Placenta growth factor
P49763
Plasminogen activator inhibitor 1
P05121


Platelet basic protein
P02775
Platelet endothelial cell adhesion molecule
P16284


Platelet factor 4
P02776
Platelet-derived growth factor A
P04085





P01127


Platelet-derived growth factor subunit A
P04085
Platelet-derived growth factor subunit B
P01127


(dimer)

(dimer)



Poly [ADP-ribose] polymerase 1 (cleaved)
P09874
Pro-epidermal growth factor
P01133


Pro-Interleukin-1 beta
P01584-
Pro-interleukin-16
Q14005



Pro




Prolactin
P01236
Prostate-specific antigen
P07288


Prostatic acid phosphatase
P15309
Protein NOV homolog
P48745


Protein S100-A12
P80511
Protein S100-B
P04271


Protransforming growth factor alpha
P01135
Renin
P00797


Resistin
Q9HD89
Serum albumin
P02768


Serum amyloid A protein
P02735
Serum amyloid P-component
P02743


Sex hormone-binding globulin
P04278
SL cytokine
P49771


Somatotropin
P01241
Stromal cell-derived factor 1
P48061


Stromelysin-1
P08254
Stromelysin-1:Metalloproteinase inhibitor 2
P08254




complex
P16035


Stromelysin-2
P09238
Tenascin
P24821


Thrombomodulin
P07204
Thrombopoietin
P40225


Thrombospondin-1
P07996
Thrombospondin-2
P35442


Thymic stromal lymphopoietin
Q969D9
Thyrotropin
P01215





P01222


Thyroxine-binding globulin
P05543
Tissue factor
P13726


Tissue-type plasminogen activator
P00750
Transforming growth factor beta-1
P01137


Transforming growth factor beta-2
P61812
Transforming growth factor beta-3
P10600


Transmembrane glycoprotein NMB
Q14956
Transthyretin
P02766


Trefoil factor 3
Q07654
Tubulointerstitial nephritis antigen
Q9UJW2


Tumor necrosis factor
P01375
Tumor necrosis factor ligand superfamily
P50591




member 10



Tumor necrosis factor ligand superfamily
O14788
Tumor necrosis factor ligand superfamily
P48023


member 11

member 6



Tumor necrosis factor receptor superfamily
O14763
Tumor necrosis factor receptor superfamily
O00300


member 10B

member 11B



Tumor necrosis factor receptor superfamily
P19438
Tumor necrosis factor receptor superfamily
P20333


member 1A

member 1B



Tumor necrosis factor receptor superfamily
P25942
Tumor necrosis factor receptor superfamily
P25445


member 5

member 6



Tumor necrosis factor receptor superfamily
P28908
Urokinase plasminogen activator surface
Q03405


member 8

receptor



Urokinase-type plasminogen activator
P00749
Vascular cell adhesion protein 1
P19320


Vascular endothelial growth factor A
P15692
Vascular endothelial growth factor D
O43915


Vascular endothelial growth factor receptor 1
P17948
Vascular endothelial growth factor receptor 2
P35968


Vascular endothelial growth factor receptor 3
P35916
Versican core protein
P13611


Vitamin D-binding protein
P02774
Vitamin K-dependent protein C
P04070


von Willebrand Factor
P04275
WAP four-disulfide core domain protein 2
Q14508









Included in this list are a number of proteins which exist in one form as type-I, type-II, or GPI-anchored membrane proteins. Typically, such membrane proteins comprise a substantial extracellular domain, some or all of which can be detected as soluble forms present in aqueous samples such as blood, serum, plasma, urine, etc., either as cleavage products or as splice variants which delete an effective membrane spanning domain. These membrane proteins include Swiss-Prot entry numbers O14788, O14944, O75309, P00797, P05186, P08473, P13688, P15514, P22223, P27487, P35070, Q03405, Q14956, Q16790, Q99075, Q9Y5Y7Q15109, Q02763, P17213, P12830, P33151, P06731, P29965, P16070, Q9H2A7, P17813, Q9UNN8, P00533, P16422, P19235, P16581, P78423, O43656, P08581, P08069, P05362, P13598, P32942, P14778, P27930, P01589, P24394, P08887, P40189, P21583, P09603, P08571, Q8WXI7, P13591, Q92823, P78380, P16284, P01133, P15309, P01135, P16109, Q14242, P49771, P07204, P13726, P01375, P50591, P48023, O14763, P19438, P20333, P25942, P25445, P28908, P19320, P17948, and P35968. Preferred assays detect soluble forms of these biomarkers.
In this regard, the skilled artisan will understand that the signals obtained from an immunoassay are a direct result of complexes formed between one or more antibodies and the corresponding target biomolecule (i.e., the analyte) containing the necessary epitope(s) to which the antibodies bind. While such assays may detect the full length biomarker and the assay result be expressed as a concentration of a biomarker of interest, the signal from the assay is actually a result of all such “immunoreactive” molecules present in the sample. Expression of biomarkers may also be determined by means other than immunoassays, including protein measurements (such as dot blots, western blots, chromatographic methods, mass spectrometry, etc.) and nucleic acid measurements (mRNA quatitation). This list is not meant to be limiting.
As used herein, the term “relating a signal to the presence or amount” of an analyte reflects this understanding. Assay signals are typically related to the presence or amount of an analyte through the use of a standard curve calculated using known concentrations of the analyte of interest. As the term is used herein, an assay is “configured to detect” an analyte if an assay can generate a detectable signal indicative of the presence or amount of a physiologically relevant concentration of the analyte. Because an antibody epitope is on the order of 8 amino acids, an immunoassay configured to detect a marker of interest will also detect polypeptides related to the marker sequence, so long as those polypeptides contain the epitope(s) necessary to bind to the antibody or antibodies used in the assay. The term “related marker” as used herein with regard to a biomarker such as one of the kidney injury markers described herein refers to one or more fragments, variants, etc., of a particular marker or its biosynthetic parent that may be detected as a surrogate for the marker itself or as independent biomarkers. The term also refers to one or more polypeptides present in a biological sample that are derived from the biomarker precursor complexed to additional species, such as binding proteins, receptors, heparin, lipids, sugars, etc.
The term “positive going” marker as that term is used herein refer to a marker that is determined to be elevated in subjects suffering from a disease or condition, relative to subjects not suffering from that disease or condition. The term “negative going” marker as that term is used herein refer to a marker that is determined to be reduced in subjects suffering from a disease or condition, relative to subjects not suffering from that disease or condition.
The term “subject” as used herein refers to a human or non-human organism. Thus, the methods and compositions described herein are applicable to both human and veterinary disease. Further, while a subject is preferably a living organism, the invention described herein may be used in post-mortem analysis as well. Preferred subjects are humans, and most preferably “patients,” which as used herein refers to living humans that are receiving medical care for a disease or condition. This includes persons with no defined illness who are being investigated for signs of pathology.
Preferably, an analyte is measured in a sample. Such a sample may be obtained from a subject, or may be obtained from biological materials intended to be provided to the subject. For example, a sample may be obtained from a kidney being evaluated for possible transplantation into a subject, and an analyte measurement used to evaluate the kidney for preexisting damage. Preferred samples are body fluid samples.
The term “body fluid sample” as used herein refers to a sample of bodily fluid obtained for the purpose of diagnosis, prognosis, classification or evaluation of a subject of interest, such as a patient or transplant donor. In certain embodiments, such a sample may be obtained for the purpose of determining the outcome of an ongoing condition or the effect of a treatment regimen on a condition. Preferred body fluid samples include blood, serum, plasma, cerebrospinal fluid, urine, saliva, sputum, and pleural effusions. In addition, one of skill in the art would realize that certain body fluid samples would be more readily analyzed following a fractionation or purification procedure, for example, separation of whole blood into serum or plasma components.
The term “diagnosis” as used herein refers to methods by which the skilled artisan can estimate and/or determine the probability (“a likelihood”) of whether or not a patient is suffering from a given disease or condition. In the case of the present invention, “diagnosis” includes using the results of an assay, most preferably an immunoassay, for a kidney injury marker of the present invention, optionally together with other clinical characteristics, to arrive at a diagnosis (that is, the occurrence or nonoccurrence) of an acute renal injury or ARF for the subject from which a sample was obtained and assayed. That such a diagnosis is “determined” is not meant to imply that the diagnosis is 100% accurate. Many biomarkers are indicative of multiple conditions. The skilled clinician does not use biomarker results in an informational vacuum, but rather test results are used together with other clinical indicia to arrive at a diagnosis. Thus, a measured biomarker level on one side of a predetermined diagnostic threshold indicates a greater likelihood of the occurrence of disease in the subject relative to a measured level on the other side of the predetermined diagnostic threshold.
Similarly, a prognostic risk signals a probability (“a likelihood”) that a given course or outcome will occur. A level or a change in level of a prognostic indicator, which in turn is associated with an increased probability of morbidity (e.g., worsening renal function, future ARF, or death) is referred to as being “indicative of an increased likelihood” of an adverse outcome in a patient.
As used herein, a “plurality” as used herein refers to at least two. Preferably, a plurality refers to at least 3, more preferably at least 4, even more preferably at least 5, even more preferably at least 10, and most preferably at least 20.
Marker Assays
In general, immunoassays involve contacting a sample containing or suspected of containing a biomarker of interest with at least one antibody that specifically binds to the biomarker. A signal is then generated indicative of the presence or amount of complexes formed by the binding of polypeptides in the sample to the antibody. The signal is then related to the presence or amount of the biomarker in the sample. Numerous methods and devices are well known to the skilled artisan for the detection and analysis of biomarkers. See, e.g., U.S. Pat. Nos. 6,143,576; 6,113,855; 6,019,944; 5,985,579; 5,947,124; 5,939,272; 5,922,615; 5,885,527; 5,851,776; 5,824,799; 5,679,526; 5,525,524; and 5,480,792, and The Immunoassay Handbook, David Wild, ed. Stockton Press, New York, 1994, each of which is hereby incorporated by reference in its entirety, including all tables, figures and claims.
The assay devices and methods known in the art can utilize labeled molecules in various sandwich, competitive, or non-competitive assay formats, to generate a signal that is related to the presence or amount of the biomarker of interest. Suitable assay formats also include chromatographic, mass spectrographic, and protein “blotting” methods. Additionally, certain methods and devices, such as biosensors and optical immunoassays, may be employed to determine the presence or amount of analytes without the need for a labeled molecule. See, e.g., U.S. Pat. Nos. 5,631,171; and 5,955,377, each of which is hereby incorporated by reference in its entirety, including all tables, figures and claims. One skilled in the art also recognizes that robotic instrumentation including but not limited to Beckman ACCESS®, Abbott AXSYM®, Roche ELECSYS®, Dade Behring STRATUS® systems are among the immunoassay analyzers that are capable of performing immunoassays. But any suitable immunoassay may be utilized, for example, enzyme-linked immunoassays (ELISA), radioimmunoassays (RIAs), competitive binding assays, and the like.
Antibodies or other polypeptides may be immobilized onto a variety of solid supports for use in assays. Solid phases that may be used to immobilize specific binding members include include those developed and/or used as solid phases in solid phase binding assays. Examples of suitable solid phases include membrane filters, cellulose-based papers, beads (including polymeric, latex and paramagnetic particles), glass, silicon wafers, microparticles, nanoparticles, TentaGelTM resins (Rapp Polymere GmbH), AgroGelTM resins (I.L.S.A. Industria Lavorazione Sottoprodotti Animali S.P.A.), polyethylene glycol and acrylamide (PEGA) gels, SPOCC gels, and multiple-well plates. An assay strip could be prepared by coating the antibody or a plurality of antibodies in an array on solid support. This strip could then be dipped into the test sample and then processed quickly through washes and detection steps to generate a measurable signal, such as a colored spot. Antibodies or other polypeptides may be bound to specific zones of assay devices either by conjugating directly to an assay device surface, or by indirect binding. In an example of the later case, antibodies or other polypeptides may be immobilized on particles or other solid supports, and that solid support immobilized to the device surface.
Biological assays require methods for detection, and one of the most common methods for quantitation of results is to conjugate a detectable label to a protein or nucleic acid that has affinity for one of the components in the biological system being studied. Detectable labels may include molecules that are themselves detectable (e.g., fluorescent moieties, electrochemical labels, metal chelates, etc.) as well as molecules that may be indirectly detected by production of a detectable reaction product (e.g., enzymes such as horseradish peroxidase, alkaline phosphatase, etc.) or by a specific binding molecule which itself may be detectable (e.g., biotin, digoxigenin, maltose, oligohistidine, 2,4-dintrobenzene, phenylarsenate, ssDNA, dsDNA, etc.).
Preparation of solid phases and detectable label conjugates often comprise the use of chemical cross-linkers. Cross-linking reagents contain at least two reactive groups, and are divided generally into homofunctional cross-linkers (containing identical reactive groups) and heterofunctional cross-linkers (containing non-identical reactive groups). Homobifunctional cross-linkers that couple through amines, sulfhydryls or react non-specifically are available from many commercial sources. Maleimides, alkyl and aryl halides, alpha-haloacyls and pyridyl disulfides are thiol reactive groups. Maleimides, alkyl and aryl halides, and alpha-haloacyls react with sulfhydryls to form thiol ether bonds, while pyridyl disulfides react with sulfhydryls to produce mixed disulfides. The pyridyl disulfide product is cleavable. Imidoesters are also very useful for protein-protein cross-links. A variety of heterobifunctional cross-linkers, each combining different attributes for successful conjugation, are commercially available.
In certain aspects, the present invention provides kits for the analysis of the described kidney injury markers. The kit comprises reagents for the analysis of at least one test sample which comprise at least one antibody that a kidney injury marker. The kit can also include devices and instructions for performing one or more of the diagnostic and/or prognostic correlations described herein. Preferred kits will comprise an antibody pair for performing a sandwich assay, or a labeled species for performing a competitive assay, for the analyte. Preferably, an antibody pair comprises a first antibody conjugated to a solid phase and a second antibody conjugated to a detectable label, wherein each of the first and second antibodies that bind a kidney injury marker. Most preferably each of the antibodies are monoclonal antibodies. The instructions for use of the kit and performing the correlations can be in the form of labeling, which refers to any written or recorded material that is attached to, or otherwise accompanies a kit at any time during its manufacture, transport, sale or use. For example, the term labeling encompasses advertising leaflets and brochures, packaging materials, instructions, audio or video cassettes, computer discs, as well as writing imprinted directly on kits.
Antibodies
The term “antibody” as used herein refers to a peptide or polypeptide derived from, modeled after or substantially encoded by an immunoglobulin gene or immunoglobulin genes, or fragments thereof, capable of specifically binding an antigen or epitope. See, e.g. Fundamental Immunology, 3rd Edition, W. E. Paul, ed., Raven Press, N.Y. (1993); Wilson (1994; J. Immunol. Methods 175:267-273; Yarmush (1992) J. Biochem. Biophys. Methods 25:85-97. The term antibody includes antigen-binding portions, i.e., “antigen binding sites,” (e.g., fragments, subsequences, complementarity determining regions (CDRs)) that retain capacity to bind antigen, including (i) a Fab fragment, a monovalent fragment consisting of the VL, VH, CL and CH1 domains; (ii) a F(ab′)2 fragment, a bivalent fragment comprising two Fab fragments linked by a disulfide bridge at the hinge region; (iii) a Fd fragment consisting of the VH and CH1 domains; (iv) a Fv fragment consisting of the VL and VH domains of a single arm of an antibody, (v) a dAb fragment (Ward et al., (1989) Nature 341:544-546), which consists of a VH domain; and (vi) an isolated complementarity determining region (CDR). Single chain antibodies are also included by reference in the term “antibody.”
Antibodies used in the immunoassays described herein preferably specifically bind to a kidney injury marker of the present invention. The term “specifically binds” is not intended to indicate that an antibody binds exclusively to its intended target since, as noted above, an antibody binds to any polypeptide displaying the epitope(s) to which the antibody binds. Rather, an antibody “specifically binds” if its affinity for its intended target is about 5-fold greater when compared to its affinity for a non-target molecule which does not display the appropriate epitope(s). Preferably the affinity of the antibody will be at least about 5 fold, preferably 10 fold, more preferably 25-fold, even more preferably 50-fold, and most preferably 100-fold or more, greater for a target molecule than its affinity for a non-target molecule. In preferred embodiments, Preferred antibodies bind with affinities of at least about 107 M−1, and preferably between about 108 M−1 to about 109 M−1, about 109 M−1 to about 1010 M−1, or about 1010 M−1 to about 1012 M−1.
Affinity is calculated as Kd=koff/kon (koff is the dissociation rate constant, Kon is the association rate constant and Kd is the equilibrium constant). Affinity can be determined at equilibrium by measuring the fraction bound (r) of labeled ligand at various concentrations (c). The data are graphed using the Scatchard equation: r/c=K(n−r): where r=moles of bound ligand/mole of receptor at equilibrium; c=free ligand concentration at equilibrium; K=equilibrium association constant; and n=number of ligand binding sites per receptor molecule. By graphical analysis, r/c is plotted on the Y-axis versus r on the X-axis, thus producing a Scatchard plot. Antibody affinity measurement by Scatchard analysis is well known in the art. See, e.g., van Erp et al., J. Immunoassay 12: 425-43, 1991; Nelson and Griswold, Comput. Methods Programs Biomed. 27: 65-8, 1988.
The term “epitope” refers to an antigenic determinant capable of specific binding to an antibody. Epitopes usually consist of chemically active surface groupings of molecules such as amino acids or sugar side chains and usually have specific three dimensional structural characteristics, as well as specific charge characteristics. Conformational and nonconformational epitopes are distinguished in that the binding to the former but not the latter is lost in the presence of denaturing solvents.
Numerous publications discuss the use of phage display technology to produce and screen libraries of polypeptides for binding to a selected analyte. See, e.g., Cwirla et al., Proc. Natl. Acad. Sci. USA 87, 6378-82, 1990; Devlin et al., Science 249, 404-6, 1990, Scott and Smith, Science 249, 386-88, 1990; and Ladner et al., U.S. Pat. No. 5,571,698. A basic concept of phage display methods is the establishment of a physical association between DNA encoding a polypeptide to be screened and the polypeptide. This physical association is provided by the phage particle, which displays a polypeptide as part of a capsid enclosing the phage genome which encodes the polypeptide. The establishment of a physical association between polypeptides and their genetic material allows simultaneous mass screening of very large numbers of phage bearing different polypeptides. Phage displaying a polypeptide with affinity to a target bind to the target and these phage are enriched by affinity screening to the target. The identity of polypeptides displayed from these phage can be determined from their respective genomes. Using these methods a polypeptide identified as having a binding affinity for a desired target can then be synthesized in bulk by conventional means. See, e.g., U.S. Pat. No. 6,057,098, which is hereby incorporated in its entirety, including all tables, figures, and claims.
The antibodies that are generated by these methods may then be selected by first screening for affinity and specificity with the purified polypeptide of interest and, if required, comparing the results to the affinity and specificity of the antibodies with polypeptides that are desired to be excluded from binding. The screening procedure can involve immobilization of the purified polypeptides in separate wells of microtiter plates. The solution containing a potential antibody or groups of antibodies is then placed into the respective microtiter wells and incubated for about 30 min to 2 h. The microtiter wells are then washed and a labeled secondary antibody (for example, an anti-mouse antibody conjugated to alkaline phosphatase if the raised antibodies are mouse antibodies) is added to the wells and incubated for about 30 min and then washed. Substrate is added to the wells and a color reaction will appear where antibody to the immobilized polypeptide(s) are present.
The antibodies so identified may then be further analyzed for affinity and specificity in the assay design selected. In the development of immunoassays for a target protein, the purified target protein acts as a standard with which to judge the sensitivity and specificity of the immunoassay using the antibodies that have been selected. Because the binding affinity of various antibodies may differ; certain antibody pairs (e.g., in sandwich assays) may interfere with one another sterically, etc., assay performance of an antibody may be a more important measure than absolute affinity and specificity of an antibody.
While the present application describes antibody-based binding assays in detail, alternatives to antibodies as binding species in assays are well known in the art. These include receptors for a particular target, aptamers, etc. Aptamers are oligonucleic acid or peptide molecules that bind to a specific target molecule. Aptamers are usually created by selecting them from a large random sequence pool, but natural aptamers also exist. High-affinity aptamers containing modified nucleotides conferring improved characteristics on the ligand, such as improved in vivo stability or improved delivery characteristics. Examples of such modifications include chemical substitutions at the ribose and/or phosphate and/or base positions, and may include amino acid side chain functionalities. Assay Correlations
Assay Correlations
The term “correlating” as used herein in reference to the use of biomarkers refers to comparing the presence or amount of the biomarker(s) in a patient to its presence or amount in persons known to suffer from, or known to be at risk of, a given condition; or in persons known to be free of a given condition. Often, this takes the form of comparing an assay result in the form of a biomarker concentration to a predetermined threshold selected to be indicative of the occurrence or nonoccurrence of a disease or the likelihood of some future outcome.
Selecting a diagnostic threshold involves, among other things, consideration of the probability of disease, distribution of true and false diagnoses at different test thresholds, and estimates of the consequences of treatment (or a failure to treat) based on the diagnosis. For example, when considering administering a specific therapy which is highly efficacious and has a low level of risk, few tests are needed because clinicians can accept substantial diagnostic uncertainty. On the other hand, in situations where treatment options are less effective and more risky, clinicians often need a higher degree of diagnostic certainty. Thus, cost/benefit analysis is involved in selecting a diagnostic threshold.
Suitable thresholds may be determined in a variety of ways. For example, one recommended diagnostic threshold for the diagnosis of acute myocardial infarction using cardiac troponin is the 97.5th percentile of the concentration seen in a normal population. Another method may be to look at serial samples from the same patient, where a prior “baseline” result is used to monitor for temporal changes in a biomarker level.
Population studies may also be used to select a decision threshold. Reciever Operating Characteristic (“ROC”) arose from the field of signal detection theory developed during World War II for the analysis of radar images, and ROC analysis is often used to select a threshold able to best distinguish a “diseased” subpopulation from a “nondiseased” subpopulation. A false positive in this case occurs when the person tests positive, but actually does not have the disease. A false negative, on the other hand, occurs when the person tests negative, suggesting they are healthy, when they actually do have the disease. To draw a ROC curve, the true positive rate (TPR) and false positive rate (FPR) are determined as the decision threshold is varied continuously. Since TPR is equivalent with sensitivity and FPR is equal to 1−specificity, the ROC graph is sometimes called the sensitivity vs (1−specificity) plot. A perfect test will have an area under the ROC curve of 1.0; a random test will have an area of 0.5. A threshold is selected to provide an acceptable level of specificity and sensitivity.
In this context, “diseased” is meant to refer to a population having one characteristic (the presence of a disease or condition or the occurrence of some outcome) and “nondiseased” is meant to refer to a population lacking the characteristic. While a single decision threshold is the simplest application of such a method, multiple decision thresholds may be used. For example, below a first threshold, the absence of disease may be assigned with relatively high confidence, and above a second threshold the presence of disease may also be assigned with relatively high confidence. Between the two thresholds may be considered indeterminate. This is meant to be exemplary in nature only.
In addition to threshold comparisons, other methods for correlating assay results to a patient classification (occurrence or nonoccurrence of disease, likelihood of an outcome, etc.) include decision trees, rule sets, Bayesian methods, and neural network methods. These methods can produce probability values representing the degree to which a subject belongs to one classification out of a plurality of classifications.
Measures of test accuracy may be obtained as described in Fischer et al., Intensive Care Med. 29: 1043-51, 2003, and used to determine the effectiveness of a given biomarker. These measures include sensitivity and specificity, predictive values, likelihood ratios, diagnostic odds ratios, and ROC curve areas. The area under the curve (“AUC”) of a ROC plot is equal to the probability that a classifier will rank a randomly chosen positive instance higher than a randomly chosen negative one. The area under the ROC curve may be thought of as equivalent to the Mann-Whitney U test, which tests for the median difference between scores obtained in the two groups considered if the groups are of continuous data, or to the Wilcoxon test of ranks.
As discussed above, suitable tests may exhibit one or more of the following results on these various measures: a specificity of greater than 0.5, preferably at least 0.6, more preferably at least 0.7, still more preferably at least 0.8, even more preferably at least 0.9 and most preferably at least 0.95, with a corresponding sensitivity greater than 0.2, preferably greater than 0.3, more preferably greater than 0.4, still more preferably at least 0.5, even more preferably 0.6, yet more preferably greater than 0.7, still more preferably greater than 0.8, more preferably greater than 0.9, and most preferably greater than 0.95; a sensitivity of greater than 0.5, preferably at least 0.6, more preferably at least 0.7, still more preferably at least 0.8, even more preferably at least 0.9 and most preferably at least 0.95, with a corresponding specificity greater than 0.2, preferably greater than 0.3, more preferably greater than 0.4, still more preferably at least 0.5, even more preferably 0.6, yet more preferably greater than 0.7, still more preferably greater than 0.8, more preferably greater than 0.9, and most preferably greater than 0.95; at least 75% sensitivity, combined with at least 75% specificity; a ROC curve area of greater than 0.5, preferably at least 0.6, more preferably 0.7, still more preferably at least 0.8, even more preferably at least 0.9, and most preferably at least 0.95; an odds ratio different from 1, preferably at least about 2 or more or about 0.5 or less, more preferably at least about 3 or more or about 0.33 or less, still more preferably at least about 4 or more or about 0.25 or less, even more preferably at least about 5 or more or about 0.2 or less, and most preferably at least about 10 or more or about 0.1 or less; a positive likelihood ratio (calculated as sensitivity/(1−specificity)) of greater than 1, at least 2, more preferably at least 3, still more preferably at least 5, and most preferably at least 10; and or a negative likelihood ratio (calculated as (1−sensitivity)/specificity) of less than 1, less than or equal to 0.5, more preferably less than or equal to 0.3, and most preferably less than or equal to 0.1
Additional clinical indicia may be combined with the kidney injury marker assay result(s) of the present invention. These include other biomarkers related to renal status. Examples include the following, which recite the common biomarker name, followed by the Swiss-Prot entry number for that biomarker or its parent: Actin (P68133); Adenosine deaminase binding protein (DPP4, P27487); Alpha-1-acid glycoprotein 1 (P02763); Alpha-1-microglobulin (P02760); Albumin (P02768); Angiotensinogenase (Renin, P00797); Annexin A2 (P07355); Beta-glucuronidase (P08236); B-2-microglobulin (P61679); Beta-galactosidase (P16278); BMP-7 (P18075); Brain natriuretic peptide (proBNP, BNP-32, NTproBNP; P16860); Calcium-binding protein Beta (S100-beta, P04271); Carbonic anhydrase (Q16790); Casein Kinase 2 (P68400); Cathepsin B (P07858); Ceruloplasmin (P00450); Clusterin (P10909); Complement C3 (P01024); Cysteine-rich protein (CYR61, O00622); Cytochrome C (P99999); Epidermal growth factor (EGF, P01133); Endothelin-1 (P05305); Exosomal Fetuin-A (P02765); Fatty acid-binding protein, heart (FABP3, P05413); Fatty acid-binding protein, liver (P07148); Ferritin (light chain, P02793; heavy chain P02794); Fructose-1,6-biphosphatase (P09467); GRO-alpha (CXCL1, (P09341); Growth Hormone (P01241); Hepatocyte growth factor (P14210); Insulin-like growth factor I (P01343); Immunoglobulin G; Immunoglobulin Light Chains (Kappa and Lambda); Interferon gamma (P01308); Lysozyme (P61626); Interleukin-1alpha (P01583); Interleukin-2 (P60568); Interleukin-4 (P60568); Interleukin-9 (P15248); Interleukin-12p40 (P29460); Interleukin-13 (P35225); Interleukin-16 (Q14005); L1 cell adhesion molecule (P32004); Lactate dehydrogenase (P00338); Leucine Aminopeptidase (P28838); Meprin A-alpha subunit (Q16819); Meprin A-beta subunit (Q16820); Midkine (P21741); MIP2-alpha (CXCL2, P19875); MMP-2 (P08253); MMP-9 (P14780); Netrin-1 (O95631); Neutral endopeptidase (P08473); Osteopontin (P10451); Renal papillary antigen 1 (RPA1); Renal papillary antigen 2 (RPA2); Retinol binding protein (P09455); Ribonuclease; S100 calcium-binding protein A6 (P06703); Serum Amyloid P Component (P02743); Sodium/Hydrogen exchanger isoform (NHE3, P48764); Spermidine/spermine N1-acetyltransferase (P21673); TGF-Beta1 (P01137); Transferrin (P02787); Trefoil factor 3 (TFF3, Q07654); Toll-Like protein 4 (O00206); Total protein; Tubulointerstitial nephritis antigen (Q9UJW2); Uromodulin (Tamm-Horsfall protein, P07911).
For purposes of risk stratification, Adiponectin (Q15848); Alkaline phosphatase (P05186); Aminopeptidase N (P15144); CalbindinD28k (P05937); Cystatin C (P01034); 8 subunit of FIFO ATPase (P03928); Gamma-glutamyltransferase (P19440); GSTa (alpha-glutathione-S-transferase, P08263); GSTpi (Glutathione-S-transferase P; GST class-pi; P09211); IGFBP-1 (P08833); IGFBP-2 (P18065); IGFBP-6 (P24592); Integral membrane protein 1 (Itm1, P46977); Interleukin-6 (P05231); Interleukin-8 (P10145); Interleukin-18 (Q14116); IP-10 (10 kDa interferon-gamma-induced protein, P02778); IRPR (IFRD1, O00458); Isovaleryl-CoA dehydrogenase (IVD, P26440); I-TAC/CXCL11 (O14625); Keratin 19 (P08727); Kim-1 (Hepatitis A virus cellular receptor 1, O43656); L-arginine:glycine amidinotransferase (P50440); Leptin (P41159); Lipocalin2 (NGAL, P80188); MCP-1 (P13500); MIG (Gamma-interferon-induced monokine Q07325); MIP-1a (P10147); MIP-3a (P78556); MIP-1beta (P13236); MIP-1d (Q16663); NAG (N-acetyl-beta-D-glucosaminidase, P54802); Organic ion transporter (OCT2, O15244); Osteoprotegerin (O14788); P8 protein (O60356); Plasminogen activator inhibitor 1 (PAI-1, P05121); ProANP (1-98) (P01160); Protein phosphatase 1-beta (PPI-beta, P62140); Rab GDI-beta (P50395); Renal kallikrein (Q86U61); RT1.B-1 (alpha) chain of the integral membrane protein (Q5Y7A8); Soluble tumor necrosis factor receptor superfamily member 1A (sTNFR-I, P19438); Soluble tumor necrosis factor receptor superfamily member 1B (sTNFR-II, P20333); Tissue inhibitor of metalloproteinases 3 (TIMP-3, P35625); uPAR (Q03405) may be combined with the kidney injury marker assay result(s) of the present invention.
Other clinical indicia which may be combined with the kidney injury marker assay result(s) of the present invention includes demographic information (e.g., weight, sex, age, race), medical history (e.g., family history, type of surgery, pre-existing disease such as aneurism, congestive heart failure, preeclampsia, eclampsia, diabetes mellitus, hypertension, coronary artery disease, proteinuria, renal insufficiency, or sepsis, type of toxin exposure such as NSAIDs, cyclosporines, tacrolimus, aminoglycosides, foscarnet, ethylene glycol, hemoglobin, myoglobin, ifosfamide, heavy metals, methotrexate, radiopaque contrast agents, or streptozotocin), clinical variables (e.g., blood pressure, temperature, respiration rate), risk scores (APACHE score, PREDICT score, TIMI Risk Score for UA/NSTEMI, Framingham Risk Score), a urine total protein measurement, a glomerular filtration rate, an estimated glomerular filtration rate, a urine production rate, a serum or plasma creatinine concentration, a renal papillary antigen 1 (RPA1) measurement; a renal papillary antigen 2 (RPA2) measurement; a urine creatinine concentration, a fractional excretion of sodium, a urine sodium concentration, a urine creatinine to serum or plasma creatinine ratio, a urine specific gravity, a urine osmolality, a urine urea nitrogen to plasma urea nitrogen ratio, a plasma BUN to creatnine ratio, and/or a renal failure index calculated as urine sodium/(urine creatinine/plasma creatinine). Other measures of renal function which may be combined with the kidney injury marker assay result(s) are described hereinafter and in Harrison's Principles of Internal Medicine, 17th Ed., McGraw Hill, New York, pages 1741-1830, and Current Medical Diagnosis & Treatment 2008, 47th Ed, McGraw Hill, New York, pages 785-815, each of which are hereby incorporated by reference in their entirety.
Combining assay results/clinical indicia in this manner can comprise the use of multivariate logistical regression, loglinear modeling, neural network analysis, n-of-m analysis, decision tree analysis, etc. This list is not meant to be limiting.
Diagnosis of Acute Renal Failure
As noted above, the terms “acute renal (or kidney) injury” and “acute renal (or kidney) failure” as used herein are defined in part in terms of changes in serum creatinine from a baseline value. Most definitions of ARF have common elements, including the use of serum creatinine and, often, urine output. Patients may present with renal dysfunction without an available baseline measure of renal function for use in this comparison. In such an event, one may estimate a baseline serum creatinine value by assuming the patient initially had a normal GFR. Glomerular filtration rate (GFR) is the volume of fluid filtered from the renal (kidney) glomerular capillaries into the Bowman's capsule per unit time. Glomerular filtration rate (GFR) can be calculated by measuring any chemical that has a steady level in the blood, and is freely filtered but neither reabsorbed nor secreted by the kidneys. GFR is typically expressed in units of ml/min:




  GFR
  =
  
    
      Urine
      ⁢
      
        
      
      ⁢
      Concentration
      ×
      Urine
      ⁢
      
        
      
      ⁢
      Flow
    
    
      Plasma
      ⁢
      
        
      
      ⁢
      Concentration
    
  




By normalizing the GFR to the body surface area, a GFR of approximately 75-100 ml/min per 1.73 m2 can be assumed. The rate therefore measured is the quantity of the substance in the urine that originated from a calculable volume of blood.
There are several different techniques used to calculate or estimate the glomerular filtration rate (GFR or eGFR). In clinical practice, however, creatinine clearance is used to measure GFR. Creatinine is produced naturally by the body (creatinine is a metabolite of creatine, which is found in muscle). It is freely filtered by the glomerulus, but also actively secreted by the renal tubules in very small amounts such that creatinine clearance overestimates actual GFR by 10-20%. This margin of error is acceptable considering the ease with which creatinine clearance is measured.
Creatinine clearance (CCr) can be calculated if values for creatinine's urine concentration (UCr), urine flow rate (V), and creatinine's plasma concentration (PCr) are known. Since the product of urine concentration and urine flow rate yields creatinine's excretion rate, creatinine clearance is also said to be its excretion rate (UCr×V) divided by its plasma concentration. This is commonly represented mathematically as:




  
    C
    Cr
  
  =
  
    
      
        U
        Cr
      
      ×
      V
    
    
      P
      Cr
    
  




Commonly a 24 hour urine collection is undertaken, from empty-bladder one morning to the contents of the bladder the following morning, with a comparative blood test then taken:




  
    C
    Cr
  
  =
  
    
      
        U
        Cr
      
      ×
      24
      ⁢
      
        -
      
      ⁢
      hour
      ⁢
      
        
      
      ⁢
      volume
    
    
      
        P
        Cr
      
      ×
      24
      ×
      60
      ⁢
      
        
      
      ⁢
      mins
    
  




To allow comparison of results between people of different sizes, the CCr is often corrected for the body surface area (BSA) and expressed compared to the average sized man as ml/min/1.73 m2. While most adults have a BSA that approaches 1.7 (1.6-1.9), extremely obese or slim patients should have their CCr corrected for their actual BSA:




  
    C
    
      Cr
      -
      corrected
    
  
  =
  
    
      
        C
        cr
      
      ×
      1.73
    
    BSA
  




The accuracy of a creatinine clearance measurement (even when collection is complete) is limited because as glomerular filtration rate (GFR) falls creatinine secretion is increased, and thus the rise in serum creatinine is less. Thus, creatinine excretion is much greater than the filtered load, resulting in a potentially large overestimation of the GFR (as much as a twofold difference). However, for clinical purposes it is important to determine whether renal function is stable or getting worse or better. This is often determined by monitoring serum creatinine alone. Like creatinine clearance, the serum creatinine will not be an accurate reflection of GFR in the non-steady-state condition of ARF. Nonetheless, the degree to which serum creatinine changes from baseline will reflect the change in GFR. Serum creatinine is readily and easily measured and it is specific for renal function.
For purposes of determining urine output on a Urine output on a mL/kg/hr basis, hourly urine collection and measurement is adequate. In the case where, for example, only a cumulative 24-h output was available and no patient weights are provided, minor modifications of the RIFLE urine output criteria have been described. For example, Bagshaw et al., Nephrol. Dial. Transplant. 23: 1203-1210, 2008, assumes an average patient weight of 70 kg, and patients are assigned a RIFLE classification based on the following: <35 mL/h (Risk), <21 mL/h (Injury) or <4 mL/h (Failure).
Selecting a Treatment Regimen
Once a diagnosis is obtained, the clinician can readily select a treatment regimen that is compatible with the diagnosis, such as initiating renal replacement therapy, withdrawing delivery of compounds that are known to be damaging to the kidney, kidney transplantation, delaying or avoiding procedures that are known to be damaging to the kidney, modifying diuretic administration, initiating goal directed therapy, etc. The skilled artisan is aware of appropriate treatments for numerous diseases discussed in relation to the methods of diagnosis described herein. See, e.g., Merck Manual of Diagnosis and Therapy, 17th Ed. Merck Research Laboratories, Whitehouse Station, N.J., 1999. In addition, since the methods and compositions described herein provide prognostic information, the markers of the present invention may be used to monitor a course of treatment. For example, improved or worsened prognostic state may indicate that a particular treatment is or is not efficacious.
One skilled in the art readily appreciates that the present invention is well adapted to carry out the objects and obtain the ends and advantages mentioned, as well as those inherent therein. The examples provided herein are representative of preferred embodiments, are exemplary, and are not intended as limitations on the scope of the invention.
Example 1
Contrast-Induced Nephropathy Sample Collection
The objective of this sample collection study is to collect samples of plasma and urine and clinical data from patients before and after receiving intravascular contrast media. Approximately 250 adults undergoing radiographic/angiographic procedures involving intravascular administration of iodinated contrast media are enrolled. To be enrolled in the study, each patient must meet all of the following inclusion criteria and none of the following exclusion criteria:
Inclusion Criteria
males and females 18 years of age or older;
undergoing a radiographic/angiographic procedure (such as a CT scan or coronary intervention) involving the intravascular administration of contrast media;
expected to be hospitalized for at least 48 hours after contrast administration.
able and willing to provide written informed consent for study participation and to comply with all study procedures.
Exclusion Criteria
renal transplant recipients;
acutely worsening renal function prior to the contrast procedure;
already receiving dialysis (either acute or chronic) or in imminent need of dialysis at enrollment;
expected to undergo a major surgical procedure (such as involving cardiopulmonary bypass) or an additional imaging procedure with contrast media with significant risk for further renal insult within the 48 hrs following contrast administration;
participation in an interventional clinical study with an experimental therapy within the previous 30 days;
known infection with human immunodeficiency virus (HIV) or a hepatitis virus.
Immediately prior to the first contrast administration (and after any pre-procedure hydration), an EDTA anti-coagulated blood sample (10 mL) and a urine sample (10 mL) are collected from each patient. Blood and urine samples are then collected at 4 (±0.5), 8 (±1), 24 (±2) 48 (±2), and 72 (±2) hrs following the last administration of contrast media during the index contrast procedure. Blood is collected via direct venipuncture or via other available venous access, such as an existing femoral sheath, central venous line, peripheral intravenous line or hep-lock. These study blood samples are processed to plasma at the clinical site, frozen and shipped to Astute Medical, Inc., San Diego, Calif. The study urine samples are frozen and shipped to Astute Medical, Inc.
Serum creatinine is assessed at the site immediately prior to the first contrast administration (after any pre-procedure hydration) and at 4 (±0.5), 8 (±1), 24 (±2) and 48 (±2)), and 72 (±2) hours following the last administration of contrast (ideally at the same time as the study samples are obtained). In addition, each patient's status is evaluated through day 30 with regard to additional serum and urine creatinine measurements, a need for dialysis, hospitalization status, and adverse clinical outcomes (including mortality).
Prior to contrast administration, each patient is assigned a risk based on the following assessment: systolic blood pressure <80 mm Hg=5 points; intra-arterial balloon pump=5 points; congestive heart failure (Class III-IV or history of pulmonary edema)=5 points; age >75 yrs=4 points; hematocrit level <39% for men, <35% for women=3 points; diabetes=3 points; contrast media volume=1 point for each 100 mL; serum creatinine level >1.5 g/dL=4 points OR estimated GFR 40-60 mL/min/1.73 m2=2 points, 20-40 mL/min/1.73 m2=4 points, <20 mL/min/1.73 m2=6 points. The risks assigned are as follows: risk for CIN and dialysis: 5 or less total points=risk of CIN—7.5%, risk of dialysis—0.04%; 6-10 total points=risk of CIN—14%, risk of dialysis—0.12%; 11-16 total points=risk of CIN—26.1%, risk of dialysis—1.09%; >16 total points=risk of CIN—57.3%, risk of dialysis—12.8%.
Example 2
Cardiac Surgery Sample Collection
The objective of this sample collection study is to collect samples of plasma and urine and clinical data from patients before and after undergoing cardiovascular surgery, a procedure known to be potentially damaging to kidney function. Approximately 900 adults undergoing such surgery are enrolled. To be enrolled in the study, each patient must meet all of the following inclusion criteria and none of the following exclusion criteria:
Inclusion Criteria
males and females 18 years of age or older;
undergoing cardiovascular surgery;
Toronto/Ottawa Predictive Risk Index for Renal Replacement risk score of at least 2 (Wijeysundera et al., JAMA 297: 1801-9, 2007); and
able and willing to provide written informed consent for study participation and to comply with all study procedures.
Exclusion Criteria
known pregnancy;
previous renal transplantation;
acutely worsening renal function prior to enrollment (e.g., any category of RIFLE criteria);
already receiving dialysis (either acute or chronic) or in imminent need of dialysis at enrollment;
currently enrolled in another clinical study or expected to be enrolled in another clinical study within 7 days of cardiac surgery that involves drug infusion or a therapeutic intervention for AKI;
known infection with human immunodeficiency virus (HIV) or a hepatitis virus.
Within 3 hours prior to the first incision (and after any pre-procedure hydration), an EDTA anti-coagulated blood sample (10 mL), whole blood (3 mL), and a urine sample (35 mL) are collected from each patient. Blood and urine samples are then collected at 3 (±0.5), 6 (±0.5), 12 (±1), 24 (±2) and 48 (±2) hrs following the procedure and then daily on days 3 through 7 if the subject remains in the hospital. Blood is collected via direct venipuncture or via other available venous access, such as an existing femoral sheath, central venous line, peripheral intravenous line or hep-lock. These study blood samples are frozen and shipped to Astute Medical, Inc., San Diego, Calif. The study urine samples are frozen and shipped to Astute Medical, Inc.
Example 3
Acutely Ill Subject Sample Collection
The objective of this study is to collect samples from acutely ill patients. Approximately 900 adults expected to be in the ICU for at least 48 hours will be enrolled. To be enrolled in the study, each patient must meet all of the following inclusion criteria and none of the following exclusion criteria:
Inclusion Criteria
males and females 18 years of age or older;
Study population 1: approximately 300 patients that have at least one of:
shock (SBP <90 mmHg and/or need for vasopressor support to maintain MAP >60 mmHg and/or documented drop in SBP of at least 40 mmHg); and
sepsis;
Study population 2: approximately 300 patients that have at least one of:
IV antibiotics ordered in computerized physician order entry (CPOE) within 24 hours of enrollment;
contrast media exposure within 24 hours of enrollment;
increased Intra-Abdominal Pressure with acute decompensated heart failure; and
severe trauma as the primary reason for ICU admission and likely to be hospitalized in the ICU for 48 hours after enrollment;
Study population 3: approximately 300 patients
expected to be hospitalized through acute care setting (ICU or ED) with a known risk factor for acute renal injury (e.g. sepsis, hypotension/shock (Shock=systolic BP <90 mmHg and/or the need for vasopressor support to maintain a MAP >60 mmHg and/or a documented drop in SBP >40 mmHg), major trauma, hemorrhage, or major surgery); and/or expected to be hospitalized to the ICU for at least 24 hours after enrollment.

Exclusion Criteria

known pregnancy;

institutionalized individuals;

previous renal transplantation;

known acutely worsening renal function prior to enrollment (e.g., any category of RIFLE criteria);

received dialysis (either acute or chronic) within 5 days prior to enrollment or in imminent need of dialysis at the time of enrollment;

known infection with human immunodeficiency virus (HW) or a hepatitis virus;

meets only the SBP <90 mmHg inclusion criterion set forth above, and does not have shock in the attending physician's or principal investigator's opinion.

After providing informed consent, an EDTA anti-coagulated blood sample (10 mL) and a urine sample (25-30 mL) are collected from each patient. Blood and urine samples are then collected at 4 (±0.5) and 8 (±1) hours after contrast administration (if applicable); at 12 (±1), 24 (±2), and 48 (±2) hours after enrollment, and thereafter daily up to day 7 to day 14 while the subject is hospitalized. Blood is collected via direct venipuncture or via other available venous access, such as an existing femoral sheath, central venous line, peripheral intravenous line or hep-lock. These study blood samples are processed to plasma at the clinical site, frozen and shipped to Astute Medical, Inc., San Diego, Calif. The study urine samples are frozen and shipped to Astute Medical, Inc.
Example 4
Immunoassay Format
Analytes are is measured using standard sandwich enzyme immunoassay techniques. A first antibody which binds the analyte is immobilized in wells of a 96 well polystyrene microplate. Analyte standards and test samples are pipetted into the appropriate wells and any analyte present is bound by the immobilized antibody. After washing away any unbound substances, a horseradish peroxidase-conjugated second antibody which binds the analyte is added to the wells, thereby forming sandwich complexes with the analyte (if present) and the first antibody. Following a wash to remove any unbound antibody-enzyme reagent, a substrate solution comprising tetramethylbenzidine and hydrogen peroxide is added to the wells. Color develops in proportion to the amount of analyte present in the sample. The color development is stopped and the intensity of the color is measured at 540 nm or 570 nm. An analyte concentration is assigned to the test sample by comparison to a standard curve determined from the analyte standards.
Example 5
Apparently Healthy Donor and Chronic Disease Patient Samples
Human urine samples from donors with no known chronic or acute disease (“Apparently Healthy Donors”) were purchased from two vendors (Golden West Biologicals, Inc., 27625 Commerce Center Dr., Temecula, Calif. 92590 and Virginia Medical Research, Inc., 915 First Colonial Rd., Virginia Beach, Va. 23454). The urine samples were shipped and stored frozen at less than −20° C. The vendors supplied demographic information for the individual donors including gender, race (Black/White), smoking status and age.
Human urine samples from donors with various chronic diseases (“Chronic Disease Patients”) including congestive heart failure, coronary artery disease, chronic kidney disease, chronic obstructive pulmonary disease, diabetes mellitus and hypertension were purchased from Virginia Medical Research, Inc., 915 First Colonial Rd., Virginia Beach, Va. 23454. The urine samples were shipped and stored frozen at less than −20 degrees centigrade. The vendor provided a case report form for each individual donor with age, gender, race (Black/White), smoking status and alcohol use, height, weight, chronic disease(s) diagnosis, current medications and previous surgeries.
Example 6
Biomarker Panels
The following exemplary method was used to segregate a patient population into two groups, which will be referred to for convenience as “non-diseased” (NonDis) and “diseased” (Dis). The combined NonDis/Dis population formed a data set, and the following analysis was performed. Multiple analytes were measured from either blood or urine or both, for the subjects in the data set. Blood and urine measurements were treated as separate biomarkers in calculating panel results. Panels were formed by algorithmically combing two or more analytes in one of two ways: (i) a very simple product and division of analyte values; and (ii) logistic regression.
Logistic regression is a method widely used for models which have a binary outcome, such as the “diseased” “non-diseased” dichotomy presented here. The method will be briefly described below, full treatments can be found in the literature. The model used is:




  
    
      ∏
      i
    
    ⁢
    
      
    
    ⁢
    
      (
      
        
          y
          i
        
        =
        
          1
          |
          
            x
            i
          
        
      
      )
    
  
  =
  
    
      e
      
        a
        +
        
          β
          ⁢
          
            
          
          ⁢
          
            x
            i
          
        
      
    
    
      1
      +
      
        e
        
          α
          +
          
            β
            ⁢
            
              
            
            ⁢
            
              x
              i
            
          
        
      
    
  




In this model, x and β are vectors, x representing the different observables or analyte values, yi=1 indicates a diseased state, and Πi is the model probability of this state for the ith case given xi. The panel value for each sample is Πi. The log odds or logit is:




  logit
  =
  
    
      ln
      [
      
        
          
            ∏
            i
          
          ⁢
          
            
          
          ⁢
          
            (
            
              
                y
                i
              
              =
              
                1
                |
                
                  x
                  i
                
              
            
            )
          
        
        
          1
          -
          
            
              ∏
              i
            
            ⁢
            
              
            
            ⁢
            
              (
              
                
                  y
                  i
                
                =
                
                  1
                  |
                  
                    x
                    i
                  
                
              
              )
            
          
        
      
      ]
    
    =
    
      α
      +
      
        β
        ⁢
        
          
        
        ⁢
        
          x
          i
        
      
    
  




Define pi as probability of observing the true outcome:




  
    p
    i
  
  =
  
    {
    
      
        
          
            
              ∏
              i
            
            ⁢
            
              
            
            ⁢
            
              (
              
                
                  y
                  i
                
                =
                
                  1
                  |
                  
                    x
                    i
                  
                
              
              )
            
          
        
        
          
            if
            ⁢
            
              
            
            ⁢
            deseased
          
        
      
      
        
          
            1
            -
            
              
                ∏
                i
              
              ⁢
              
                
              
              ⁢
              
                (
                
                  
                    y
                    i
                  
                  =
                  
                    1
                    |
                    
                      x
                      i
                    
                  
                
                )
              
            
          
        
        
          
            if
            ⁢
            
              
            
            ⁢
            non
            ⁢
            
              -
            
            ⁢
            diseased
          
        
      
    
    }
  




The likelihood function is the product of the probabilities of observing the true outcomes, so the log likelihood (LL) is:

LL=ln(L(α,β))=Σ ln(pi)

To find the parameters, α and β, that best fit the model, the negative log likelihood (−LL) is minimized. This minimization was performed using the Levenberg-Marquardt method (Numerical Recipes The Art of Scientific Computing, Third Edition, Cambridge University Press, 2007). The initial point for each parameter is 0.
A commonly used statistic to compare the fit of two nested models is the likelihood ratio test. This statistic, or the deviance, is the difference in twice the negative log likelihood (−2LL) for the two model, and is asymptotically a χ2 with DF equal to the change in the number of degrees of freedom (number of analytes) between the models. The p-value is calculated from this statistic. The null hypothesis is that the logistic model is not different than a constant model (β set to 0), is tested for each model using the likelihood ratio test. The ‘model p-value’ is defined as the probability that the null hypothesis is true. For the constant model, a closed form solution for α and −2LL can be found. It is a function of the number of diseased (#D) and the number of non-diseased (#ND) samples in the data set.



  
    α
    =
    
      
        
          ln
          ⁡
          
            (
            
              
                #
                ⁢
                D
              
              
                
                  
                    #
                    ⁢
                    ND
                  
                  )
                
                ⁢
                
                  
                
              
            
            )
          
        
        -
        
          2
          ⁢
          
            
          
          ⁢
          LL
        
      
      =
      
        
          -
          2
        
        *
        
          [
          
            
              #
              ⁢
              ND
              ⁢
              
                
              
              ⁢
              
                ln
                ⁡
                
                  (
                  
                    1
                    -
                    Π
                  
                  )
                
              
            
            +
            
              #
              ⁢
              D
              ⁢
              
                
              
              ⁢
              
                ln
                ⁡
                
                  (
                  Π
                  )
                
              
            
          
          ]
        
      
    
  




  
    
      Where
      ⁢
      
        :
      
      ⁢
      
        
      
      ⁢
      Π
    
    =
    
      
        #
        ⁢
        D
      
      
        (
        
          
            #
            ⁢
            ND
          
          +
          
            #
            ⁢
            D
          
        
        )
      
    
  



Each analyte can be tested for significance by holding its β at zero and comparing the model found without the analyte to the full model. The likelihood ratio test is used with 1 degree of freedom. The ‘analyte p-value’ is defined as the probability that the models are not different when that analyte is removed.
The analyte concentrations used in the panel can either be log transformed or untransformed. For each analyte in the panel, all the permutations of the analytes being log transformed/not transformed are calculated. The permutation with the lowest model p-value is used for that panel. For two marker panels there are 4 permutations, for six marker panels there are 8.
Table 3 contains a list of assays that were measured on urine (“U”) and EDTA plasmas (“E”) samples. Also listed, are the two letter codes that will be used throughout this document to refer to these assays according to the following convention: if the first character of the code is capitalized, this means the assay was measured in urine. If the second character of the code is capitalized, this means the assay was measured in EDTA plasma. If both characters of the code are capitalized, then the assay was measured in both urine and EDTA plasma. In the table some assays have a single code in capitals, indicating that the same assay format (e.g., microtiter dish, automated analyzer, etc.) was used for both urine and plasma. Other assays have separate U and E codes. This indicates that different assay formats were used for urine and EDTA plasma. A code of “**” indicates that an insufficient number of samples were measured on that assay and it will not appear in the panel results presented hereinafter.












TABLE 3







Code


Code


Preferred Name
Swiss-Prot:
U, E
Preferred Name
Swiss-Prot:
U, E







60 kDa heat shock protein, mitochondrial
P10809
YH
72 kDa type IV collagenase
P08253
CP


72 kDa type IV collagenase:Metalloproteinase
P08253
FE
72 kDa type IV collagenase:Metalloproteinase
P08253
FD


inhibitor 1 complex
P01033

inhibitor 2 complex
P16035



72 kDa type IV collagenase:Metalloproteinase
P08253
FF
Adiponectin
Q15848
AD


inhibitor 4 complex
Q99727






Advanced glycosylation end product-specific
Q15109
KK
Agouti-related protein
O00253
SI


receptor







Alkaline phosphatase, tissue-nonspecific
P05186
UL
Alpha-1-antitrypsin
P01009
Jj, aC


isozyme







Alpha-1-antitrypsin Neutrophil elastase
P01009
WN
Alpha-1-antitrypsin Plasminogen complex
P01009
TK


complex
P08246


P00747



Alpha-2 macroglobulin
P01023
Ir, aE
Alpha-2-HS-glycoprotein
P02765
IO


Alpha-fetoprotein
P02771
AF
Amphiregulin
P15514
TN


Amyloid Beta 40
P05067
YE
Amyloid Beta 42
P05067
TM



(aa672-711)


(aa672-713)



Angiogenin
P03950
Tz, wJ
Angiopoietin-1
Q15389
DR


Angiopoietin-1 receptor
Q02763
Us, gV
Angiopoietin-2
O15123
HW


Angiopoietin-related protein 3
Q9Y5C1
WC
Angiopoietin-related protein 4
Q9BY76
WD


Angiopoietin-related protein 6
Q8NI99
WE
Anti-Cathepsin-G (ANCA)
NA
DS


Antileukoproteinase
P03973
GL
Apolipoprotein A-I
P02647
Il, aG


Apolipoprotein A-II
P02652
IJ
Apolipoprotein B-100
P04114
IH


Apolipoprotein C-III
P02656
Ik, aH
Apolipoprotein E
P02649
In, qI


Apolipoprotein(a)
P08519
It, cJ
Appetite-regulating hormone
Q9UBU3
RA


Aspartate aminotransferase, cytoplasmic
P17174
DB
Bactericidal permeability-increasing protein
P17213
DU


Bcl2 antagonist of cell death
Q92934
DQ
Beta-2-glycoprotein 1
P02749
Im, aI


Beta-2-microglobulin
P61769
AJ
Beta-nerve growth factor
P01138
Vz, pY


Betacellulin
P35070
TO
Bone morphogenetic protein 7
P18075
UO


Brain-derived neurotrophic factor
P23560
Jn, aK
C—C motif chemokine 1
P22362
MU


C—C motif chemokine 13
Q99616
Mq, oT
C—C motif chemokine 15
Q16663
MW


C—C motif chemokine 17
Q92583
Mx, oV
C—C motif chemokine 18
P55774
JL


C—C motif chemokine 19
Q99731
Nq, iA
C—C motif chemokine 2
P13500
Ou, cL


C—C motif chemokine 20
P78556
NR
C—C motif chemokine 21
O00585
MY


C—C motif chemokine 22
O00626
Mj, cM
C—C motif chemokine 23
P55773
VI


C—C motif chemokine 24
O00175
MZ
C—C motif chemokine 26
Q9Y258
NA


C—C motif chemokine 27
Q9Y4X3
NB
C—C motif chemokine 3
P10147
Mk, cN


C—C motif chemokine 4
P13236
CO
C—C motif chemokine 5
P13501
Js, cY


C—C motif chemokine 7
P80098
MI
C—C motif chemokine 8
P80075
MP


C-Peptide
P01308(aa
QV
C-reactive protein
P02741
IP



57-87)






C—X—C motif chemokine 10
P02778
OW
C—X—C motif chemokine 11
O14625
OH


C—X—C motif chemokine 13
O43927
MT
C—X—C motif chemokine 16
Q9H2A7
EF


C—X—C motif chemokine 2
P19875
PO
C—X—C motif chemokine 5
P42830
Mr, aV


C—X—C motif chemokine 6
P80162
NO
C—X—C motif chemokine 9
Q07325
NN


Cadherin-1
P12830
Gd, oO
Cadherin-16
O75309
TH


Cadherin-3
P22223
UG
Cadherin-5
P33151
GT


Calbindin
P05937
YD
Calcitonin
P01258
AO


Calcitonin (Procalcitonin)
P01258-
HO
Cancer Antigen 15-3
NA
IC



Pro






Cancer Antigen 19-9
NA
AN
Carbonic anhydrase 9
Q16790
VH


Carcinoembryonic antigen-related cell
P13688
VT
Carcinoembryonic antigen-related cell
P06731
AR


adhesion molecule 1


adhesion molecule 5




Caspase-1
P29466
DV
Caspase-3, active
P42574
Kx, dX


Caspase-8
Q14790
DW
Caspase-9
P55211
DO


Cathepsin B
P07858
UT
Cathepsin D
P07339
JP


Cathepsin S
P25774
UW
CD40 ligand
P29965
Ml, aQ


CD44 antigen
P16070
GC
Cellular tumor antigen p53
P04637
RX


Choriogonadotropin subunit beta
P01233
Zx, zH
Ciliary neurotrophic factor
P26441
SJ


Clusterin
P10909
Ii, sO
Coagulation factor VII
P08709
BB


Collagenase 3
P45452
Lt, lO
Complement C3
P01024
AL


Complement C4-B
P0C0L5
JM
Complement C5
P01031
VU


Complement factor H
P08603
QG
Corticotropin
P01189(aa
JY






138-176)



Cortisol
NA
Rh, rP
Creatine Kinase-MB
P12277
AS






P06732



Creatinine
NA
AA
Cyclin-dependent kinase inhibitor 1
P38936
Fw, rW


Cystatin-C
P01034
IZ
Cytochrome c
P99999
KY


DDRGK domain-containing protein 1
Q96HY6
WM
Dipeptidyl peptidase 4
P27487
VQ


E-selectin
P16581
PH
Endoglin
P17813
UP


Endostatin
P39060(aa
Ua, wK
Endothelial protein C receptor
Q9UNN8
Vj, eC



1572-1754)






Endothelin-1
P05305
AW
Eotaxin
P51671
Or, aY


Epidermal growth factor receptor
P00533
Kd, tQ
Epiregulin
O14944
TR


Epithelial cell adhesion molecule
P16422
UV
Erythropoietin
P01588
Uk, aZ


Erythropoietin receptor
P19235
ED
Fatty acid-binding protein, heart
P05413
BA


Fatty acid-binding protein, intestinal
P12104
EQ
Fatty acid-binding protein, liver
P07148
EZ


Ferritin
P02792
BC
Fibrinogen
P02671
Iq, bE



P02794


P02675







P02679



Fibroblast growth factor 19
O95750
WG
Fibroblast growth factor 21
Q9NSA1
WH


Fibroblast growth factor 23
Q9GZV9
WF
Fibronectin
P02751
Rm, jB


Follistatin
P19883
HX
Follitropin
P01215
JU






P01225



Follitropin subunit beta
P01225
SF
Fractalkine
P78423
UM


Galectin-3
P17931
VB
Gastric inhibitory polypeptide
P09681
QY


Glial cell line-derived neurotrophic factor
P39905
TL
Glial fibrillary acidic protein
P14136
EH


Glucagon
P01275
QZ
Glucagon-like peptide 1
P01275(aa
QX






98-127







aa98-128)



Glutathione S-transferase A1
P08263
Dp, bI
Glutathione S-transferase P
P09211
FY


Granulocyte colony-stimulating factor
P09919
Hq, bF
Granulocyte-macrophage colony-stimulating
P04141
Pd, bH





factor




Granzyme B
P10144
EO
Granzyme M
P51124
YF


Growth-regulated alpha protein
P09341
Tj, uI
Haptoglobin
P00738
Iu, bJ


Heat shock 70 kDa protein 1
P08107
Yi, eP
Heat shock protein beta-1
P04792
Yg, rS


Heat shock protein beta-1 (phospho SER78/
P04792
YK
Heat shock protein HSP 90-alpha
P07900
YJ


phospho SER82)
(pS78/pS82)






Heme oxygenase 1
P09601
EM
Heparan Sulfate
NA
TI


Heparin-binding EGF-like growth factor
Q99075
TT
Heparin-binding growth factor 1
P05230
Ub, wL


Heparin-binding growth factor 2
P09038
Lv, tS
Hepatitis A virus cellular receptor 1
O43656
Uh, tF


Hepatocyte growth factor
P14210
OK
Hepatocyte growth factor receptor
P08581
RT


Hyaluronic acid
NA
ET
Hypoxia-inducible factor 1 alpha
Q16665
OE


Immunoglobulin A
NA
Qe, bM
Immunoglobulin E
NA
BN


Immunoglobulin M
NA
Pz, bP
Immunoglogulin G1
NA
QA


Immunoglogulin G2
NA
QD
Immunoglogulin G3
NA
QB


Immunoglogulin G4
NA
QC
Insulin
P01308
CH


Insulin receptor substrate 1
P35568
RU
Insulin-like growth factor 1 receptor
P08069
RY


Insulin-like growth factor IA
P01343
BO
Insulin-like growth factor-binding protein 1
P08833
OF


Insulin-like growth factor-binding protein 2
P18065
JD
Insulin-like growth factor-binding protein 3
P17936
JG


Insulin-like growth factor-binding protein 4
P22692
JE
Insulin-like growth factor-binding protein 5
P24593
JF


Insulin-like growth factor-binding protein 6
P24592
JH
Insulin-like growth factor-binding protein 7
Q16270
JI


Intercellular adhesion molecule 1
P05362
JO
Intercellular adhesion molecule 2
P13598
GN


Intercellular adhesion molecule 3
P32942
PK
Interferon alpha-2
P01563
LY


Interferon gamma
P01579
Pc, bL
Interleukin-1 alpha
P01583
Lz, bX


Interleukin-1 beta
P01584
PF
Interleukin-1 receptor antagonist protein
P18510
Ma, bZ


Interleukin-1 receptor type I
P14778
KF
Interleukin-1 receptor type II
P27930
KG


Interleukin-10
P22301
Pb, bQ
Interleukin-11
P20809
NT


Interleukin-12
P29459
Oz, bS
Interleukin-12 subunit beta
P29460
Oi, bR



P29460






Interleukin-13
P35225
MF
Interleukin-15
P40933
Mg, bU


Interleukin-17A
Q16552
MH
Interleukin-18
Q14116
Uf, bW


Interleukin-2
P60568
Pa, cA
Interleukin-2 receptor alpha chain
P01589
MM


Interleukin-20
Q9NYY1
NI
Interleukin-21
Q9HBE4
NJ


Interleukin-23
Q9NPF7
NC
Interleukin-28A
Q8IZJ0
NK



P29460






Interleukin-29
Q8IU54
NU
Interleukin-3
P08700
Mb, cB


Interleukin-33
O95760
NL
Interleukin-4
P05112
Mc, cC


Interleukin-4 receptor alpha chain
P24394
KI
Interleukin-5
P05113
Og, cD


Interleukin-6
P05231
Pg, cE
Interleukin-6 receptor subunit alpha
P08887
Kj, oD


Interleukin-6 receptor subunit beta
P40189
KE
Interleukin-7
P13232
Md, cF


Interleukin-8
P10145
Pe, cG
Interleukin-9
P15248
ME


Interstitial collagenase
P03956
Lp, lK
Interstitial collagenase:Metalloproteinase
P03956
FC





inhibitor 2 complex
P16035



Involucrin
P07476
Rf, rN
Islet amyloid polypeptide
P10997
QW


Keratin, type I cytoskeletal 19 (aa311-367)
P08727
Zw, zG
Keratin, type II cytoskeletal 1; type1
P04264
Rj, rR





cytoskeletal 10 (Keratin-1,-10 mix)
P13645



Keratin, type II cytoskeletal 6 (6A, -6B, -6C
P02538
Ri, rQ
Kit ligand
P21583
Ng, dA


mix)
P04259







P48668






Lactotransferrin
P02788
FA
Leptin
P41159
Hu, cI


Leukemia inhibitory factor
P15018
ND
Lipopolysaccharide (serotypes-K,-O)
NA
Rg, rO


Lutropin
P01215
JV
Lutropin subunit beta
P01229
SH



P01229






Lymphatic vessel endothelial hyaluronic acid
Q9Y5Y7
VW
Lymphotactin
P47992
Ns, cK


receptor 1







Lymphotoxin-alpha
P01374
DI
Lysozyme C
P61626
FB


Macrophage colony-stimulating factor 1
P09603
NM
Macrophage metalloelastase
P39900
Ld, lN


Macrophage migration inhibitory factor
P14174
KS
Malondialdehyde-modified low-density
NA
HF





lipoprotein




Matrilysin
P09237
Lh, lL
Matrix metalloproteinase-9
P14780
Lj, cR


Matrix metalloproteinase-9:Metalloproteinase
P14780
Oa, **
Matrix metalloproteinase-9:Metalloproteinase
P14780
OB


inhibitor 2 complex
P16035

inhibitor 3 complex
P35625



Metalloproteinase inhibitor 1
P01033
Nv, dF
Metalloproteinase inhibitor 2
P16035
NW


Metalloproteinase inhibitor 3
P35625
Nx, sC
Metalloproteinase inhibitor 4
Q99727
NY


Midkine
P21741
EX
Mix of Growth-regulated alpha, beta, and
P09341
LX





gamma proteins
P19875







P19876



Monocyte differentiation antigen CD14
P08571
VO
Mucin-16
Q8WXI7
Id, aM


Myeloid differentiation primary response
Q99836
VC
Myeloperoxidase
P05164
CS


protein MyD88







Myoglobin
P02144
CT
Neprilysin
P08473
UY


Netrin-1
O95631
FN
Neural cell adhesion molecule 1
P13591
JT


Neuronal cell adhesion molecule
Q92823
UZ
Neutrophil collagenase
P22894
Li, lM


Neutrophil elastase
P08246
FP
Neutrophil gelatinase-associated lipocalin
P80188
FR


NF-kappa-B inhibitor alpha
P25963
RV
Nidogen-1
P14543
VS


Nitric oxide synthase, inducible
P35228
EW
NT-pro-BNP
P16860
HC


Osteocalcin
P02818
RC
Osteopontin
P10451
OP


Oxidized low-density lipoprotein receptor 1
P78380
HB
P-selectin
P16109
PI


P-selectin glycoprotein ligand 1
Q14242
GP
Pancreatic prohormone
P01298
QU


Pappalysin-1
Q13219
CW
Parathyroid hormone
P01270
RB


Peptide YY
P10082
QT
Pigment epithelium-derived factor
P36955
JK


Placenta growth factor
P49763
Ue, tU
Plasminogen activator inhibitor 1
P05121
CU


Platelet basic protein
P02775
VP
Platelet endothelial cell adhesion molecule
P16284
HR


Platelet factor 4
P02776
VV
Platelet-derived growth factor A
P04085
JR






P01127



Platelet-derived growth factor subunit A
P04085
JQ
Platelet-derived growth factor subunit B
P01127
HV


(dimer)


(dimer)




Poly [ADP-ribose] polymerase 1 (cleaved)
P09874
Kz, **
Pro-epidermal growth factor
P01133
Lu, aU


Pro-Interleukin-1 beta
P01584-
GH
Pro-interleukin-16
Q14005
Mv, bV



Pro






Prolactin
P01236
IB
Prostate-specific antigen
P07288
CX


Prostatic acid phosphatase
P15309
CV
Protein NOV homolog
P48745
UU


Protein S100-A12
P80511
AX
Protein S100-B
P04271
XA


Protransforming growth factor alpha
P01135
Mn, tX
Renin
P00797
Sr, sK


Resistin
Q9HD89
WB
Serum albumin
P02768
St, zA


Serum amyloid A protein
P02735
HP
Serum amyloid P-component
P02743
Is, cZ


Sex hormone-binding globulin
P04278
DC
SL cytokine
P49771
LW


Somatotropin
P01241
BG
Stromal cell-derived factor 1
P48061
MS


Stromelysin-1
P08254
CQ
Stromelysin-1:Metalloproteinase inhibitor 2
P08254
FI





complex
P16035



Stromelysin-2
P09238
UR
Tenascin
P24821
TV


Thrombomodulin
P07204
Pj, hG
Thrombopoietin
P40225
Ne, dJ


Thrombospondin-1
P07996
GW
Thrombospondin-2
P35442
Uc, wP


Thymic stromal lymphopoietin
Q969D9
NH
Thyrotropin
P01215
DK






P01222



Thyroxine-binding globulin
P05543
DD
Tissue factor
P13726
DE


Tissue-type plasminogen activator
P00750
HL
Transforming growth factor beta-1
P01137
Ql, qO


Transforming growth factor beta-2
P61812
Qm, qP
Transforming growth factor beta-3
P10600
Qn, qQ


Transmembrane glycoprotein NMB
Q14956
UN
Transthyretin
P02766
QH


Trefoil factor 3
Q07654
Ss, sM
Tubulointerstitial nephritis antigen
Q9UJW2
GZ


Tumor necrosis factor
P01375
Oy, dH
Tumor necrosis factor ligand superfamily
P50591
NF





member 10




Tumor necrosis factor ligand superfamily
O14788
YL
Tumor necrosis factor ligand superfamily
P48023
KR


member 11


member 6




Tumor necrosis factor receptor superfamily
O14763
RZ
Tumor necrosis factor receptor superfamily
O00300
ON


member 10B


member 11B




Tumor necrosis factor receptor superfamily
P19438
Kl, oQ
Tumor necrosis factor receptor superfamily
P20333
DG


member 1A


member 1B




Tumor necrosis factor receptor superfamily
P25942
AP
Tumor necrosis factor receptor superfamily
P25445
KQ


member 5


member 6




Tumor necrosis factor receptor superfamily
P28908
KC
Urokinase plasminogen activator surface
Q03405
UX


member 8


receptor




Urokinase-type plasminogen activator
P00749
VA
Vascular cell adhesion protein 1
P19320
DL


Vascular endothelial growth factor A
P15692
Om, dM
Vascular endothelial growth factor D
O43915
Ud, wQ


Vascular endothelial growth factor receptor 1
P17948
KN
Vascular endothelial growth factor receptor 2
P35968
KO


Vascular endothelial growth factor receptor 3
P35916
KP
Versican core protein
P13611
HA


Vitamin D-binding protein
P02774
PS
Vitamin K-dependent protein C
P04070
GB


von Willebrand Factor
P04275
Iv, dN
WAP four-disulfide core domain protein 2
Q14508
Zq, zI









The results of each analysis presented in the following examples are presented in FIGS. 1-43.
Each figure contains an initial table presenting the univariate statistics for the analytes that appear in the biomarker panels that follows in the same figure. The data set was segregated into two groups, non-diseased (NonDis) and diseased (Dis) patients as indicated in the figure heading. The analyte code and units of measurement are shown, followed by the median, average, standard deviation, maximum and minimum of the analyte values calculated for each group. Also shown are the number of samples that make up each group, and the number of patients that the samples were drawn from. Values below the detectable limit of a particular assay are indicated with the value 1×10−9 (written as “1.0E−9”). The univariate AUC for each analyte is also shown. Standard errors were calculated as described in Hanley, J. A., and McNeil, B. J., “The meaning and use of the area under a receiver operating characteristic (ROC) curve,” Radiology (1982) 143: 29-36; p values were calculated with a two-tailed Z-test. In the column specifying the units of measurement, certain analytes are listed as ‘2.6 ng/ml’, ‘2.5 ng/ml’, and ‘2.3 mU/ml’. For these markers, the values in the tables should be scaled by 2.6, 2.5, and 2.3 respectively. By way of example, a value of 1 in the ‘median’ column converts to a value of 2.6 ng/ml, 2.5 ng/ml, or 2.3 mU/ml, respectively. Note that applying such a scaling factor to the data does not impact the AUC of a marker or the AUC of a panel of which it is a part.
Following the univariate statistics, each figure provides panel tables which list the biomarker panels having model p-value in the ranges specified in the particular figures. When a panel is formed by combining multiple analytes from this set, the number of samples used was the intersection of the samples measured by all analytes on the particular panel. Panels that have an intersection of less than 7 samples in either the non-diseased or diseased groups were not considered in the analysis. For compactness panels are encoded as follows: aBCdEE represents the two panels aBCdEe and aBCdeE, in this case representing biomarker “ab” measured in plasma, biomarker “cd” measured in urine, and biomarker ee measured in urine for the first panel and ee measured in plasma for the second panel. Codes in ( ) or { } and separated by a space represent a list of analytes that join with the analyte(s) outside the brackets to form panels with a common analyte. For example, Ab{cD(eF gH) Km(Ef QR)} represents 5 panels which all have biomarker Ab in common. They are AbcDeF, AbcDgH, AbKmEf, AbKmQr, and AbKmqR.
Those results labeled ‘Unconstrained Panels’ refer to panels which were not required to have each analyte univariate p-value ≦0.05. Those results labeled ‘Constrained Panels’ require that each analyte use in the panel to have a univariate p-value ≦0.05.
Example 7
Use of Biomarker Panels
Patients from the intensive care unit (ICU) were classified by kidney status as non-injury (O), risk of injury (R), injury (I), and failure (F) according to the maximum RIFLE stage reached as determined by the RIFLE criteria. Two cohorts were defined as (Cohort 1—“Non-diseased”) patients that did not progress beyond a particular RIFLE stage, and (Cohort 2—“Diseased”) patients that reached a later RIFLE stage within 10 days. Marker concentrations were measured in samples collected from a subject at 0, 24 hours, and 48 hours prior to reaching the “Diseased” stage.
Each biomarker was measured by standard immunoassay methods using commercially available assay reagents. In the case of those biomarkers which are membrane-associated, assays which recognize soluble forms were used. As noted above, the membrane-associated biomarkers include Swiss-Prot entries O14788, O14944, O75309, P00797, P05186, P08473, P13688, P15514, P22223, P27487, P35070, Q03405, Q14956, Q16790, Q99075, Q9Y5Y7Q15109, Q02763, P17213, P12830, P33151, P06731, P29965, P16070, Q9H2A7, P17813, Q9UNN8, P00533, P16422, P19235, P16581, P78423, O43656, P08581, P08069, P05362, P13598, P32942, P14778, P27930, P01589, P24394, P08887, P40189, P21583, P09603, P08571, Q8WXI7, P13591, Q92823, P78380, P16284, P01133, P15309, P01135, P16109, Q14242, P49771, P07204, P13726, P01375, P50591, P48023, O14763, P19438, P20333, P25942, P25445, P28908, P19320, P17948, and P35968.
The ability of a biomarker panel to distinguish “Diseased” from “Non-Diseased” was determined as described above in Example 6. Patients in Cohort 2 were also separated according to the reason for adjudication to the “Diseased” stage as being based on serum creatinine measurements (sCr), being based on urine output (UO), or being based on either serum creatinine measurements or urine output. As an example, for those patients adjudicated to stage F on the basis of serum creatinine measurements alone, the stage 0 cohort may have included patients adjudicated to stage F on the basis of urine output; for those patients adjudicated to stage F on the basis of urine output alone, the stage 0 cohort may have included patients adjudicated to stage F on the basis of serum creatinine measurements; and for those patients adjudicated to stage F on the basis of serum creatinine measurements or urine output, the stage 0 cohort contains only patients in stage 0 for both serum creatinine measurements and urine output. Also, for those patients adjudicated to stage F on the basis of serum creatinine measurements or urine output, the adjudication method which yielded the most severe RIFLE stage was used.
The following data are presented in the figures:
FIG. 1. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is 24 hours prior to RIFLE I diagnosis.
FIG. 2. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr. Diseased group sample is 24 hours prior to RIFLE I diagnosis.
FIG. 3. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is 24 hours prior to RIFLE I diagnosis.
FIG. 4. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is 24 hours prior to RIFLE R diagnosis.
FIG. 5. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr. Diseased group sample is 24 hours prior to RIFLE R diagnosis.
FIG. 6. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is 24 hours prior to RIFLE R diagnosis.
FIG. 7. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is 24 hours prior to RIFLE I diagnosis.
FIG. 8. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by Urine Output. Diseased group sample is 24 hours prior to RIFLE I diagnosis.
FIG. 9. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is at RIFLE I diagnosis.
FIG. 10. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr. Diseased group sample is at RIFLE I diagnosis.
FIG. 11. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is at RIFLE I diagnosis.
FIG. 12. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is at RIFLE R diagnosis.
FIG. 13. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr. Diseased group sample is at RIFLE R diagnosis.
FIG. 14. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is at RIFLE R diagnosis.
FIG. 15. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is at RIFLE I diagnosis.
FIG. 16. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr. Diseased group sample is at RIFLE I diagnosis.
FIG. 17. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by Urine Output. Diseased group sample is at RIFLE I diagnosis.
FIG. 18. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is 48 hours prior to RIFLE I diagnosis.
FIG. 19. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr. Diseased group sample is 48 hours prior to RIFLE I diagnosis.
FIG. 20. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is 48 hours prior to RIFLE I diagnosis.
FIG. 21. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is 48 hours prior to RIFLE R diagnosis.
FIG. 22. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr. Diseased group sample is 48 hours prior to RIFLE R diagnosis.
FIG. 23. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output. Diseased group sample is 48 hours prior to RIFLE R diagnosis.
FIG. 24. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output. Diseased group sample is 48 hours prior to RIFLE I diagnosis.
FIG. 25. Progression of RIFLE R to RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output. Sample is at R diagnosis.
FIG. 26. Progression of RIFLE R to RIFLE I or F. RIFLE stage adjudicated by sCr. Sample is at R diagnosis.
FIG. 27. Progression of RIFLE R to RIFLE I or F. RIFLE stage adjudicated by Urine Output. Sample is at R diagnosis.
FIG. 28. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output, within 48 hrs of enrollment. Sample is at enrollment.
FIG. 29. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr, within 48 hrs of enrollment. Sample is at enrollment.
FIG. 30. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output, within 48 hrs of enrollment. Sample is at enrollment.
FIG. 31. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output, within 48 hrs of enrollment. Sample is at enrollment.
FIG. 32. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr, within 48 hrs of enrollment. Sample is at enrollment.
FIG. 33. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output, within 48 hrs of enrollment. Sample is at enrollment.
FIG. 34. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output, within 48 hrs of enrollment. Sample is at enrollment.
FIG. 35. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by Urine Output, within 48 hrs of enrollment. Sample is at enrollment.
FIG. 36. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr and Urine Output, within 24 hrs of enrollment. Sample is at enrollment.
FIG. 37. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by sCr, within 24 hrs of enrollment. Sample is at enrollment.
FIG. 38. No or R RIFLE stage versus RIFLE I or F. RIFLE stage adjudicated by Urine Output, within 24 hrs of enrollment. Sample is at enrollment.
FIG. 39. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr and Urine Output, within 24 hrs of enrollment. Sample is at enrollment.
FIG. 40. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by sCr, within 24 hrs of enrollment. Sample is at enrollment.
FIG. 41. No RIFLE stage versus RIFLE R, I, or F. RIFLE stage adjudicated by Urine Output, within 24 hrs of enrollment. Sample is at enrollment.
FIG. 42. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by sCr and Urine Output, within 24 hrs of enrollment. Sample is at enrollment.
FIG. 43. No, R, or I RIFLE stage versus RIFLE F. RIFLE stage adjudicated by Urine Output, within 24 hrs of enrollment. Sample is at enrollment.
Example 8
Use of Biomarker Panels
The foregoing examples rely on logistic regression for identification and use of biomarker panels. As noted, this is but one type of analysis which may be used to generate such panels of markers. Any classification method can be used, including, but not limited to, Bayesian classifiers, discriminant analysis, decision trees, neural networks, support-vector machines, nonparametric kernel density estimation methods, nearest neighbor rules, sums, differences, products and ratios of marker concentrations.
As an example, the following exemplary biomarker panels of 2, 3, 4 and 5 markers were generated using products (indicated by “*” in the table) and ratios (indicated by “/” in the table) of marker concentrations. The product of the maker concentrations was used unless the panel consisted of markers that increased and markers that decreased with kidney injury as determined by the univariate performance for the measured patient population. In this case, a ratio was formed in which markers that increased were divided by markers that decreased.
In this example, Cohort 1 consisted of patients that did not progress beyond RIFLE stage R and Cohort 2 consisted of patients that reached stage I or F within 10 days. Panel values were determined for samples from patients in Cohort 1 and samples drawn 24 (+/−12) hours prior to stage I (or F if no sample at stage I) in Cohort 2. Patients were adjudicated to RIFLE stage R, I, or F based on either serum creatinine or urine output, whichever method yielded the most severe RIFLE stage. A receiver operating characteristic (ROC) curve was generated for each panel and the area under each ROC curve (AUC) was determined. Standard errors were calculated as described in Hanley, J. A., and McNeil, B. J., The meaning and use of the area under a receiver operating characteristic (ROC) curve. Radiology (1982) 143: 29-36; p values were calculated with a two-tailed Z-test.
Examples of 2-, 3-, 4- and 5-marker panels are shown in the following table. The results for the 4 and 5 marker panels demonstrate that larger panels can be formed with the kidney injury markers of Table 2, and that these panels can have improved p-values relative to 2 and 3-marker panels.







TABLE 4







2-Marker Panels (AUC p-value <1e−3)


















No/(dR)
Nw * iO
Fp/(Jj)
No/(Ch)
Lx * Nw
Et * oZ
Lx/(cM)



No * aA
No * iO
Bc/(Jj)
No/(Ck)
No * Nw
Lx * oZ
Nw * cN



Et * aA
No/(iQ)
Jl(Jj)
Gx * No
Ok/(Jj)
Nw * oZ
No * cN



No * eF
Nw/(iQ)
Kq/(Jj)
nN/(mX)
Ar * oF
No * oZ
Lx/(cW)



Lx * eF
Lj/(iT)
No/(kR)
Im * Lx
Et/(oI)
Nw * pA
No/(cW)



Nw * eF
Is/(Bk)
Nw/(kR)
Kq * Lx
No/(oI)
Lj * pA
Nw * cV



Ar * eF
Nw * iV
Lh/(Jj)
Ky * Lx
Lx/(oI)
Mz * pA
No * cV



Ar/(eC)
Nw/(iL)
Lj/(Jj)
Et * Lx
Nw/(oI)
No * pA
Lx * cV



Nw/(eC)
Lx/(iL)
Et * Lj
Lx/(Kj)
Nw/(oH)
Ar * pA
No * dC



No/(eC)
No/(iL)
Mz/(Jj)
Lx/(Jj)
No/(oH)
Ar * oY
No/(dD)



Mz/(eC)
Lj/(iL)
Lx * Mz
Lx/(Ct)
Lx/(oH)
Mz * oY
Lx/(dD)



Et/(Bk)
Ar/(iL)
Lx/(Ng)
Lx/(Ch)
Lj/(oH)
Et * oY
Nw * gL



Mz * iA
No/(iH)
Nr/(Jj)
Lx/(Gp)
Ar/(oH)
Nw * oY
No * gL



Lj * iA
Nw/(iH)
No/(Jj)
Bc * Lx
Oh/(Jj)
No * oY
Mz/(gP)



No * iA
No * iK
Jy * No
Lx/(Aj)
Nw * oL
Et * Fp
Et/(gP)



No * hB
Et * iK
Im * No
Fp * Lx
No/(pC)
bA * fR
Ji/(gP)



Nw * hB
Nw * iK
Et * No
Lx/(Az)
Lx * pF
cT * fR
Nw/(gP)



Mz * hB
Et * Im
No/(Kj)
Lx/(Bk)
Oa * pF
cV * fR
Lx/(gP)



Lj * hB
No/(iI)
Mz * No
Et * Mi
Et * pF
No * aJ
No/(gP)



Ar * hB
Nw/(iI)
Lj * No
No/(hH)
Lj * pF
Lx * aZ
Ar/(gP)



Et * hF
Ar/(iI)
Mi * No
No * Oa
Mz * pF
Lx * bA



Nw * hF
Et * iZ
Lw * No
No/(nW)
No * pF
Lj * bA



No * hF
Nw * iX
Lx * No
Lx/(nW)
Nw * pF
By * bA



Nw * hG
Et * jA
No/(Bk)
Nw/(nW)
Ar * pF
Bm * bA



Nw/(iR)
Nw * jA
Aw * No
Et/(nW)
Ar * pF
Ar * bA



No/(iR)
Is/(Jj)
Ay * No
Ar/(nW)
Ar * oZ
Bb * bA



Ar/(iR)
Ij(Jj)
Fb * No
Fp * Nw
By * oZ
Ba/(Aj)



Ar * iP
Im/(Jj)
Fp * No
Et * Nw
Nr * oZ
Lj * bZ



No * iP
Ji/(Jj)
No/(Aj)
Nw/(Jj)
Mz * oZ
No * bZ



Nw * iP
Et/(Jj)
By * No
Im * Nw
Lj * oZ
No/(cK)











3-Marker Panels (AUC p-value <1e−7)
















Et * Im/(Jj)
No/(iI)/(Bk)
Bc/(Jj)/(iR)
No * Nw/(eC)
Et * Lj/(iL)



Et * No/(Bk)
Et * No/(eC)
No/(Bk)/(iJ)
Ar * Nw/(iL)
Et * oZ/(Ck)



Lu * Im/(Jj)
Ar * Nw * oZ
Mz * Nw * pF
Jy * Nw * iK
No * oZ/(Jj)



Et * Nw/(Bk)
No/(gP)/(Kj)
Is/(Bk)/(oH)
No/(dR)/(Ch)
oZ * Nw * pA



No * eF/(Bk)
No/(eC)/(cW)
No/(nW)/(Ck)
Lj/(Jj)/(iR)
Fp * Nw * oZ



Im * Nw/(Jj)
Nw/(gP)/(Jj)
No/(oH)/(Ch)
Lj * Nw * pF
Ar * Nw/(gP)



No * cV/(Bk)
Nw/(gP)/(Ck)
oZ * No * pF
No/(iR)/(eC)
iK * No/(iL)



Et * Nw/(gP)
No/(oH)/(Ck)
Nw * iK/(gP)
Nw * iK/(Ck)
Et * No/(iR)



Et * No/(Jj)
Mz * pF/(Jj)
Mz * pF/(Bk)
Nw * iK/(Jj)
Ar * pA/(Ch)



Et * Is/(Bk)
Nw/(nW)/(Ck)
Bc/(Jj)/(nW)
Ar * Nw/(oH)
Bc/(Jj)/(iQ)



Lj * bZ/(Jj)
No/(gP)/(Ck)
No/(nW)/(Bk)
Lu * Mz * pF
Nw/(iQ)/(Ck)



No/(gP)/(Bk)
Lj * oZ/(Jj)
Lj/(oH)/(Jj)
No * gL/(Bk)
No * oZ/(Bk)



Et * Im/(Bk)
Et * Ar/(eC)
Et/(gP)/(Jj)
No * pF/(Bk)
Ar * Et * oZ



Im * No/(Jj)
Et * No/(nW)
No/(eC)/(Ch)
Lj/(iL)/(Jj)
No/(nW)/(gP)



Et * No/(gP)
oZ * Bc/(Jj)
Jy * Nw/(gP)
Et * iK/(Jj)
Ar * oZ/(Jj)



Et * Fp/(Jj)
eF * Lj/(Jj)
dC * Nw/(gP)
No/(nW)/(Jj)
No/(Bk)/(iS)



No/(cW)/(Bk)
No * pF/(Ch)
No/(pC)/(eC)
Lj/(iT)/(Jj)
Ar * Et/(nW)



No/(gP)/(Jj)
No/(gP)/(cK)
No/(iL)/(Bk)
No/(gP)/(Ch)
No/(nW)/(Ch)



Pj * Im/(Jj)
No * eF/(Jj)
Et * Nw * hF
Nw/(iR)/(eC)
Et/(nW)/(Ck)



Im * Ok/(Jj)
aA * Nw/(eC)
No/(iQ)/(Bk)
Nw * pF/(Ch)
No/(iI)/(Ch)



No/(iR)/(Bk)
Nw/(gP)/(aW)
No/(eC)/(Jj)
Et * Lj * oZ
No/(gP)/(eC)



No * Nw/(Bk)
No * iK/(Jj)
Lj * Nw * oZ
Lu * No/(nW)
Nw * pA/(Ch)



Nw * oZ/(Ck)
Lj/(Jj)/(gP)
iK * Nw/(iL)
Et * Lj * pF
Ar * Nw/(iR)



Et * Nw * iK
Et * Nw * iO
Im/(Jj)/(gP)
Lj/(Jj)/(nW)
Ar * Nw/(nW)



Ij * Et/(Bk)
aJ * Nw/(gP)
No * oZ/(nW)
Mz * pF/(Ch)
No * pA/(Bk)



No/(oH)/(Bk)
No/(nW)/(eC)
Ar * Nw/(eC)
Nw/(oH)/(Ck)
No/(iR)/(Ck)



No * eF/(Ch)
No * hB/(Bk)
Mz * No/(gP)
No * Nw/(nW)
Ar/(oH)/(Jj)



No * Nw/(gP)
Lx/(gP)/(Ch)
Mz * No * pF
No * oZ/(Ck)
Nw/(gP)/(eC)



Bc/(Jj)/(oH)
Nw/(gP)/(dD)
Lw * Nw/(gP)
No/(iR)/(Jj)
iZ * Nw/(eC)



Fy * Et/(Bk)
fS * Lx/(Ch)
Et * No * iK
Et * Nw * pF











4-Marker Panels (AUC p-value <1e−8)














Nw * Im/Jj/Kg
Oa * Et * Im/Jj
Ar * Et * Im/Jj
Mb * Nw * Im/Jj
Et * Nw * Ji * Fp


Nw * Im/Jj/Kj
Fb * Nw * Im/Jj
Pj * Et * Im/Jj
Nt * Et * Im/Jj
Fp * Nw * Im/Jj


Ap * Nw * Im/Jj
Hb * Et * Im/Jj
Ke * Et * Im/Jj
Is * Et * Im/Jj
Ji * Et * Im/Jj


Bc * Nw * Im/Jj
Bb * Et * Im/Jj
Jy * Et * Im/Jj
Nw * Ji * Fp/Hw
Mb * Ji * Im/Jj


Kp * Et * Im/Jj
Cu * Et * Im/Jj
Fb * Et * Im/Jj
Mb * Et * Im/Jj
Ji * Im/Jj/Mc


Jy * Nw * Im/Jj
Bc * Et * Im/Jj
Aw * Et * Im/Jj
Et * Im/Jj/Mc
Fp * Et * Im/Jj


Cp * Nw * Im/Jj
Et * Im/Jj/Kg
Nt * Nw * Im/Jj
Ok * Et * Im/Jj
Et * Ji * Fp/Jj


Fy * Et * Im/Jj
Ar * Ji * Im/Jj
Nw * Im/Jj/Me
Et * Nw * Im/Jj
Fp * Ji * Im/Jj


Pj * Nw * Im/Jj
Aw * Nw * Im/Jj
Is * Nw * Im/Jj
Nw * Ji * Fp/Mc
Et * Ji * Fp/Lu


Kq * Nw * Im/Jj
Et * Im/Jj/Kj
Qe * Nw * Im/Jj
Ji * Im/Jj/Lu
Et * Ji * Fp/Mc


Ke * Nw * Im/Jj
Aw * Ji * Im/Jj
Nw * Im/Jj/Mc
Ji * Nw * Im/Jj
Nw * Ji * Fp/Jj


Ar * Nw * Im/Jj
Kq * Et * Im/Jj
Ok * Nw * Im/Jj
Ok * Ji * Im/Jj
Nw * Ji * Fp/Lu


Kk * Et * Im/Jj
Cp * Et * Im/Jj
Et * Aw * Qe/Jj
Pj * Is/Jj/Kg
Et * Ke * Is/Jj


Et * Is * Ji/Jj
Et * Ji * Nw/Lu
Et * Aw * Is/Jj
Nt * Is * Mt/Ct
Ny * Nm * Mt/Ct


Et * Is * Fp/Jj
Et * Jp * Fp/Jj
Et * Is/Kj/Jj
Nm * Pf * Mt/Ct
Nm * Mt/Ct/Jj


Et * Ji * Qe/Jj
Et * Qe * Fp/Jj
Im * Nm * Mt/Ct
Qe * Cp * Et/Jj
Nw * Et * Is/Kg


Mb * Is * Ji/Jj
Et * Fp/Mc/Jj
Mm * Is/Jj/Kg
Jy * Et * Qa/Jj
Ji * Is/Jj/Kg


Is * Ji * Fp/Jj
Im * Ok * Fp/Jj
Ar * Et * Is/Jj
Is * Nm * Mt/Ct
Nm * Mt/Ct/Ch


Et * Nw * Fp/Jj
Ji * Jp * Fp/Jj
Qa * Et * Aw/Jj
Nt * Pf * Mt/Ct
Is * Ok/Jj/Kg


Et * Ok * Fp/Jj
Ji * Qe * Fp/Jj
Jy * Et * Qe/Jj
Nb * Pf * Mt/Ct
Mz * Nm * Mt/Ct


Et * On * Fp/Jj
Ji * On * Fp/Jj
Is * Im * Mt/Ct
Is * Pf * Mt/Ct
Ke * Is/Jj/Kg


Ji * Ok * Fp/Jj
Et * Nw * Fp/Mc
Nb * Is * Mt/Ct
Ji * Et * Aw/Jj
Ke * Et * Fp/Jj


Et * Nw * Fp/Lu
Ok * Fp/Jj/Mc
Et * Is * Mt/Ct
Im * Pf * Mt/Ct
Im * Is/Jj/Kg


Nw * Ok * Fp/Jj
Et * Is/Jj/Kg
Et * Im * Ji/Aj
Nt * Im * Mt/Ct
Is * Nw/Jj/Kg










5-Marker Panels (AUC p-value <1e−9)













Mz * Nw * Im/Jj/Kg
Lh * Et * Im/Jj/Kg
Nt * Fp * Nw * Im/Jj
Jp * Fp * Nw * Im/Jj


Kq * Nw * Im/Jj/Kg
Ip * Nw * Im/Jj/Kg
Mb * Ok * Nw * Ji * Fp
Mz * Fp * Nw * Im/Jj


Qa * Nw * Im/Jj/Kg
Dg * Ji * Im/Jj/Kj
Et * Is * Nw * Ji * Fp
Nt * Nw * Ji * Fp/Jj


Ma * Nw * Ji * Fp/Aj
Et * Cp * Ji * Im/Jj
On * Nw * Ji * Fp/Hw
Jt * Nw * Ji * Fp/Jj


Ok * Nw * Im/Jj/Kg
Nm * Et * Im/Jj/Aj
Et * Mi * Nw * Ji * Fp
Mi * Nw * Ji * Fp/Jj


Ji * Nw * Im/Jj/Kg
Et * Cp * Nw * Im/Jj
Qe * Fp * Nw * Im/Jj
Pz * Nw * Ji * Fp/Jj


Ke * Aw * Nw * Im/Jj
Et * Jy * Ji * Im/Jj
Fp * Nw * Im/Jj/Hw
Jp * Nw * Ji * Fp/Lu


Ip * Nw * Im/Jj/Kj
Ad * Nw * Im/Jj/Kj
Is * Fp * Nw * Im/Jj
Mb * Nw * Ji * Fp/Lu


Bc * Nw * Im/Jj/Kj
Et * Ar * Nw * Im/Jj
Im * Nw * Ji * Fp/Mc
Mz * Et * Ji * Fp/Hw


Ef * Nw * Im/Jj/Aj
Kl * Ji * Im/Jj/Aj
Lw * Nw * Ji * Fp/Jj
Is * Et * Ji * Fp/Hw


Ok * Nw * Im/Jj/Kj
Jo * Et * Im/Jj/Kg
Jo * Nw * Ji * Fp/Jj
Ok * Et * Ji * Fp/Hw


Ap * Et * Ji * Fp/Jj
Ad * Nw * Im/Jj/Aj
Js * Nw * Ji * Fp/Jj
Et * Is * Ji * Im/Jj


Qe * Nw * Im/Jj/Kj
Kq * Et * Im/Jj/Kj
Jp * Nw * Ji * Fp/Mc
Is * Ji * Im/Jj/Hw


Nt * Aw * Nw * Im/Jj
Dl * Et * Im/Jj/Aj
Qe * Nw * Ji * Fp/Lu
Is * Et * Ji * Fp/Jj


Fb * Aw * Nw * Im/Jj
Bc * Et * Im/Jj/Kj
Lw * Nw * Ji * Fp/Lu
Et * Fp * Nw * Im/Jj


Pj * Nw * Im/Jj/Kj
Ok * Et * Im/Jj/Kg
Mb * Nw * Ji * Fp/Mc
Et * Ji * Nw * Im/Jj


Ip * Nw * Im/Jj/Aj
Qe * Et * Im/Jj/Kj
Et * Nt * Nw * Im/Jj
Et * Nw * Im/Jj/Lu


Qe * Nw * Im/Jj/Kg
Ke * Et * Im/Jj/Ob
Et * Ok * Nw * Ji * Fp
Et * Nw * Im/Jj/Mc


Jg * Nw * Im/Jj/Aj
Kq * Aw * Et * Im/Jj
Jp * Nw * Ji * Fp/Hw
Et * Mb * Nw * Im/Jj


Kq * Aw * Nw * Im/Jj
Ke * Aw * Et * Im/Jj
Et * Jp * Nw * Ji * Fp
Ji * Et * Im/Jj/Lu


Et * Nw * Im/Jj/Aj
Mm * Et * Im/Jj/Kj
Nw * Ji * Fp/Nh/Jj
Ji * Fp * Et * Im/Jj


Ad * Et * Ji * Fp/Aj
Mm * Et * Im/Jj/Kg
Ma * Nw * Ji * Fp/Jj
Ji * Et * Im/Jj/Mc


Ad * Et * Ji * Fp/Jj
Ke * Et * Im/Jj/Kg
Lh * Nw * Ji * Fp/Jj
Ji * Mb * Et * Im/Jj


Jg * Et * Ji * Fp/Aj
Kq * Et * Im/Jj/Aj
Mz * Nt * Nw * Ji * Fp
Ok * Fp * Et * Im/Jj


Et * Kk * Ji * Im/Jj
Ad * Ji * Im/Jj/Aj
Ik * Ji * Nw * Im/Jj
Fp * Et * Im/Jj/Mc


Pj * Ji * Im/Jj/Kg
Jp * Aw * Et * Im/Jj
Nt * Et * Ji * Fp/Lu
Et * Nt * Ji * Im/Jj


Is * Ji * Im/Jj/Kg
Ik * Ji * Im/Jj/Aj
Nt * Nw * Et * Ji * Fp
Fp * Ji * Im/Jj/Hw


Ok * Aw * Nw * Im/Jj
Kq * Et * Im/Jj/Ch
Mi * Nw * Ji * Fp/Hw
Et * Ok * Ji * Im/Jj


Pf * Nw * Im/Jj/Ct
Dg * Ji * Im/Jj/Aj
Nw * Ji * Fp/Me/Hw
Et * Jp * Ji * Im/Jj


Mb * Aw * Nw * Im/Jj
Ef * Et * Im/Jj/Aj
Nw * Ji * Fp/Mc/Hw
Et * Qe * Ji * Im/Jj


Dg * Et * Ji * Fp/Aj
Ar * Et * Im/Jj/Mc
Qe * Nw * Ji * Fp/Hw
Et * Mi * Ji * Im/Jj


Aw * Nw * Im/Jj/Ob
Nt * Aw * Et * Im/Jj
Qa * Nw * Ji * Fp/Hw
Im * Et * Ji * Fp/Lu


Jp * Aw * Nw * Im/Jj
Et * Nw * Im/Jj/Kj
Mb * Fp * Nw * Im/Jj
Jg * Et * Ji * Fp/Jj


Et * Cu * Nw * Im/Jj
Qa * Et * Im/Jj/Kg
Nw * Ji * Fp/Me/Jj
Ji * Fp * Nw * Im/Jj


Et * Oa * Nw * Im/Jj
Pr * Et * Im/Jj/Kg
Om * Nw * Ji * Fp/Jj
Ji * Nw * Im/Jj/Lu


Bb * Et * Ji * Fp/Jj
Pj * Et * Im/Jj/Mc
Mi * Nw * Ji * Fp/Lu
Ji * Mb * Nw * Im/Jj


Pj * Nw * Im/Jj/Kg
Ke * Et * Im/Jj/Mc
Ok * Nw * Ji * Fp/Mc
Ji * Nw * Im/Jj/Mc


Mt * Nw * Im/Jj/Ct
Lw * Fb * Et * Im/Jj
Qe * Et * Ji * Fp/Hw
Fp * Ji * Im/Jj/Mc


Nw * Im/Jj/Ob/Mc
Pj * Et * Im/Jj/Kj
Qa * Et * Ji * Fp/Hw
Ok * Fp * Ji * Im/Jj


Et * Kk * Nw * Im/Jj
Ik * Nw * Im/Jj/Aj
Et * Is * Nw * Im/Jj
Fp * Ji * Im/Jj/Lu


Nm * Ji * Im/Jj/Aj
Ji * Et * Im/Jj/Kj
Ik * Et * Ji * Fp/Jj
Ok * Ji * Im/Jj/Lu


Ji * Ar * Nw * Im/Jj
Pj * Aw * Et * Im/Jj
Ik * Nw * Ji * Fp/Jj
Mb * Ji * Im/Jj/Mc


Fb * Aw * Ji * Im/Jj
Mi * Aw * Et * Im/Jj
Ji * Qe * Nw * Im/Jj
Jp * Fp * Ji * Im/Jj


Pf * Et * Ji * Fp/Ct
Et * Nw * Im/Jj/Kg
Jg * Nw * Ji * Fp/Jj
Mb * Ok * Ji * Im/Jj


Nt * Aw * Ji * Im/Jj
Jy * Et * Im/Jj/Mc
Mb * Ok * Nw * Im/Jj
Ok * Ji * Im/Jj/Mc


Ip * Ji * Im/Jj/Aj
Mi * Et * Im/Jj/Ob
Qd * Nw * Ji * Fp/Jj
Mb * Ji * Im/Jj/Lu


Et * Ji * Im/Jj/Ch
Qe * Et * Im/Jj/Kg
Mz * Nw * Ji * Fp/Jj
Mz * Fp * Ji * Im/Jj


Jg * Ji * Im/Jj/Aj
Fb * Pj * Et * Im/Jj
Mz * Nw * Ji * Fp/Lu
Ji * Im/Jj/Mc/Lu


Mt * Ji * Im/Jj/Ct
Ji * Ar * Et * Im/Jj
Nw * Et * Ji * Fp/Hw
On * Fp * Ji * Im/Jj


Et * Cu * Ji * Im/Jj
Mb * Et * Im/Jj/Ob
Et * Ji * Fp/Lu/Hw
Mb * Fp * Ji * Im/Jj


Et * Bb * Nw * Im/Jj
Et * Fb * Nw * Im/Jj
Nt * Et * Ji * Fp/Hw
Et * Ji * Fp/Mc/Jj


Et * Bc * Nw * Im/Jj
Jg * Et * Im/Jj/Aj
Et * Ji * Fp/Jj/Hw
Et * Ji * Fp/Lu/Jj


Qe * Aw * Ji * Im/Jj
Ji * Et * Im/Jj/Kg
Mi * Et * Ji * Fp/Hw
Ok * Et * Ji * Fp/Jj


Mm * Ji * Im/Jj/Kg
Qe * Aw * Et * Im/Jj
Im * Et * Ji * Fp/Hw
Nw * Et * Ji * Fp/Jj


Bc * Ji * Im/Jj/Aj
Ip * Ji * Im/Jj/Kg
Is * Nw * Im/Jj/Hw
Nw * Et * Ji * Fp/Lu


Mm * Nw * Im/Jj/Kj
Ji * Fb * Et * Im/Jj
Is * Nw * Ji * Fp/Hw
Et * Ji * Fp/Mc/Lu


Ma * Et * Ji * Fp/Aj
Bc * Et * Im/Jj/Aj
Ik * Mz * Nw * Im/Jj
Jp * Et * Ji * Fp/Jj


Qe * Aw * Nw * Im/Jj
Ji * Et * Im/Jj/Ob
Ik * Mz * Ji * Im/Jj
Mb * Et * Ji * Fp/Jj


Dg * Nw * Im/Jj/Kj
Is * Et * Im/Jj/Kj
Et * Ji * Im/Jj/Me
Qe * Et * Ji * Fp/Jj


Aw * Nw * Im/Jj/Mc
Lw * Aw * Et * Im/Jj
Im * Nw * Ji * Fp/Hw
Nt * Et * Ji * Fp/Jj


Ar * Ji * Im/Jj/Mc
Dg * Et * Im/Jj/Aj
Ji * Nt * Nw * Im/Jj
Qa * Et * Ji * Fp/Jj


Et * Ke * Nw * Im/Jj
Nm * Et * Im/Jj/Kj
Ji * Ok * Nw * Im/Jj
Ok * Et * Ji * Fp/Lu


Is * Nw * Im/Jj/Ct
Fb * Aw * Et * Im/Jj
Ji * Nw * Im/Jj/Me
Jt * Et * Ji * Fp/Jj


Et * Pj * Nw * Im/Jj
Is * Et * Im/Jj/Kg
Nt * Fp * Ji * Im/Jj
On * Et * Ji * Fp/Jj


Ji * Aw * Nw * Im/Jj
Et * Nw * Im/Jj/Ob
Mz * Nt * Ji * Im/Jj
Mi * Et * Ji * Fp/Jj


Dg * Nw * Im/Jj/Aj
Mb * Aw * Et * Im/Jj
Nt * Ji * Im/Jj/Mc
Jp * Et * Ji * Fp/Lu


Mm * Nw * Im/Jj/Kg
Et * Aw * Nw * Im/Jj
Nt * Ji * Im/Jj/Lu
Qd * Et * Ji * Fp/Jj


Mb * Aw * Ji * Im/Jj
Fb * Et * Im/Jj/Ob
Nt * Ok * Ji * Im/Jj
Mz * Et * Ji * Fp/Jj


Et * Ke * Ji * Im/Jj
Lw * Et * Im/Jj/Ob
Qe * Fp * Ji * Im/Jj
Nw * Et * Ji * Fp/Mc


Kl * Nw * Im/Jj/Aj
Kl * Et * Im/Jj/Aj
Mi * Fp * Ji * Im/Jj
Mz * Et * Ji * Fp/Lu


Is * Ji * Im/Jj/Ct
Ji * Aw * Et * Im/Jj
Jp * Mb * Ji * Im/Jj
Mb * Et * Ji * Fp/Lu


Et * Pj * Ji * Im/Jj
Fb * Et * Im/Jj/Mc
Qe * Ji * Im/Jj/Mc
Lw * Et * Ji * Fp/Jj


Et * Kq * Ji * Im/Jj
Ip * Et * Im/Jj/Kg
Ok * Ji * Im/Jj/Me
Js * Et * Ji * Fp/Jj


Is * Nw * Im/Jj/Kj
Ad * Et * Im/Jj/Kj
Et * Ji * Fp/Nh/Jj
Is * Nw * Ji * Fp/Jj


Aw * Et * Ji * Fp/Jj
Aw * Et * Im/Jj/Ob
Mz * Nt * Et * Ji * Fp
Nw * Ji * Fp/Lu/Hw


Nm * Ji * Im/Jj/Kj
Aw * Et * Im/Jj/Mc
Pz * Et * Ji * Fp/Jj
Ok * Nw * Ji * Fp/Hw


Et * Bb * Ji * Im/Jj
Ad * Et * Im/Jj/Aj
Mi * Et * Ji * Fp/Lu
Mz * Nw * Ji * Fp/Hw


Et * Kq * Nw * Im/Jj
Ik * Et * Im/Jj/Aj
Om * Et * Ji * Fp/Jj
Ok * Fp * Nw * Im/Jj


Ad * Ji * Im/Jj/Kj
Et * Im/Jj/Ob/Mc
Mb * Et * Ji * Fp/Mc
Fp * Nw * Im/Jj/Mc


Is * Nw * Im/Jj/Kg
No * Nw * Ji * Fp/Hw
Lh * Et * Ji * Fp/Jj
Ok * Nw * Ji * Fp/Jj


Aw * Ji * Im/Jj/Mc
Et * Nw * Ji * Fp/Nh
Mb * Nw * Et * Ji * Fp
Nw * Ji * Fp/Lu/Jj


Nm * Nw * Im/Jj/Kj
Nw * Ji * Fp/Nh/Hw
Lw * Et * Ji * Fp/Lu
Nw * Ji * Fp/Mc/Jj


Et * Ji * Im/Jj/Aj
Nt * Nw * Ji * Fp/Mc
Jp * Et * Ji * Fp/Mc
Qe * Nw * Ji * Fp/Jj


Ke * Nt * Et * Im/Jj
Nt * Ok * Nw * Ji * Fp
Jo * Et * Ji * Fp/Jj
Jp * Nw * Ji * Fp/Jj


Kk * Pj * Et * Im/Jj
Et * Qe * Nw * Ji * Fp
Nt * Nw * Ji * Fp/Hw
Mb * Nw * Ji * Fp/Jj


Pf * Et * Im/Jj/Kg
Jm * Nw * Ji * Fp/Jj
Im * Nw * Ji * Fp/Lu
On * Nw * Ji * Fp/Jj


Qd * Et * Im/Jj/Kg
Nt * Nw * Ji * Fp/Lu
Nw * Ji * Fp/Jj/Hw
Qa * Nw * Ji * Fp/Jj


Dg * Et * Im/Jj/Kj
Om * Nw * Ji * Fp/Hw
Fp * Nw * Im/Jj/Lu
Nw * Ji * Fp/Mc/Lu


Et * Jy * Nw * Im/Jj
Is * Nw * Ji * Fp/Lu
On * Fp * Nw * Im/Jj
Ok * Nw * Ji * Fp/Lu


Kl * Et * Im * Ji/Aj
Et * Ke * Is/Jj/Kg
Pf * Nm * Mt/Ct/Ch
Mz * Nm * Pf * Mt/Ct


Et * Pj * Is/Jj/Kg
Et * Ji * Is/Jj/Kg
Im * Nm * Pf * Mt/Ct
Mz * Nt * Is * Mt/Ct


Dg * Et * Im * Ji/Aj
Mz * Nm * Mt/Ct/Jj
Ji * Im * Nm * Mt/Ct
Et * Mm * Is/Jj/Kg


Ad * Et * Im * Ji/Aj
Pj * Et * Is/Kj/Jj
Et * Is * Ok/Jj/Kg
Nm * Pf * Mt/Ct/Aj


Jg * Et * Im * Ji/Aj
Dg * Et * Is/Kj/Jj
Nb * Im * Nm * Mt/Ct
Is * Nm * Mt/Ct/Ch


Im * Nm * Mt/Ct/Jj
Nb * Nm * Mt/Ct/Ch
Et * Nt * Im * Mt/Ct
Is * Mz * Nm * Mt/Ct


Im * Mz * Nm * Mt/Ct
Ny * Nm * Mt/Ct/Hw
Hu * Nm * Mt/Ct/Ch
Di * Im * Nm * Mt/Ct


Et * Im * Nm * Mt/Ct
Kq * Et * Is/Jj/Kg
Is * Nm * Mt/Ct/Aj
Et * Is * Nm * Mt/Ct


Im * Nm * Mt/Ct/Ch
Kq * Et * Im * Ji/Aj
Ad * Et * Is/Kj/Jj
Pf * Et * Is/Jj/Kg


Nm * Pf * Mt/Ct/Oy
Et * Nt * Is * Mt/Ct
Im * Nm * Mt/Ct/Aj
Ip * Et * Is/Jj/Kg


Et * Is/Jj/Kg/Mc
Is * Nm * Mt/Ct/Jj
Mz * Nt * Im * Mt/Ct
Jp * Et * Is/Jj/Kg


Is * Nt * Im * Mt/Ct
Nb * Nt * Is * Mt/Ct
Nw * Im * Nm * Mt/Ct
Et * Aw * Is/Jj/Kj


Is * Im * Nm * Mt/Ct
Et * Is * Nw/Jj/Kg
Ba * Nm * Mt/Ct/Ch
Jy * Et * Is/Jj/Kg









While the invention has been described and exemplified in sufficient detail for those skilled in this art to make and use it, various alternatives, modifications, and improvements should be apparent without departing from the spirit and scope of the invention. The examples provided herein are representative of preferred embodiments, are exemplary, and are not intended as limitations on the scope of the invention. Modifications therein and other uses will occur to those skilled in the art. These modifications are encompassed within the spirit of the invention and are defined by the scope of the claims.
It will be readily apparent to a person skilled in the art that varying substitutions and modifications may be made to the invention disclosed herein without departing from the scope and spirit of the invention.
All patents and publications mentioned in the specification are indicative of the levels of those of ordinary skill in the art to which the invention pertains. All patents and publications are herein incorporated by reference to the same extent as if each individual publication was specifically and individually indicated to be incorporated by reference.
The invention illustratively described herein suitably may be practiced in the absence of any element or elements, limitation or limitations which is not specifically disclosed herein. Thus, for example, in each instance herein any of the terms “comprising”, “consisting essentially of” and “consisting of” may be replaced with either of the other two terms. The terms and expressions which have been employed are used as terms of description and not of limitation, and there is no intention that in the use of such terms and expressions of excluding any equivalents of the features shown and described or portions thereof, but it is recognized that various modifications are possible within the scope of the invention claimed. Thus, it should be understood that although the present invention has been specifically disclosed by preferred embodiments and optional features, modification and variation of the concepts herein disclosed may be resorted to by those skilled in the art, and that such modifications and variations are considered to be within the scope of this invention as defined by the appended claims.
Other embodiments are set forth within the following claims.

## Claims

1. A method for evaluating the likelihood of future nonoccurrence of acute renal failure renal in a critically ill subject diagnosed with acute renal injury, comprising:
obtaining a plasma or urine sample from a the subject,
introducing the plasma or urine sample obtained from the subject into an assay instrument for performing a first immunoassay to determine the concentration of antileukoproteinase and a second immunoassay to determine the concentration of thrombomodulin wherein the first immunoassay comprises: contacting the plasma or urine sample with a first antibody specifically binding antileukoproteinase to obtain a first assay result value indicative of the concentration value of Antileukoproteinase,
wherein the second immunoassay comprises: contacting the plasma or urine sample with a second antibody specifically binding thrombomodulin to generate a second assay result value indicative of the concentration value of Thrombomodulin,
obtaining a composite value comprising the ratio of concentration of Antileukoproteinase to the concentration value of thrombomodulin,
correlating the composite value to a likelihood of occurrence or nonoccurrence of continuing acute renal failure within 72 hours of the time at which the plasma or urine sample is obtained from the subject,
wherein the composite value that is lower as compared to a threshold is indicative of a likelihood of nonoccurrence of continuing acute renal failure within 72 hours of the time at which the plasma or urine sample is obtained from the subject; and
wherein the composite value that is higher as compared to the threshold is indicative of a likelihood of occurrence of continuing acute renal failure within 72 hours of the time at which the plasma or urine sample is obtained from the subject; and
wherein the threshold is a composite result value obtained by performing the first and second immunoassays in plasma or urine sample from a predetermined subpopulation of individuals comprising critically ill subjects with a known occurrence of continuing acute renal failure within 72 hours of the time at which the plasma or urine sample is obtained.

2. A method according to claim 1, wherein the correlating step comprises correlating the composite value to a likelihood of occurrence or nonoccurrence of continuing acute renal failure within 48 hours of the time at which the plasma or urine sample is obtained from the subject,
wherein the composite value that is lower as compared to a threshold is indicative of a likelihood of nonoccurrence of continuing acute renal failure within 48 hours of the time at which the plasma or urine sample is obtained from the subject; and
wherein the composite value that is higher as compared to the threshold is indicative of a likelihood of occurrence of continuing acute renal failure within 48 hours of the time at which the plasma or urine sample is obtained from the subject; and
wherein the threshold is a composite result obtained by performing the first and second immunoassays in plasma or urine sample from a predetermined subpopulation of individuals comprising critically ill subjects with a known occurrence of continuing acute renal failure within 48 hours of the time at which the plasma or urine sample is obtained.

3. A method according to claim 1, wherein the correlating step comprises correlating the composite value to a likelihood of occurrence or nonoccurrence of continuing acute renal failure within 24 hours of the time at which the plasma or urine sample is obtained from the subject,
wherein the composite value that is lower as compared to a threshold is indicative of a likelihood of nonoccurrence of continuing acute renal failure within 24 hours of the time at which the plasma or urine sample is obtained from the subject; and
wherein the composite value that is higher as compared to the threshold is indicative of a likelihood of occurrence of continuing acute renal failure within 24 hours of the time at which the plasma or urine sample is obtained from the subject; and
wherein the threshold is a composite result obtained by performing the first and second immunoassays in plasma or urine sample from a predetermined subpopulation of individuals comprising critically ill subjects with a known occurrence of continuing acute renal failure within 24 hours of the time at which the plasma or urine sample is obtained.

4. A method according to claim 1, wherein the subject is in RIFLE stage I or F.