# Patent

## Title
Quantification of non-reducing end glycan residual compounds

## Abstract

Provided herein are methods of diagnosing or monitoring the treatment of abnormal glycan accumulation or a disorder associated with abnormal glycan accumulation.

## Background
CROSS-REFERENCE
This application claims the benefit of U.S. Provisional Application No. 61/142,291, filed 2 Jan. 2009, U.S. Provisional Application No. 61/164,365, filed 27 Mar. 2009, and U.S. Provisional Application No. 61/238,079, filed 28 Aug. 2009, which applications are incorporated herein by reference.


BACKGROUND OF THE INVENTION
Many human diseases are caused by or correlated with changes in glycosylation. In order to use these changes as biomarkers of disease, analytical methods are used to quantify the changes. The published methods use antibodies, chromatography and/or mass spectrometry techniques to resolve and quantify the intact or partially intact glycans. These methods are challenging due to the complexity and number of possible glycan structures present in biological samples. In a single disease state there can be thousands of different novel glycan structures that are present; however, each on their own is a weak marker of disease.
SUMMARY OF THE INVENTION
Described herein are populations of glycans that are transformed into populations of biomarkers using glycan degradation enzymes. Further described herein are the use of analytical instruments to characterize the population of biomakers (i.e., non-reducing end glycan residual compounds, such as monosaccharides) in order to provide relevant information about the population of biomarkers, the population of biomarkers and the biological sample that provided the population of biomarkers.
Provided in certain embodiments herein are methods of detecting glycan accumulation and/or abnormal glycan biosynthesis and/or degradation in a biological sample, the method comprising:

    
    
        a. transforming a glycan of a biological sample with a glycan degradation enzyme to liberate a glycan residual compound from the non-reducing end of the glycan;
        b. measuring the amount of the glycan residual compound liberated by the functioning glycan degradation enzyme with an analytical device.
    
    


In some embodiments, a method described herein comprises a method of diagnosing an individual as having a disease or condition associated with abnormal glycan biosynthesis, degradation, or accumulation, the method comprising:

    
    
        a. generating a biomarker comprising of one or more non-reducing end glycan residual compound, wherein the biomarker is generated by treating a population of glycans, in or isolated from a biological sample from the individual, with at least one digesting glycan enzymes, wherein prior to enzyme treatment, the biomarker is not present in abundance in samples from individuals with the disease or condition relative to individuals without the disease or condition, and
        b. using an analytical instrument to detect the presence of and/or measure the amount of the biomarker produced and displaying or recording the presence of or a measure of a population of the biomarker;
    
    


In some embodiments, the presence of and/or measure the amount of the biomarker is utilized to determine the presence, identity, and/or severity of the disease or condition.
Provided in certain embodiments herein is a method of diagnosing an individual as having a disease or condition associated with abnormal glycan biosynthesis, degradation, or accumulation, the method comprising:

    
    
        a. transforming a glycan of a biological sample with a glycan degradation enzyme to liberate a glycan residual compound from the non-reducing end of the glycan;
        b. measuring the amount of the glycan residual compound liberated by the functioning glycan degradation enzyme with an analytical device; and
        c. determining whether the amount of liberated glycan residue is abnormal.
    
    


In some embodiments, provided herein is a method of monitoring the treatment of a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans, the method comprising:

    
    
        a. following administration of an agent for treating a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans to an individual in need thereof, using an analytical instrument to measure the amount of a population of a biomarker comprising a non-reducing end glycan residual compounds present in a transformed biological sample, the biomarker being generated by treating a population of glycans, in or isolated from a biological sample from the individual, with at least one digesting glycan enzyme(s), wherein prior to enzyme treatment, the biomarker is not present in abundance in samples from individuals with the disease or condition relative to individuals without the disease or condition, and
        b. determining whether or not the amount of the amount of biomarker has decreased or increased at a slower rate compared to the amount or rate of increase prior to administration of the agent for treating a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans.
    
    


In some embodiments, the abnormal glycan accumulation or disorder associated therewith is caused by an abnormally functioning glycan degradation enzyme and wherein the abnormally functioning glycan degradation enzyme and glycan degradation enzyme are of the same type (e.g., the glycan degradation utilized in the transformation process is a functioning glycan degradation enzyme whereas the abnormally functioning enzyme is not, such as due to deletions, insertions, substitutions, or other modifications to the enzyme sequence). In certain embodiments, the abnormally functioning glycan degradation enzyme functions abnormally as a result of being present in an abnormally low amount, functioning improperly, or a combination thereof. In some embodiments, the abnormal glycan accumulation comprises the accumulation of abnormal amounts of glycans. In certain embodiments, the abnormal glycan accumulation comprises the accumulation of abnormal amounts of normal glycans. In some embodiments, the abnormal glycan accumulation comprises the accumulation of abnormal amounts of abnormal glycans.
In certain embodiments, the biomarker is not present in the original biological sample. In some embodiments, the biomarker is not present in the biological sample after isolating a population of glycans therefrom (e.g., prior to transformation of the glycan according to a process described herein).
In certain embodiments, the normally functioning glycan degradation enzyme is a glycosidase, sulfatase, phosphorylase, deacetylase or a combination thereof. In some embodiments, the normally functioning glycan degradation enzyme is a glycosidase selected from an exo-glycosidase and an endo-glycosidase. In certain embodiments, the glycosidase is an exo-glycosidase selected from the group consisting of a galactosidase, and a glucuronidase. In some embodiments, the generated biomarker is a glycan residual compound. In some embodiments, the glycan residual compound is a monosaccharide. In certain embodiments, the glycan residual compound is sulfate, phosphate, acetate, or a combination thereof. In certain embodiments, the glycan residual compound has a molecular weight of less than 2000 g/mol, less than 1500 g/mol, less than 1000 g/mol, less than 500 g/mol, less than 400 g/mol, less than 300 g/mol, less than 260 g/mol, less than 200 g/mol, less than 100 g/mol, or the like (e.g., prior to tagging with any detectable label that may be included in a process described herein).
In some embodiments, any process described herein further comprises purifying a biological sample prior to transforming a glycan thereof. In some embodiments, the process of purifying a biological sample comprises removing monosaccharides therefrom, removing sulfates therefrom, removing phosphates therefrom, removing acetate therefrom, or a combination thereof.
In certain embodiments, transforming a glycan of a biological sample with a normally functioning glycan degradation enzyme comprises transforming a glycan of a biological sample with a plurality of normally functioning glycan degradation enzymes. In some embodiments, the glycan is treated with a plurality of normally functioning glycan degradation enzymes concurrently, sequentially, or a combination thereof.
In specific embodiments, a disorder associated with an abnormal glycan accumulation is any disorder described in Tables 1-4 (e.g., MPS I) and the normally functioning glycan degradation enzyme is any enzyme described in Tables 1-4 (e.g., L-iduronidase).
In some embodiments, determining whether the amount of liberated glycan residue is abnormal comprises labeling the glycan residue with a detectable label and measuring the amount of labeled glycan residue with an analytical instrument. In certain embodiments, the detectable label is a mass label, a radioisotope label, a fluorescent label, a chromophore label, or affinity label. In some embodiments, the amount of liberated glycan is measured using UV-V is spectroscopy, IR spectroscopy, mass spectrometry, or a combination thereof.
Provided in some embodiments herein is a method of monitoring the treatment of a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans, the methods comprising:

    
    
        a. following administration of an agent for treating a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans to an individual in need thereof, using an analytical instrument to measure the amount of a population of a non-reducing end glycan residual compounds present in a transformed biological sample that has been prepared by:
        
            treating a population of glycans, in or isolated from a biological sample taken from the individual, with at least one normally functioning glycan degradation enzyme to liberate non-reducing end glycan residual compound;
        
        
        b. determining whether or not the amount of the amount of liberated non-reducing end glycan residue has decreased or increased at a slower rate compared to the amount or rate of increase prior to administration of the agent for treating a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans.
    
    


In some embodiments, the disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans is a lysosomal storage disease, a cancerous disease, or an infectious disease. In certain embodiments, the normally functioning glycan degradation enzyme is a glycosidase, sulfatase, phosphorylase, deacetylase, or a combination thereof. In some embodiments, the normally functioning glycan degradation enzyme is a glycosidase selected from an exo-glycosidase and an endo-glycosidase. In certain embodiments, the glycan residual compound is a monosaccharide, sulfate, phosphate, acetate, or a combination thereof. In some embodiments, transforming a glycan of a biological sample with a normally functioning glycan degradation enzyme comprises transforming a glycan of a biological sample with a plurality of normally functioning glycan degradation enzymes. In certain embodiments, the glycan is treated with a plurality of normally functioning glycan degradation enzymes concurrently, sequentially, or a combination thereof. In some embodiments, prior to measuring the amount of a population of non-reducing end glycan residual compounds, the non-reducing end glycan residual compounds are labeled with a detectable label. In certain embodiments, the detectable label is a mass label, a radioisotope label, a fluorescent label, a chromophore label, or affinity label. In some embodiments, the amount of liberated glycan is measured using UV-V is spectroscopy, IR spectroscopy, mass spectrometry, or a combination thereof.



BRIEF DESCRIPTION OF THE DRAWINGS
The novel features of the invention are set forth with particularity in the appended claims. A better understanding of the features and advantages of the present invention will be obtained by reference to the following detailed description that sets forth illustrative embodiments, in which the principles of the invention are utilized, and the accompanying drawings of which:
FIG. 1 illustrates compounds present in a normal biological sample not subject to an enzymatic glycan residual liberation process described herein.
FIG. 2 illustrates compounds present in a normal biological subject to an enzymatic glycan residual liberation process described herein.
FIG. 3 illustrates compounds present in a biological sample of an individual suffering from a disorder associated with abnormal glycan accumulation not subject to an enzymatic glycan residual liberation process described herein.
FIG. 4 illustrates compounds present in a biological sample of an individual suffering from a disorder associated with abnormal glycan accumulation subject to an enzymatic glycan residual liberation process described herein.



DETAILED DESCRIPTION OF THE INVENTION
While preferred embodiments of the present invention have been shown and described herein, it will be obvious to those skilled in the art that such embodiments are provided by way of example only. Numerous variations, changes, and substitutions will now occur to those skilled in the art without departing from the invention. It should be understood that various alternatives to the embodiments of the invention described herein may be employed in practicing the invention. It is intended that the following claims define the scope of the invention and that methods and structures within the scope of these claims and their equivalents be covered thereby.
Provided herein is a method of detecting abnormal glycan accumulation, e.g., in human disease. In some instances, the process described herein includes a strategy to quantify the changes by measuring the abundance of all glycans with a disease related glycan residual compound on the non-reducing end of glycans from a biological sample (e.g., monosaccharides and/or their modifications such as sulfation, acetylation, phosphorylation, or the like).
Provided in certain embodiments herein are methods of detecting glycan accumulation in a biological sample, the method comprising:

    
    
        a. transforming a glycan of a biological sample with a normally functioning glycan degradation enzyme to liberate a glycan residual compound from the non-reducing end of the glycan;
        b. measuring the amount of the glycan residual compound liberated by the functioning glycan degradation enzyme with an analytical device.
    
    


In certain embodiments, the method is associated with diagnosing an individual with abnormal glycan accumulation, or a disorder associated therewith.
Therefore, in specific embodiments, provided herein is a method of diagnosing an individual as having an abnormal glycan accumulation or a disorder associated with an abnormal glycan accumulation, the method comprising:

    
    
        a. transforming a glycan of a biological sample with a normally functioning glycan degradation enzyme to liberate a glycan residual compound from the non-reducing end of the glycan;
        b. measuring the amount of the glycan residual compound liberated by the functioning glycan degradation enzyme with an analytical device; and
        c. determining whether the amount of liberated glycan residue is abnormal.
    
    


In certain instances, methods of detecting abnormal glycan accumulation works based on the observation that altered glycans generated in a disease state are caused by an alteration in the activity of a biosynthetic enzyme (e.g., via increased expression, increased activity, increased substrate, or the like) that leads to the production of thousands of unique structures.
For example, in certain instances, the induction of an alpha 2,3 sialyltransferase leads to the novel expression of thousands of different glycans (potentially from multiple glycan classes) that present a non-reducing terminal alpha 2,3 linked sialic acid. By quantifying a limited set of these novel structures using current methods, only a fraction of the disease related structures are measured. Instead, as provided in certain embodiments herein, if a sample containing glycans (crude or purified for a specific glycan class) is treated with an alpha 2,3 sialidase to liberate the non-reducing end sialic acid, the free sialic acid (non-reducing end glycan residual) can be measured. This signal would represent a larger portion of the thousands of altered glycan structures that are made in the disease state due to the altered expression of the alpha 2,3 sialyltransferase. Furthermore, in certain embodiments, depending on the signal (i.e., measurement) of the sialic acid liberated, a determination is made as to whether or not the accumulation of sialic acid is abnormal and/or whether or not such levels of accumulated sialic acid is associated with a disorder.
Another example of the process includes a method involving a biological sample containing glycans (purified or not) that is treated with an exo-glycosidase (for example a β-galactosidase). In some of such embodiments, enzymatic treatment cleaves non-reducing end monosaccharides within the chosen enzymes specificity (e.g., β-linked galactose residues) and liberates them as free monosaccharide (e.g., galactose). In various embodiments, the free monosaccharide is isolated and quantified by any analytical method (HPLC, MS, GC, etc), and any disease that presents changes in the levels of non-reducing end β-linked galactose residues is detected or diagnosed.
Similar methods are also optionally utilized in methods of monitoring and/or determining the therapeutic of a treatment or treatment regimen, particularly in the treatment of a disorder associated with abnormal glycan accumulation. For example, provided in certain embodiments herein is a method of monitoring the treatment of disorders associated with the abnormal degradation, biosynthesis and/or accumulation of glycans, the methods comprising:

    
    
        a. following administration of an agent for treating a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans to an individual in need thereof, using an analytical instrument to measure the amount of a population of a non-reducing end glycan residue present in a transformed biological sample that has been prepared by:
        
            treating a population of glycans, in or isolated from a biological sample taken from the individual, with at least one normally functioning glycan degradation enzyme to liberate non-reducing end glycan residue;
        
        
        b. determining whether or not the amount of the amount of liberated non-reducing end glycan residue has decreased or increased at a slower rate compared to the amount or rate of increase prior to administration of the agent for treating a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans.
    
    


In some embodiments, any process described herein comprises:

    
    
        a. comparing an amount of a population of one or more glycan residual compound present in a transformed biological sample to an amount of a population of one or more glycan residual compound present in a control biological sample that has been treated in a manner substantially similar to the transformed biological sample.
    
    


In certain embodiments, a control biological sample utilized in any process described herein was provided from an individual that does not suffer from a disorder being diagnosed. In other embodiments, a control biological sample is taken from an individual suffering from a disorder being diagnosed. In certain embodiments, the result obtained from the control biological sample is stored in a database. In such cases a test sample is optionally compared to a plurality of control data in a database. Moreover in certain embodiments, any diagnostic process described herein is optionally utilized alone or in combination with other diagnostic techniques. Other diagnostic techniques include, by way of non-limiting example, symptom analysis, biopsies, detection of accumulation of other compounds in biological samples, or the like. In some embodiments, control biological samples are optionally taken from the same individual at substantially the same time, simply from a different location (e.g., one inflamed/arthritic synovial joint fluid vs the contralateral non-arthritic synovial joint). In other embodiments, control biological samples are optionally taken from the same individual at different points in time (e.g., before therapy and after therapy if the method being utilized is a method of monitoring a treatment therapy).
Glycan Accumulation:
In various instances, glycan accumulation occurs in a biological sample as a result natural glycan biosynthetic and/or degradation processes. In some instances, abnormal glycan accumulation occurs in a biological sample as a result of a disorder or disease within an individual from which the biological sample is obtained.
In certain embodiments, abnormal glycan accumulation that is observable by methods described herein is associated with the accumulation of glycans in a manner that does not normally occur in individuals who are not in a disease state.
In some embodiments, such accumulation includes the accumulation of abnormal glycans. In certain instances, these abnormal glycans include glycans that are not normally produced in an individual, or a particular biological sample thereof, in the absence of a particular disease state. Therefore, in some embodiments, abnormal glycan accumulation includes the accumulation of glycans, the glycans being abnormal themselves, especially in any significant quantity. In other words, such glycans are abnormal glycans in individuals or particular biological samples thereof when such individuals are in a non-diseased, normal, or wild type state.
In some embodiments, such accumulation includes the abnormal accumulation of glycans. In some instances, these glycans are glycans that normally occur in individuals in a non-diseased state, but at lower or higher levels or are abnormal only due to the location wherein they are produced. Therefore, in some embodiments, abnormal glycan accumulation includes the accumulation of abnormal amounts of glycans or the location thereof, the glycans being normally occurring or abnormal glycans. In other words, the amount of glycan accumulation is abnormal in individuals, or particular biological samples thereof, when such individuals are in a non-diseased, normal, or wild type state.
Biological Sample:
Biological samples suitable for analysis according to the methods and processes described herein include, by way of non-limiting example, blood, serum, urine, hair, saliva, skin, tissue, plasma, cerebrospinal fluid (CSF), amniotic fluid, nipple aspirate, sputum, tears, lung aspirate, semen, feces, synovial fluid, nails, or the like. In specific embodiments, the biological samples suitable for analysis according to the methods and processes described herein include, by way of non-limiting example, urine, serum, plasma, or CSF. In certain embodiments, processes for detecting glycan in a sample comprise providing, from the individual, a test biological sample that comprises glycan. In some embodiments, providing a test biological sample from an individual includes obtaining the sample from the individual or obtaining the sample from another source (e.g., from a technician or institution that obtained the sample from the individual). In some embodiments, the biological sample is obtained from any suitable source, e.g., any tissue or cell (e.g., urine, serum, plasma, or CSF) of an individual. In certain embodiments, the tissue and/or cell from which the glycans are recovered is obtained from liver tissue or cells, brain tissue or cells, kidney tissue or cells, or the like.
In certain embodiments, a biological sample according to any process described herein is taken from any individual. In some embodiments, the individual is an individual suspected of suffering from a disorder associated with abnormal glycan accumulation, biosynthesis, and/or degradation. In certain embodiments, the individual is a newborn or fetus.
In some embodiments, provided herein is a composition comprising isolated glycans, wherein the glycans were isolated from a biological sample, and one or more glycan degradation enzyme. In certain embodiments, the composition further comprises one or more biomarker generated according to any method described herein (e.g., wherein the biomarker is a non-reducing end glycan residual compound). In certain embodiments, provided herein is a biomarker described herein (e.g., a labeled or non-labeled non-reducing end glycan residual compound) and an analytical instrument or chromatographic resin.
Degradation Enzymes:
In certain embodiments, any suitable enzyme is optionally utilized in order to remove a glycan residual compound from the non-reducing end of a glycan. In certain disorders, e.g., as described herein, various types of abnormal glycan accumulation occurs. In certain instances, this type of glycan accumulation is detected and/or measured utilizing any suitable enzyme, e.g., as described herein. For example, Tables 1-4 illustrate various enzymes that are utilized in various embodiments of the processes described herein. Any enzyme with the desired specificity is optionally utilized in any process herein (i.e., to liberate the non-reducing end structures). Enzymes suitable for use in the processes described herein include, by way of non-limiting example, eukaryotic, prokaryotic, native, or recombinant enzymes.
In certain embodiments, a disorder associated with abnormal glycan accumulation includes a disorder associated therewith is caused by an abnormally functioning glycan degradation enzyme. In various embodiments, the abnormally functioning glycan degradation enzyme functions abnormally as a result of being present in an abnormally low amount, functioning improperly, or a combination thereof. For example, an abnormally functioning glycan degradation enzyme functions abnormally as a result of being present in an amount of less than 50%, less than 40%, less than 30%, less than 20%, less than 10%, or less than 5% than is present in an individual with normal amounts of the glycan degradation enzyme (e.g., an individual in a non-diseased, normal, or wild type state). In further or alternative embodiments, abnormally functioning glycan degradation enzymes are present in a normal amount, but do not function properly in degrading glycans. For example, such enzymes may be have amino acid substitutions in the sequences thereof that reduce or eliminate the glycan degradative properties of the enzyme.
In some embodiments, wherein abnormal glycan accumulation results, at least partially from, an abnormally functioning glycan degradation enzyme, a normally functioning glycan degradation is optionally utilized, particularly wherein the abnormally functioning glycan degradation enzyme and the normally functioning glycan degradation enzyme are of the same type.
Normally functioning glycan degradation enzymes that are used in various embodiments described herein include, by way of non-limiting example, glycosidases, sulfatases, phosphorylases, deacetylases, sialidases, or combinations thereof. In more specific embodiments, a normally functioning glycan degradation enzyme is a glycosidase, e.g., an exo-glycosidase or an endo-glycosidase. In more specific embodiments, the glycosidase is an exo-glycosidase, e.g., galactosidase, and a glucuronidase. In some embodiments, such enzymes serve to remove various glycan residual compounds, such as, monosaccharides, sulfate, phosphate, acetate, sialic acid, or combinations thereof, which are detected and/or measured in methods described herein.
In certain embodiments, one or normally functioning glycan degradation enzyme is optionally utilized to liberate a targeted glycan residual compound. Multiple enzyme treatments of glycans within a biological sample are useful in various embodiments, e.g., wherein a particular enzyme is unable to liberate a targeted residual glycan compound without first modifying the non-reducing end of the glycan. For example, a first enzyme is optionally utilized to remove a sulfate so that a second enzyme can be utilized to remove a monosaccharide. In various embodiments, the glycans are treated with a plurality of normally functioning glycan degradation enzymes concurrently, sequentially, or a combination thereof.
Various enzymes that are used in various embodiments of the methods described herein include, by way of non-limiting example, a glycosidase. Non-limiting examples of glycosidase that are optionally utilized in the methods described herein include, by way of non-limiting example, enzymes categorized as 3.2.1.X by BRENDA (the comprehensive Enzyme Information System) including 3.2.1.1 alpha-amylase, 3.2.1.B1 extracellular agarase, 3.2.1.2 beta-amylase, 3.2.1.3 glucan 1,4-alpha-glucosidase, 3.2.1.4 cellulase, 3.2.1.5 licheninase, 3.2.1.6 endo-1,3(4)-beta-glucanase, 3.2.1.7 inulinase, 3.2.1.8 endo-1,4-beta-xylanase, 3.2.1.9 amylopectin-1,6-glucosidase, 3.2.1.10 oligo-1,6-glucosidase, 3.2.1.11 dextranase, 3.2.1.12 cycloheptaglucanase, 3.2.1.13 cyclohexaglucanase, 3.2.1.14 chitinase, 3.2.1.15 polygalacturonase, 3.2.1.16 alginase, 3.2.1.17 lysozyme, 3.2.1.18 exo-alpha-sialidase, 3.2.1.19 heparinase, 3.2.1.20 alpha-glucosidase, 3.2.1.21 beta-glucosidase, 3.2.1.22 alpha-galactosidase, 3.2.1.23 beta-galactosidase, 3.2.1.24 alpha-mannosidase, 3.2.1.25 beta-mannosidase, 3.2.1.26 beta-fructofuranosidase, 3.2.1.27 alpha-1,3-glucosidase, 3.2.1.28 alpha,alpha-trehalase, 3.2.1.29 chitobiase, 3.2.1.30 beta-D-acetylglucosaminidase, 3.2.1.31 beta-glucuronidase, 3.2.1.32 xylan endo-1,3-beta-xylosidase, 3.2.1.33 amylo-alpha-1,6-glucosidase, 3.2.1.34 chondroitinase, 3.2.1.35 hyaluronoglucosaminidase, 3.2.1.36 hyaluronoglucuronidase, 3.2.1.37 xylan 1,4-beta-xylosidase, 3.2.1.38 beta-D-fucosidase, 3.2.1.39 glucan endo-1,3-beta-D-glucosidase, 3.2.1.40 alpha-L-rhamnosidase, 3.2.1.41 pullulanase, 3.2.1.42 GDP-glucosidase, 3.2.1.43 beta-L-rhamnosidase, 3.2.1.44 fucoidanase, 3.2.1.45 glucosylceramidase, 3.2.1.46 galactosylceramidase, 3.2.1.47 galactosylgalactosylglucosylceramidase, 3.2.1.48 sucrose alpha-glucosidase, 3.2.1.49 alpha-N-acetylgalactosaminidase, 3.2.1.50 alpha-N-acetylglucosaminidase, 3.2.1.51 alpha-L-fucosidase, 3.2.1.52 beta-N-acetylhexosaminidase, 3.2.1.53 beta-N-acetylgalactosaminidase, 3.2.1.54 cyclomaltodextrinase, 3.2.1.55 alpha-N-arabinofuranosidase, 3.2.1.56 glucuronosyl-disulfoglucosamine glucuronidase, 3.2.1.57 isopullulanase, 3.2.1.58 glucan 1,3-beta-glucosidase, 3.2.1.59 glucan endo-1,3-alpha-glucosidase, 3.2.1.60 glucan 1,4-alpha-maltotetraohydrolase, 3.2.1.61 mycodextranase, 3.2.1.62 glycosylceramidase, 3.2.1.63 1,2-alpha-L-fucosidase, 3.2.1.64 2,6-beta-fructan 6-levanbiohydrolase, 3.2.1.65 levanase, 3.2.1.66 quercitrinase, 3.2.1.67 galacturan 1,4-alpha-galacturonidase, 3.2.1.68 isoamylase, 3.2.1.69 amylopectin 6-glucanohydrolase, 3.2.1.70 glucan 1,6-alpha-glucosidase, 3.2.1.71 glucan endo-1,2-beta-glucosidase, 3.2.1.72 xylan 1,3-beta-xylosidase, 3.2.1.73 licheninase, 3.2.1.74 glucan 1,4-beta-glucosidase, 3.2.1.75 glucan endo-1,6-beta-glucosidase, 3.2.1.76 L-iduronidase, 3.2.1.77 mannan 1,2-(1,3)-alpha-mannosidase, 3.2.1.78 mannan endo-1,4-beta-mannosidase, 3.2.1.79 alpha-L-arabinofuranoside hydrolase, 3.2.1.80 fructan beta-fructosidase, 3.2.1.81 beta-agarase, 3.2.1.82 exo-poly-alpha-galacturonosidase, 3.2.1.83 kappa-carrageenase, 3.2.1.84 glucan 1,3-alpha-glucosidase, 3.2.1.85 6-phospho-beta-galactosidase, 3.2.1.86 6-phospho-beta-glucosidase, 3.2.1.87 capsular-polysaccharide endo-1,3-alpha-galactosidase, 3.2.1.88 beta-L-arabinosidase, 3.2.1.89 arabinogalactan endo-1,4-beta-galactosidase, 3.2.1.90 arabinogalactan endo-1,3-beta-galactosidase, 3.2.1.91 cellulose 1,4-beta-cellobiosidase, 3.2.1.92 peptidoglycan beta-N-acetylmuramidase, 3.2.1.93 alpha,alpha-phosphotrehalase, 3.2.1.94 glucan 1,6-alpha-isomaltosidase, 3.2.1.95 dextran 1,6-alpha-isomaltotriosidase, 3.2.1.96 mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase, 3.2.1.97 glycopeptide alpha-N-acetylgalactosaminidase, 3.2.1.98 glucan 1,4-alpha-maltohexaosidase, 3.2.1.99 arabinan endo-1,5-alpha-L-arabinosidase, 3.2.1.100 mannan 1,4-mannobiosidase, 3.2.1.101 mannan endo-1,6-alpha-mannosidase, 3.2.1.102 blood-group-substance endo-1,4-beta-galactosidase, 3.2.1.103 keratan-sulfate endo-1,4-beta-galactosidase, 3.2.1.104 steryl-beta-glucosidase, 3.2.1.105 3alpha(S)-strictosidine beta-glucosidase, 3.2.1.106 mannosyl-oligosaccharide glucosidase, 3.2.1.107 protein-glucosylgalactosylhydroxylysine glucosidase, 3.2.1.108 lactase, 3.2.1.109 endogalactosaminidase, 3.2.1.110 mucinaminylserine mucinaminidase, 3.2.1.111 1,3-alpha-L-fucosidase, 3.2.1.112 2-deoxyglucosidase, 3.2.1.113 mannosyl-oligosaccharide 1,2-alpha-mannosidase, 3.2.1.114 mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase, 3.2.1.115 branched-dextran exo-1,2-alpha-glucosidase, 3.2.1.116 glucan 1,4-alpha-maltotriohydrolase, 3.2.1.117 amygdalin beta-glucosidase, 3.2.1.118 prunasin beta-glucosidase, 3.2.1.119 vicianin beta-glucosidase, 3.2.1.120 oligoxyloglucan beta-glycosidase, 3.2.1.121 polymannuronate hydrolase, 3.2.1.122 maltose-6′-phosphate glucosidase, 3.2.1.123 endoglycosylceramidase, 3.2.1.124 3-deoxy-2-octulosonidase, 3.2.1.125 raucaffricine beta-glucosidase, 3.2.1.126 coniferin beta-glucosidase, 3.2.1.127 1,6-alpha-L-fucosidase, 3.2.1.128 glycyrrhizinate beta-glucuronidase, 3.2.1.129 endo-alpha-sialidase, 3.2.1.130 glycoprotein endo-alpha-1,2-mannosidase, 3.2.1.131 xylan alpha-1,2-glucuronosidase, 3.2.1.132 chitosanase, 3.2.1.133 glucan 1,4-alpha-maltohydrolase, 3.2.1.134 difructose-anhydride synthase, 3.2.1.135 neopullulanase, 3.2.1.136 glucuronoarabinoxylan endo-1,4-beta-xylanase, 3.2.1.137 mannan exo-1,2-1,6-alpha-mannosidase, 3.2.1.138 anhydrosialidase, 3.2.1.139 alpha-glucuronidase, 3.2.1.140 lacto-N-biosidase, 3.2.1.141 4-alpha-D-{(1->4)-alpha-D-glucano}trehalose trehalohydrolase, 3.2.1.142 limit dextrinase, 3.2.1.143 poly(ADP-ribose) glycohydrolase, 3.2.1.144 3-deoxyoctulosonase, 3.2.1.145 galactan 1,3-beta-galactosidase, 3.2.1.146 beta-galactofuranosidase, 3.2.1.147 thioglucosidase, 3.2.1.148 ribosylhomocysteinase, 3.2.1.149 beta-primeverosidase, 3.2.1.150 oligoxyloglucan reducing-end-specific cellobiohydrolase, 3.2.1.151 xyloglucan-specific endo-beta-1,4-glucanase, 3.2.1.152 mannosylglycoprotein endo-beta-mannosidase, 3.2.1.153 fructan beta-(2,1)-fructosidase, 3.2.1.154 fructan beta-(2,6)-fructosidase, 3.2.1.155 xyloglucan-specific exo-beta-1,4-glucanase, 3.2.1.156 oligosaccharide reducing-end xylanase, 3.2.1.157 iota-carrageenase 3.2.1.158 alpha-agarase, 3.2.1.159 alpha-neoagaro-oligosaccharide hydrolase, 3.2.1.160 xyloglucan-specific exo-beta-1,4-glucanase, 3.2.1.161 beta-apiosyl-beta-glucosidase, 3.2.1.162 lambda-carrageenase, 3.2.1.163 1,6-alpha-D-mannosidase, 3.2.1.164 galactan endo-1,6-beta-galactosidase, 3.2.1.165 exo-1,4-beta-D-glucosaminidase, or a combination thereof.
Other enzymes that are used in various embodiments of the methods described herein include, by way of non-limiting example, a sulfatase including, e.g., enzymes categorized as 3.1.6.X by BRENDA (the comprehensive Enzyme Information System) including 3.1.6.1 arylsulfatase, 3.1.6.2 steryl-sulfatase, 3.1.6.3 glycosulfatase, 3.1.6.4 N-acetylgalactosamine-6-sulfatase, 3.1.6.5 sinigrin sulfohydrolase; myrosulfatase, 3.1.6.6 choline-sulfatase, 3.1.6.7 cellulose-polysulfatase, 3.1.6.8 cerebroside-sulfatase, 3.1.6.9 chondro-4-sulfatase, 3.1.6.10 chondro-6-sulfatase, 3.1.6.11 disulfoglucosamine-6-sulfatase, 3.1.6.12 N-acetylgalactosamine-4-sulfatase, 3.1.6.13 iduronate-2-sulfatase, 3.1.6.14 N-acetylglucosamine-6-sulfatase, 3.1.6.15 N-sulfoglucosamine-3-sulfatase, 3.1.6.16 monomethyl-sulfatase, 3.1.6.17 D-lactate-2-sulfatase, 3.1.6.18 glucuronate-2-sulfatase, 3.10.1.1 N-sulfoglucosamine sulfohydrolase, or combinations thereof.
Certain enzymes that are used in various embodiments of the methods described herein include, by way of non-limiting example, a deacetylase, e.g., an exo-deacetylase, including, by way of non-limiting example, the alpha-glucosaminide N-acetyltransferase (2.3.1.78) or similar enzymes.
Certain enzymes that are used in various embodiments of the methods described herein include, by way of non-limiting example, a carbohydrate phosphatase including, e.g., 3.1.3.1 alkaline phosphatase, 3.1.3.2 acid phosphatase, 3.1.3.B2 diacylglycerol pyrophosphate phosphatase, 3.1.3.3 phosphoserine phosphatase, 3.1.3.4 phosphatidate phosphatase, 3.1.3.5 5′-nucleotidase, 3.1.3.6 3′-nucleotidase, 3.1.3.7 3′(2′),5′-bisphosphate nucleotidase, 3.1.3.8 3-phytase, 3.1.3.9 glucose-6-phosphatase, 3.1.3.10 glucose-1-phosphatase, 3.1.3.11 fructose-bisphosphatase, 3.1.3.12 trehalose-phosphatase, 3.1.3.13 bisphosphoglycerate phosphatase, 3.1.3.14 methylphosphothioglycerate phosphatase, 3.1.3.15 histidinol-phosphatase, 3.1.3.16 phosphoprotein phosphatase, 3.1.3.17 [phosphorylase]phosphatase, 3.1.3.18 phosphoglycolate phosphatase, 3.1.3.19 glycerol-2-phosphatase, 3.1.3.20 phosphoglycerate phosphatase, 3.1.3.21 glycerol-1-phosphatase, 3.1.3.22 mannitol-1-phosphatase, 3.1.3.23 sugar-phosphatase, 3.1.3.24 sucrose-phosphate phosphatase, 3.1.3.25 inositol-phosphate phosphatase, 3.1.3.26 4-phytase, 3.1.3.27 phosphatidylglycerophosphatase, 3.1.3.28 ADP-phosphoglycerate phosphatase, 3.1.3.29 N-acylneuraminate-9-phosphatase, 3.1.3.30 3′-phosphoadenylylsulfate 3′-phosphatase, 3.1.3.31 nucleotidase, 3.1.3.32 polynucleotide 3′-phosphatase, 3.1.3.33 polynucleotide 5′-phosphatase, 3.1.3.34 deoxynucleotide 3′-phosphatase, 3.1.3.35 thymidylate 5′-phosphatase, 3.1.3.36 phosphoinositide 5-phosphatase, 3.1.3.37 sedoheptulose-bisphosphatase, 3.1.3.38 3-phosphoglycerate phosphatase, 3.1.3.39 streptomycin-6-phosphatase, 3.1.3.40 guanidinodeoxy-scyllo-inositol-4-phosphatase, 3.1.3.41 4-nitrophenylphosphatase, 3.1.3.42 [glycogen-synthase-D]phosphatase, 3.1.3.43 [pyruvate dehydrogenase (acetyl-transferring)]-phosphatase, 3.1.3.44 [acetyl-CoA carboxylase]-phosphatase, 3.1.3.45 3-deoxy-manno-octulosonate-8-phosphatase, 3.1.3.46 fructose-2,6-bisphosphate 2-phosphatase, 3.1.3.47 [hydroxymethylglutaryl-CoA reductase (NADPH)]-phosphatase, 3.1.3.48 protein-tyrosine-phosphatase, 3.1.3.49 [pyruvate kinase]-phosphatase, 3.1.3.50 sorbitol-6-phosphatase, 3.1.3.51 dolichyl-phosphatase, 3.1.3.52 [3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring)]-phosphatase, 3.1.3.53 [myosin-light-chain]phosphatase, 3.1.3.54 fructose-2,6-bisphosphate 6-phosphatase, 3.1.3.55 caldesmon-phosphatase, 3.1.3.56 inositol-polyphosphate 5-phosphatase, 3.1.3.57 inositol-1,4-bisphosphate 1-phosphatase, 3.1.3.58 sugar-terminal-phosphatase, 3.1.3.59 alkylacetylglycerophosphatase, 3.1.3.60 phosphoenolpyruvate phosphatase, 3.1.3.61 inositol-1,4,5-trisphosphate 1-phosphatase, 3.1.3.62 multiple inositol-polyphosphate phosphatase, 3.1.3.632-carboxy-D-arabinitol-1-phosphatase, 3.1.3.64 phosphatidylinositol-3-phosphatase, 3.1.3.65 inositol-1,3-bisphosphate 3-phosphatase, 3.1.3.66 phosphatidylinositol-3,4-bisphosphate 4-phosphatase, 3.1.3.67 phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase, 3.1.3.68 2-deoxyglucose-6-phosphatase, 3.1.3.69 glucosylglycerol 3-phosphatase, 3.1.3.70 mannosyl-3-phosphoglycerate phosphatase, 3.1.3.71 2-phosphosulfolactate phosphatase, 3.1.3.72 5-phytase, 3.1.3.73 alpha-ribazole phosphatase, 3.1.3.74 pyridoxal phosphatase, 3.1.3.75 phosphoethanolamine/phosphocholine phosphatase, 3.1.3.76 lipid-phosphate phosphatase, 3.1.3.77 acireductone synthase, 3.1.3.78 phosphatidylinositol-4,5-bisphosphate 4-phosphatase, or 3.1.3.79 mannosylfructose-phosphate phosphatase, or a combination thereof.
In some embodiments, processes described herein include incubation and digestion with a first enzyme to clear a specific non-reducing end structure, incubation and digestion with a second enzyme. In certain embodiments, this multi-enzyme approach is useful in order to reduce the background. For example, in MPS II treating the sample with an iduronidase and/or glucuronidase to clear all non-sulfated non-reducing end uronic acids (this enzyme will not cleave sulfated iduronic acids) before 2-O sulfatase treatment. This approach will clear all non-sulfated non-reducing end uronic acids so that upon desulfation with the 2-O sulfatase the newly releasable uronic acids will be those that were previously sulfated (and therefore resistant to the action of the iduronidase and/or glucuronidase).
Glycan Residual Compounds:
Glycan residual compounds detected, measured, analyzed, and/or otherwise characterized according to any process described herein include any suitable glycan residue that is liberated from the non-reducing end of a glycan (e.g., a glycan obtained from a biological sample of an individual). In specific instances, glycan residual compounds including, e.g., oligosaccharides, monosaccharides, sulfate, phosphate, sialic acid, acetate, or the like.
Specific glycan residual compounds useful in any process herein are described in Tables 1-4.
In some embodiments, the generated biomarker is a glycan residual compound. In some embodiments, the glycan residual compound is a monosaccharide. In certain embodiments, the glycan residual compound is sulfate, phosphate, acetate, or a combination thereof. In certain embodiments, the glycan residual compound has a molecular weight of less than 2000 g/mol, less than 1500 g/mol, less than 1000 g/mol, less than 500 g/mol, less than 400 g/mol, less than 300 g/mol, less than 260 g/mol, less than 200 g/mol, less than 100 g/mol, or the like (e.g., prior to tagging with any detectable label that may be included in a process described herein).
Disorders:
In certain embodiments, a disorder associated with abnormal glycan accumulation includes a disorder associated therewith is caused by an abnormally functioning glycan degradation enzyme. In various embodiments, the abnormally functioning glycan degradation enzyme functions abnormally as a result of being present in an abnormally low amount, functioning improperly, or a combination thereof. For example, an abnormally functioning glycan degradation enzyme functions abnormally as a result of being present in an amount of less than 50%, less than 40%, less than 30%, less than 20%, less than 10%, or less than 5% than is present in an individual with normal amounts of the glycan degradation enzyme (e.g., an individual in a non-diseased, normal, or wild type state). In further or alternative embodiments, abnormally functioning glycan degradation enzymes are present in a normal amount, but do not function properly in degrading glycans. For example, such enzymes may be have amino acid substitutions in the sequences thereof that reduce or eliminate the glycan degradative properties of the enzyme.
MPS I is a human genetic disease caused by a deficiency in the lysosomal enzyme L-iduronidase. This enzyme is required in the lysosome to degrade glycans that contain iduronic acid. Due to this enzymatic deficiency, glycans with an iduronic acid on the non-reducing end accumulate to high levels (including heparan sulfate and dermatan sulfate). In certain embodiments, using the method described herein, MPS I is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed into a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with water or buffer) to remove free monosaccharides, then treated with an iduronidase (e.g., to liberate a glycan residual compound iduronic acid). In certain embodiments, after incubation, the liberated iduronic acid is isolated, e.g., by washing the free monosaccharide through the defined MW cut off membrane (or other methods). In some of such embodiments, the monosaccharide would be in the flow through. The isolated monosaccharide solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for iduronic acid content by any suitable analytical technique (e.g., HPLC, MS, GC, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS I disease, measure disease severity, or to measure response to therapy.
MPS II is a human genetic disease caused by a deficiency in the lysosomal enzyme 2-sulfatase. This enzyme is required in the lysosome to degrade glycans that contain 2-O sulfated uronic acids. Due to this enzymatic deficiency, glycans with a 2-sulfated uronic acid on the non-reducing end accumulate to high levels (including heparan sulfate and dermatan sulfate). In certain embodiments, using the method described herein, MPS II is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free sulfate), and treated with a 2-sulfatase (e.g., to liberate a glycan residual compound sulfate). In some embodiments, after incubation, the liberated sulfate is optionally isolated by washing the free monosaccharide (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free sulfate is in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for sulfate content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS II disease, measure disease severity, or to measure response to therapy. In other exemplary embodiments, following treatment with a 2-sulfatase, the resulting 2-O desulfated non-reducing end uronic acid residues is optionally liberated with an iduronidase or glucuronidase. In some of such embodiments, the resulting liberated monosaccharide is optionally isolated, e.g., by washing free monosaccharide (e.g., through the defined MW cut off membrane or any other suitable method). In some of such embodiments, free iduronic or glucuronic acid is in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS II disease, measure disease severity, or to measure response to therapy.
MPS IIIA is a human genetic disease caused by a deficiency in the lysosomal enzyme N-sulfatase. This enzyme is required in the lysosome to degrade glycans that contain N-sulfated glucosamine residues. Due to this enzymatic deficiency, glycans with N-sulfated glucosamine residues on the non-reducing end accumulate to high levels (including heparan sulfate). In certain embodiments, using the method described herein, MPS IIIA is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer) to remove free sulfate, and treated with an N-sulfatase. In certain embodiments, after incubation, the liberated sulfate is optionally isolated, e.g., by washing the free monosaccharide (such as through a defined MW cut off membrane or any other suitable method). In some of such embodiments, free sulfate for detection and/or quantitation in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for sulfate content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIIA disease, measure disease severity, or to measure response to therapy. In further or alternative embodiments, following treatment with an N-sulfatase, the resulting N-desulfated non-reducing end glucosamine residues is optionally liberated with a hexosaminidase. In some of such embodiments, liberated monosaccharide is optionally isolated (e.g., by washing the free monosaccharide, such as through the defined MW cut off membrane or any other suitable method). In some of such embodiments, free glucosamine for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIIA disease, measure disease severity, or to measure response to therapy.
As discussed above, in certain embodiments, using the method described herein, MPS IIIA is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer) to remove free monosaccharide, and treated with an N-sulfo glucosaminidase such as a heparin lyase. In some embodiments, liberated sulfated monosaccharide is optionally isolated, e.g., by washing the free monosaccharide (such as through the defined MW cut off membrane or by any other suitable method). In some of such embodiments, free N-sulfated glucosamine for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIIA disease, measure disease severity, or to measure response to therapy.
As discussed above, in certain embodiments, using the method described herein, MPS IIIA is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer) to remove free monosaccharide, and treated with an N-sulfatase. In certain embodiments, the resulting glycan is subsequently treated such that the N-desulfated non-reducing end glucosamine residues is acetylated (e.g., with an N-acetyl transferase) and subsequently liberated with a hexosaminidase. In some of such embodiments, the resulting liberated monosaccharide is optionally isolated, e.g., by washing the free monosaccharide (e.g., through a defined MW cut off membrane or any other suitable methods). In some of such embodiments, free N-acetyl glucosamine for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated composition is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIIA disease, measure disease severity, or to measure response to therapy.
MPS IIIB is a human genetic disease caused by a deficiency in the enzyme N-acetyl glucosaminidase. This enzyme is required in the lysosome to degrade glycans that contain N-acetyl glucosamine residues. Due to this enzymatic deficiency, glycans with a N-acetyl glucosamine residue on the non-reducing end accumulate to high levels (including heparan sulfate). In certain embodiments, using the method described herein, MPS IIIB is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free N-acetyl glucosamine), and treated with a-acetyl glucosaminidase or a heparin lyase (e.g., to liberate a glycan residual compound N-acetyl glucosamine). In some embodiments, after incubation, the liberated N-acetyl glucosamine is optionally isolated by washing the free monosaccharide (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free monosaccharide is in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIIB disease, measure disease severity, or to measure response to therapy.
As discussed above, in certain embodiments, using the method described herein, MPS IIIA is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer) to remove free acetate, and treated with a deacetylase. The liberated acetate is optionally isolated, e.g., by washing the free acetate (such as through the defined MW cut off membrane or any other suitable method). In some of such embodiments, the free acetate for detection and/or quantitation is present the flow through. In some embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for acetate content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIIB disease, measure disease severity, or to measure response to therapy.
MPS IIIC is a human genetic disease caused by a deficiency in the enzyme N-acetyltransferase. This enzyme is required in the lysosome to degrade glycans that contain glucosamine residues. Due to this enzymatic deficiency, glycans with a glucosamine residue on the non-reducing end accumulate to high levels (including heparan sulfate). In certain embodiments, using the method described herein, MPS IIIC is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free glucosamine), and treated with a hexosaminidase or heparin lyase (e.g., to liberate a glycan residual compound glucosamine). In some embodiments, after incubation, the liberated glucosamine is optionally isolated by washing the free glucosamine (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free glucosamine for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIIC disease, measure disease severity, or to measure response to therapy.
As discussed above, in certain embodiments, using the method described herein, MPS IIIC is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free glucosamine and/or N-acetyl glucosamine), and treated with a glucosamine N-acetyltransferase followed by a hexosaminidase (e.g., to liberate a glycan residual compound N-acetyl glucosamine). In some embodiments, after incubation, the liberated N-acetyl glucosamine is optionally isolated by washing the free N-acetyl glucosamine (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free N-acetyl glucosamine for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIIC disease, measure disease severity, or to measure response to therapy.
MPS IIID is a human genetic disease caused by a deficiency in the enzyme glucosamine 6-O sulfatase. This enzyme is required in the lysosome to degrade glycans that contain 6-O-sulfated glucosamine residues. Due to this enzymatic deficiency, glycans with a 6-O-sulfated N-acetyl glucosamine residue on the non-reducing end accumulate to high levels (including heparan sulfate). In certain embodiments, using the method described herein, MPS IIIC is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free sulfate), and treated with a 6-O-sulfatase (e.g., to liberate a glycan residual compound sulfate). In some embodiments, after incubation, the liberated sulfate is optionally isolated by washing the free sulfate (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free sulfate for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for sulfate content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIID disease, measure disease severity, or to measure response to therapy.
As discussed above, in certain embodiments, using the method described herein, MPS IIID is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free sulfate and/or N-acetyl glucosamine), and treated with a 6-O-sulfatase and a hexosaminidase (e.g., to liberate a glycan residual compound N-acetyl glucosamine). In some embodiments, after incubation, the liberated N-acetyl glucosamine is optionally isolated by washing the free N-acetyl glucosamine (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free monosaccharide for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIID disease, measure disease severity, or to measure response to therapy.
As discussed above, in certain embodiments, using the method described herein, MPS IIID is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free sulfate and/or N-acetyl glucosamine 6-O sulfate), and treated with a hexosaminidase or heparin lyase (e.g., to liberate a glycan residual compound N-acetyl glucosamine 6-O sulfate). In some embodiments, after incubation, the liberated N-acetyl glucosamine 6-O sulfate is optionally isolated by washing the free N-acetyl glucosamine 6-O sulfate (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free monosaccharide for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IIID disease, measure disease severity, or to measure response to therapy.
MPS IVA is a human genetic disease caused by a deficiency in the enzyme lysosomal enzyme galactose/N-acetyl galactosamine 6-O sulfatase. This enzyme is required in the lysosome to degrade glycans that contain 6-O-sulfated galactose and 6-O sulfated N-acetyl galactosamine residues. Due to this enzymatic deficiency, glycans with 6-O-sulfated galactose and 6-O sulfated N-acetyl galactosamine residues on the non-reducing end accumulate to high levels (including chondroitin and keratan sulfate). In certain embodiments, using the method described herein, MPS IVA is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free monosaccharide), and treated with a galactose 6-O-sulfatase and/or an N-acetyl galactosamine 6-O sulfatase and a galactosidase and/or hexosaminidase (e.g., to liberate a glycan residual compound Gal and/or GalNAc). In some embodiments, after incubation, the liberated monosaccharide is optionally isolated by washing the free monosaccharide (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free monosaccharide for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IVA disease, measure disease severity, or to measure response to therapy.
As discussed above, in certain embodiments, using the method described herein, MPS IVA is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free sulfate), and treated with a 6-O-sulfatase capable of desulfating 6-O-sulfated galactose and/or 6-O sulfated N-acetyl galactosamine residues (e.g., to liberate a glycan residual compound sulfate). In some embodiments, after incubation, the liberated sulfate is optionally isolated by washing the free sulfate (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free sulfate for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for sulfate content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IVA disease, measure disease severity, or to measure response to therapy.
MPS IVB is a human genetic disease caused by a deficiency in the enzyme lysosomal β-galactosidase. This enzyme is required in the lysosome to degrade glycans that contain galactose residues. Due to this enzymatic deficiency, glycans with β-galactose residues on the non-reducing end accumulate to high levels (including keratan sulfate and other glycans). In certain embodiments, using the method described herein, MPS IVB is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free monosaccharide), and treated with a galactosidase (e.g., to liberate a glycan residual compound Gal). In some embodiments, after incubation, the liberated monosaccharide is optionally isolated by washing the free monosaccharide (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free monosaccharide for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS IVB disease, measure disease severity, or to measure response to therapy.
MPS VI is a human genetic disease caused by a deficiency in the enzyme 4-O sulfatase that desulfates N-acetyl galactosamine. This enzyme is required in the lysosome to degrade glycans that contain 4-O-sulfated N-acetyl galactosamine residues. Due to this enzymatic deficiency, glycans with 4-O-sulfated N-acetyl galactosamine residues on the non-reducing end accumulate to high levels (including chondroitin sulfate). In certain embodiments, using the method described herein, MPS VI is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free sulfate), and treated with a 4-O-sulfatase that can desulfate 4-O-sulfated N-acetyl galactosamine residues (e.g., to liberate a glycan residual compound sulfate). In some embodiments, after incubation, the liberated sulfate is optionally isolated by washing the free sulfate (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free sulfate for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for sulfate content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS VI disease, measure disease severity, or to measure response to therapy.
As discussed above, in certain embodiments, using the method described herein, MPS VI is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free N-acetyl galactosamine), and treated with a 4-O-sulfatase that is capable of desulfating 4-O-sulfated N-acetyl galactosamine residues then treated with a hexosaminidase (e.g., to liberate a glycan residual compound N-acetyl galactosamine). In some embodiments, after incubation, the liberated N-acetyl galactosamine is optionally isolated by washing the free monosaccharide (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free monosaccharide for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS VI disease, measure disease severity, or to measure response to therapy.
MPS VII is a human genetic disease caused by a deficiency in the lysosomal enzyme beta-glucuronidase. This enzyme is required in the lysosome to degrade glycans that contain glucuronic acid residues. Due to this enzymatic deficiency, glycans with glucuronic acid residues on the non-reducing end accumulate to high levels (including chondroitin sulfate, heparan sulfate and others). In certain embodiments, using the method described herein, MPS VII is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free glucuronic acid), and treated with a glucuronidase (e.g., to liberate a glycan residual compound glucuronic acid). In some embodiments, after incubation, the liberated monosaccharide is optionally isolated by washing the free monosaccharide (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free monosaccharide for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for monosaccharide content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect MPS VII disease, measure disease severity, or to measure response to therapy.
Methods described herein can also be used to define the relative presence of different glycan classes.
Fabry Disease is a human genetic disease caused by a deficiency in the lysosomal α-galactosidase. Due to this enzymatic deficiency, glycans with non-reducing end terminal α-galactose residues are abundant. In certain embodiments, using the method described herein, Fabry Disease is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free monosaccharide), and treated with a galactosidase that is capable of liberating a non-reducing end monosaccharide (e.g., to liberate a glycan residual compound). In some embodiments, after incubation, the liberated glycan residual compound is optionally isolated by washing the free glycan residual compound (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free glycan residual compound for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for glycan residual compound content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect Fabry Disease, measure disease severity, or to measure response to therapy.
In some embodiments, as described in Table 1, other enzymes and processes are optionally utilized to diagnose other lysosomal storage diseases (LSDs). As described in the table, the appropriate enzyme(s) can be selected as appropriate for the specific disease.
Oncology—Melanoma and Neuroblastoma Via Sialic Acid
A hallmark of cancer is altered glycosylation. The changes in glycosylation are a reflection of changes in enzymes and factors that regulate the biosynthesis, turnover, presentation, stability, solubility, and degradation of glycans. Many of these changes result in glycans being produced that have altered structures. The methods described here are utilized in various embodiments to evaluate those structural changes (e.g., measure abnormal glycan accumulation) that are present on the non-reducing end of the glycans present in individuals suffering from a cancerous disease.
Some examples of cancerous diseases suitable for diagnosis and/or monitoring therapy according to methods described herein include, by way of non-limiting example, melanoma and neuroblastoma. In some instances, such cancers have alterations in the biosynthesis, turnover, presentation, stability, solubility, or degradation of gangliosides. In some instances, these sialic acid modified glycolipids are detected and/or otherwise characterized or analyzed in a biological sample (e.g., serum) of patients with these tumor types. In some embodiments, the abundance of the heterogeneous population of gangliosides is quantified to measuring sialic acid or other glycan residual released from gangliosides in the blood.
Due to this enzymatic alteration, gangliosides and other glycans are present in the body at high levels. In certain embodiments, using the method described herein, cancer (e.g., melanoma or neuroblastoma) is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free sialic acid), and treated with a sialidase that can liberate sialic acid (e.g., to liberate a glycan residual compound sialic acid). In some embodiments, after incubation, the liberated sialic acid is optionally isolated by washing the free sialic acid (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free sialic acid for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for sialic acid content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect cancer (e.g., melanoma or neuroblastoma) disease, measure disease severity, or to measure response to therapy.
Oncology—Myeloma Via Heparan Sulfate Nonreducing Ends
An example of a human cancer that is diagnosed and/or monitored according to the methods described herein (i.e., by analyzing with such a method the altered degradation of a glycan) is multiple myeloma. In certain instances, multiple myeloma commonly produces heparanase. Heparanase is an endoglycosidase that cleaved heparan sulfate into smaller fragments, exposing novel non-reducing end structures. In certain embodiments described herein, the presence of these novel non-reducing end structures are detected using any method described herein (e.g., by incubating a biological sample with various glycosidases or sulfatases to detect the presence of novel glycan non-reducing ends).
Due to this enzymatic alteration, glycans (including heparan sulfate and others) are present in the body at high levels. In certain embodiments, using the method described herein, cancer (e.g., multiple myeloma) is diagnosed in an individual from a biological sample taken therefrom. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer to remove free monosaccharides and/or sulfate), and treated with a sulfatase, iduronidase, glucuronidase, hexosaminidase, or lyase that is capable of liberating a non-reducing end monosaccharide or sulfate. In some embodiments, after incubation, the liberated glycan residual compound is optionally isolated by washing the free glycan residual compound (e.g., through a defined MW cut off membrane or by any other suitable method). In some of such embodiments, the free glycan residual compound for detection and/or quantitation is present in the flow through. In certain embodiments, the resulting isolated solution is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for glycan residual compound content by any suitable analytical technique (e.g., HPLC, MS, GC, pH detection, or the like with or without chemical or enzymatic derivatization before detection). This method can be used to detect cancer (e.g., multiple myeloma) disease, measure disease severity, or to measure response to therapy.
Oncology—Adenocarcinoma
Adenocarcinoma is associated with changes in glycosylation including increased sialylation and fucosylation. The described method can be used to measure disease by analyzing glycans (total or purified or enriched for specific glycan classes) from a patient for the amount of nonreducing end terminal sialic acid or fucose, by measuring the release of these glycan residuals after treatment with a sialidase or fucosidase.
Other Applications
As described in Tables 1-4, various diseases associated with changes in glycosylation are optionally diagnosed and/or monitored according to methods described herein. Various disorders include, by way of non-limiting example, lysosomal storage disease, cancer, neurological disease (dementia, Alzheimer's, etc), liver disease, bone disease, infectious diseases, and the like.
Provided herein are methods of diagnosing individuals (including, e.g., a disease state or the severity of a disease states) with a lysosomal storage disease (LSD) or methods of monitoring the treatment of a lysosomal storage disease (LSD). Provided in Table 1 are specific embodiments of disease that are optionally diagnosed and/or monitored according to various embodiments described herein. Table 1 also illustrates various non-limiting embodiments of specific enzyme(s) that are optionally utilized to treat a biological sample from an individual suffering from or suspected (e.g., through a pre- or preliminary screening process) of suffering from an LSD. Moreover, Table 1 further illustrates various glycan residual compounds that are liberated in various embodiments described herein, such liberated glycan residual compounds optionally being detected and/or measured in order to diagnose and/or monitor a lysosomal storage disease (LSD).







TABLE 1







Exemplary LSD Uses















Glycan



Non-Reducing End
Primary Releasing
Secondary
Residual


Disease
Structure
Enzyme
Releasing Enzyme
Compound





MPS I
IdoA
iduronidase

IdoA


MPS II
IdoA-2-O sufate
2-sulfatase

Sulfate



and GlcA-2-O



sufate


MPS II
IdoA-2-O sufate
2-sulfatase
Iduronidase and/or
IdoA and/or



and GlcA-2-O

glucuronidase
GlcA



sufate


MPS IIIA
GlcN-N-sulfate
N-sulfatase

Sulfate


MPS IIIA
GlcN-N-sulfate
N-sulfatase
hexosaminidase
GlcN


MPS IIIA
GlcN-N-sulfate
N-sulfatase
Heparin lyase
GlcN


MPS IIIA
GlcN-N-sulfate
N-sulfatase
N-acetyl transferase
GlcNAc





and hexosaminidase


MPS IIIA
GlcN-N-sulfate
Heparin lyase

GlcN-N-sulfate


MPS IIIB
GlcNAc
hexosaminidase

GlcNAc


MPS IIIB
GlcNAc
Deacetylase

acetate


MPS IIIB
GlcNAc
Heparin lyase

GlcNAc


MPS IIIC
GlcNAc-6-O sulfate
6-O sulfatase

Sulfate


MPS IIIC
GlcNAc-6-O sulfate
6-O sulfatase
hexosaminidase
GlcNAc


MPS IIIC
GlcNAc-6-O sulfate
6-O sulfatase
Heparin lyase
GlcNAc


MPS IIIC
GlcNAc-6-O sulfate
Heparin lyase

GlcNAc-6-O






sulfate


MPS IIID
GlcN
hexosaminidase

GlcN


MPS IIID
GlcN
Heparin lyase

GlcN


MPS IIID
GlcN
N-acetyl transferase
hexosaminidase
GlcNAc


MPS IVA
Gal-6-O sulfate and
6-O sulfatase

Sulfate



GalNAc-6-O sulfate


MPS IVA
Gal-6-O sulfate and
galactosidase

Gal-6-O sulfate



GalNAc-6-O sulfate


MPS IVA
Gal-6-O sulfate and
N-acetyl

GalNAc-6-O



GalNAc-6-O sulfate
galactosidase

sulfate


MPS IVA
Gal-6-O sulfate and
hexosaminidase

GalNAc-6-O



GalNAc-6-O sulfate


sulfate


MPS IVA
Gal-6-O sulfate and
6-O sulfatase
galactosidase
Gal



GalNAc-6-O sulfate


MPS IVA
Gal-6-O sulfate and
6-O sulfatase
N-acetyl
GalNAc



GalNAc-6-O sulfate

galactosidase


MPS IVB
Gal
Galactosidase

Gal


MPS VI
GalNAc-4-O sulfate
4-O sulfatase

Sulfate


MPS VI
GalNAc-4-O sulfate
4-O sulfatase
hexosaminidase
GalNAc


MPS VI
GalNAc-4-O sulfate
4-O sulfatase
Chondroitin lyase
GalNAc


MPS VI
GalNAc-4-O sulfate
Chondroitin lyase

GalNAc-4-O






sulfate


MPS VII
GlcA
β-glucuronidase

GlcA


Alpha Mannosidosis
Mannose
Manosidase

Man


Aspartylglucosaminuria
GlcNAc
hexosaminidase

GlcNAc


Fabry
Galactose
galactosidase

Gal


Fucosidosis
Fucose
fucosidase

Fuc


Galactosialidosis
Galactose and/or
Galactosidase

Gal and/or



Sialic acid
and/or sialidase

Sialic acid


Gaucher
glucose
glucosidase

glucose


GM1 gangliosidosis
Beta-Galactose
Beta-Galactosidase

galactose


GM1 gangliosidosis
Beta-Galactose
Beta-Galactosidase
Hexosaminidase
GalNAc


GM2 activator
GalNAc
hexosaminidase

GalNAc


deficiency


Sialidosis
Sialic acid
Sialidase

Sialic acid


Sialidosis
Sialic acid
Alpha 2,3 Sialidase

Sialic acid


Sialidosis
Sialic acid
Alphas 2,6

Sialic acid




Sialidase


Sialidosis
Sialic acid
Alphas 2,8

Sialic acid




Sialidase


Krabbe
Galactose
galactosidase

Galactose


Metachromatic
Sulfated
3-O sulfatase

Sulfate


Leukodystrophy
galactosylceramide


Metachromatic
Sulfated
3-O sulfatase
galactosidase
Galactose


Leukodystrophy
galactosylceramide


Mucolipidosis II
Broad range of
Any listed enzyme

Any



glycans


monosaccharide






or sulfate


Mucolipidosis III
Broad range of
Any listed enzyme

Any



glycans


monosaccharide






or sulfate


Mucolipidosis IV
Broad range of
Any listed enzyme

Any



glycans


monosaccharide






or sulfate


Multiple Sulfatase
Sulfated glycans
sulfatase

sulfate


Deficiency


Multiple Sulfatase
Sulfated glycans
sulfatase
Any glycosidase
monosaccharide


Deficiency


Multiple Sulfatase
Sulfated glycans
Any glycosidase

Sulfated


Deficiency



monosaccharide


Glycogen Storage
glucose
glucosidase

glucose


Disease (Pompe)


Sandhoff
GalNAc
hexosaminidase

GalNAc


Tay-Sachs
GalNAc
hexosaminidase

GalNAc


AB Variant
GalNAc
hexosaminidase

GalNAc


Schindler Disease
Alpha-GalNAc
hexosaminidase

GalNAc


Salla Disease
Sialic acid
none

Sialic Acid


Alpha Mannosidosis
Alpha mannose
mannosidase

Mannose


Beta Mannosidosis
Beta mannose
mannosidase

Mannose


Globoid cell
galactose
galactosidase

galactose


leukodystrophy









Provided herein are methods of diagnosing individuals (including, e.g., a disease state or the severity of a disease states) with a cancerous disease state or methods of monitoring the treatment of a cancer. Provided in Table 2 are specific embodiments of disease that are optionally diagnosed and/or monitored according to various embodiments described herein. Table 2 also illustrates various non-limiting embodiments of specific enzyme(s) that are optionally utilized to treat a biological sample from an individual suffering from or suspected of (e.g., through a pre- or preliminary screening process) suffering from a cancerous disease state. Moreover, Table 2 further illustrates various glycan residual compounds that are liberated in various embodiments described herein, such liberated glycan residual compounds optionally being detected and/or measured in order to diagnose and/or monitor a cancerous disease state.







TABLE 2







Exemplary Oncology Uses














Secondary
Glycan



Non-Reducing

Liberating
Residual


Cancer Type
End Structure
Primary Liberating Enzyme
Enzyme
Compound





Melanoma
Sialic Acid
Sialidase

Sialic acid


Melanoma
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Melanoma
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Melanoma
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Melanoma
GalNAc
Hexosaminidase

GalNAc


Melanoma
GalNAc
Sialidase
Hexosaminidase
GalNAc


Melanoma
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Melanoma
Galactose
galactosidase

Galactose


Melanoma
Galactose
sialidase
galactosidase
Galactose


Melanoma
Fucose
fucosidase

Fucose


Melanoma
Galactose
Galactosidase

Galactose


Melanoma
GlcNAc
hexosaminidase

GlcNAc


Melanoma
Sulfate
Sulfatase

Sulfate


Melanoma
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Melanoma
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Neuroblastoma
Sialic Acid
Sialidase

Sialic acid


Neuroblastoma
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Neuroblastoma
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Neuroblastoma
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Neuroblastoma
GalNAc
Hexosaminidase

GalNAc


Neuroblastoma
GalNAc
Sialidase
Hexosaminidase
GalNAc


Neuroblastoma
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Neuroblastoma
Galactose
galactosidase

Galactose


Neuroblastoma
Galactose
sialidase
galactosidase
Galactose


Neuroblastoma
Fucose
fucosidase

Fucose


Neuroblastoma
Galactose
Galactosidase

Galactose


Neuroblastoma
GlcNAc
hexosaminidase

GlcNAc


Neuroblastoma
Sulfate
Sulfatase

Sulfate


Neuroblastoma
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Neuroblastoma
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Adenocarcinoma
Sialic Acid
Sialidase

Sialic acid


Adenocarcinoma
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Adenocarcinoma
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Adenocarcinoma
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Adenocarcinoma
GalNAc
Hexosaminidase

GalNAc


Adenocarcinoma
GalNAc
Sialidase
Hexosaminidase
GalNAc


Adenocarcinoma
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Adenocarcinoma
Galactose
galactosidase

Galactose


Adenocarcinoma
Galactose
sialidase
galactosidase
Galactose


Adenocarcinoma
Fucose
fucosidase

Fucose


Adenocarcinoma
Galactose
Galactosidase

Galactose


Adenocarcinoma
GlcNAc
hexosaminidase

GlcNAc


Adenocarcinoma
Sulfate
Sulfatase

Sulfate


Adenocarcinoma
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Adenocarcinoma
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Myeloma
Sialic Acid
Sialidase

Sialic acid


Myeloma
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Myeloma
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Myeloma
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Myeloma
GalNAc
Hexosaminidase

GalNAc


Myeloma
GalNAc
Sialidase
Hexosaminidase
GalNAc


Myeloma
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Myeloma
Galactose
galactosidase

Galactose


Myeloma
Galactose
sialidase
galactosidase
Galactose


Myeloma
Fucose
fucosidase

Fucose


Myeloma
Galactose
Galactosidase

Galactose


Myeloma
GlcNAc
hexosaminidase

GlcNAc


Myeloma
Sulfate
Sulfatase

Sulfate


Myeloma
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Myeloma
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Breast
Sialic Acid
Sialidase

Sialic acid


Breast
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Breast
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Breast
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Breast
GalNAc
Hexosaminidase

GalNAc


Breast
GalNAc
Sialidase
Hexosaminidase
GalNAc


Breast
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Breast
Galactose
galactosidase

Galactose


Breast
Galactose
sialidase
galactosidase
Galactose


Breast
Fucose
fucosidase

Fucose


Breast
Galactose
Galactosidase

Galactose


Breast
GlcNAc
hexosaminidase

GlcNAc


Breast
Sulfate
Sulfatase

Sulfate


Breast
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Breast
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Ovarian
Sialic Acid
Sialidase

Sialic acid


Ovarian
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Ovarian
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Ovarian
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Ovarian
GalNAc
Hexosaminidase

GalNAc


Ovarian
GalNAc
Sialidase
Hexosaminidase
GalNAc


Ovarian
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Ovarian
Galactose
galactosidase

Galactose


Ovarian
Galactose
sialidase
galactosidase
Galactose


Ovarian
Fucose
fucosidase

Fucose


Ovarian
Galactose
Galactosidase

Galactose


Ovarian
GlcNAc
hexosaminidase

GlcNAc


Ovarian
Sulfate
Sulfatase

Sulfate


Ovarian
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Ovarian
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Stomach
Sialic Acid
Sialidase

Sialic acid


Stomach
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Stomach
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Stomach
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Stomach
GalNAc
Hexosaminidase

GalNAc


Stomach
GalNAc
Sialidase
Hexosaminidase
GalNAc


Stomach
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Stomach
Galactose
galactosidase

Galactose


Stomach
Galactose
sialidase
galactosidase
Galactose


Stomach
Fucose
fucosidase

Fucose


Stomach
Galactose
Galactosidase

Galactose


Stomach
GlcNAc
hexosaminidase

GlcNAc


Stomach
Sulfate
Sulfatase

Sulfate


Stomach
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Stomach
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Lung
Sialic Acid
Sialidase

Sialic acid


Lung
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Lung
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Lung
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Lung
GalNAc
Hexosaminidase

GalNAc


Lung
GalNAc
Sialidase
Hexosaminidase
GalNAc


Lung
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Lung
Galactose
galactosidase

Galactose


Lung
Galactose
sialidase
galactosidase
Galactose


Lung
Fucose
fucosidase

Fucose


Lung
Galactose
Galactosidase

Galactose


Lung
GlcNAc
hexosaminidase

GlcNAc


Lung
Sulfate
Sulfatase

Sulfate


Lung
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Lung
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Pancreatic
Sialic Acid
Sialidase

Sialic acid


Pancreatic
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Pancreatic
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Pancreatic
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Pancreatic
GalNAc
Hexosaminidase

GalNAc


Pancreatic
GalNAc
Sialidase
Hexosaminidase
GalNAc


Pancreatic
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Pancreatic
Galactose
galactosidase

Galactose


Pancreatic
Galactose
sialidase
galactosidase
Galactose


Pancreatic
Fucose
fucosidase

Fucose


Pancreatic
Galactose
Galactosidase

Galactose


Pancreatic
GlcNAc
hexosaminidase

GlcNAc


Pancreatic
Sulfate
Sulfatase

Sulfate


Pancreatic
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Pancreatic
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Oral
Sialic Acid
Sialidase

Sialic acid


Oral
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Oral
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Oral
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Oral
GalNAc
Hexosaminidase

GalNAc


Oral
GalNAc
Sialidase
Hexosaminidase
GalNAc


Oral
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Oral
Galactose
galactosidase

Galactose


Oral
Galactose
sialidase
galactosidase
Galactose


Oral
Fucose
fucosidase

Fucose


Oral
Galactose
Galactosidase

Galactose


Oral
GlcNAc
hexosaminidase

GlcNAc


Oral
Sulfate
Sulfatase

Sulfate


Oral
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Oral
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Colorectal
Sialic Acid
Sialidase

Sialic acid


Colorectal
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Colorectal
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Colorectal
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Colorectal
GalNAc
Hexosaminidase

GalNAc


Colorectal
GalNAc
Sialidase
Hexosaminidase
GalNAc


Colorectal
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Colorectal
Galactose
galactosidase

Galactose


Colorectal
Galactose
sialidase
galactosidase
Galactose


Colorectal
Fucose
fucosidase

Fucose


Colorectal
Galactose
Galactosidase

Galactose


Colorectal
GlcNAc
hexosaminidase

GlcNAc


Colorectal
Sulfate
Sulfatase

Sulfate


Colorectal
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Colorectal
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Kidney
Sialic Acid
Sialidase

Sialic acid


Kidney
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Kidney
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Kidney
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Kidney
GalNAc
Hexosaminidase

GalNAc


Kidney
GalNAc
Sialidase
Hexosaminidase
GalNAc


Kidney
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Kidney
Galactose
galactosidase

Galactose


Kidney
Galactose
sialidase
galactosidase
Galactose


Kidney
Fucose
fucosidase

Fucose


Kidney
Galactose
Galactosidase

Galactose


Kidney
GlcNAc
hexosaminidase

GlcNAc


Kidney
Sulfate
Sulfatase

Sulfate


Kidney
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Kidney
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Bladder
Sialic Acid
Sialidase

Sialic acid


Bladder
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Bladder
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Bladder
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Bladder
GalNAc
Hexosaminidase

GalNAc


Bladder
GalNAc
Sialidase
Hexosaminidase
GalNAc


Bladder
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Bladder
Galactose
galactosidase

Galactose


Bladder
Galactose
sialidase
galactosidase
Galactose


Bladder
Fucose
fucosidase

Fucose


Bladder
Galactose
Galactosidase

Galactose


Bladder
GlcNAc
hexosaminidase

GlcNAc


Bladder
Sulfate
Sulfatase

Sulfate


Bladder
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Bladder
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Prostate
Sialic Acid
Sialidase

Sialic acid


Prostate
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Prostate
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Prostate
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Prostate
GalNAc
Hexosaminidase

GalNAc


Prostate
GalNAc
Sialidase
Hexosaminidase
GalNAc


Prostate
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Prostate
Galactose
galactosidase

Galactose


Prostate
Galactose
sialidase
galactosidase
Galactose


Prostate
Fucose
fucosidase

Fucose


Prostate
Galactose
Galactosidase

Galactose


Prostate
GlcNAc
hexosaminidase

GlcNAc


Prostate
Sulfate
Sulfatase

Sulfate


Prostate
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Prostate
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Uterine
Sialic Acid
Sialidase

Sialic acid


Uterine
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Uterine
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Uterine
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Uterine
GalNAc
Hexosaminidase

GalNAc


Uterine
GalNAc
Sialidase
Hexosaminidase
GalNAc


Uterine
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Uterine
Galactose
galactosidase

Galactose


Uterine
Galactose
sialidase
galactosidase
Galactose


Uterine
Fucose
fucosidase

Fucose


Uterine
Galactose
Galactosidase

Galactose


Uterine
GlcNAc
hexosaminidase

GlcNAc


Uterine
Sulfate
Sulfatase

Sulfate


Uterine
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Uterine
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Thyroid
Sialic Acid
Sialidase

Sialic acid


Thyroid
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Thyroid
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Thyroid
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Thyroid
GalNAc
Hexosaminidase

GalNAc


Thyroid
GalNAc
Sialidase
Hexosaminidase
GalNAc


Thyroid
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Thyroid
Galactose
galactosidase

Galactose


Thyroid
Galactose
sialidase
galactosidase
Galactose


Thyroid
Fucose
fucosidase

Fucose


Thyroid
Galactose
Galactosidase

Galactose


Thyroid
GlcNAc
hexosaminidase

GlcNAc


Thyroid
Sulfate
Sulfatase

Sulfate


Thyroid
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Thyroid
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Liver
Sialic Acid
Sialidase

Sialic acid


Liver
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Liver
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Liver
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Liver
GalNAc
Hexosaminidase

GalNAc


Liver
GalNAc
Sialidase
Hexosaminidase
GalNAc


Liver
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Liver
Galactose
galactosidase

Galactose


Liver
Galactose
sialidase
galactosidase
Galactose


Liver
Fucose
fucosidase

Fucose


Liver
Galactose
Galactosidase

Galactose


Liver
GlcNAc
hexosaminidase

GlcNAc


Liver
Sulfate
Sulfatase

Sulfate


Liver
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Liver
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Esophagus
Sialic Acid
Sialidase

Sialic acid


Esophagus
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Esophagus
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Esophagus
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Esophagus
GalNAc
Hexosaminidase

GalNAc


Esophagus
GalNAc
Sialidase
Hexosaminidase
GalNAc


Esophagus
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Esophagus
Galactose
galactosidase

Galactose


Esophagus
Galactose
sialidase
galactosidase
Galactose


Esophagus
Fucose
fucosidase

Fucose


Esophagus
Galactose
Galactosidase

Galactose


Esophagus
GlcNAc
hexosaminidase

GlcNAc


Esophagus
Sulfate
Sulfatase

Sulfate


Esophagus
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Esophagus
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Brain
Sialic Acid
Sialidase

Sialic acid


Brain
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Brain
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Brain
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Brain
GalNAc
Hexosaminidase

GalNAc


Brain
GalNAc
Sialidase
Hexosaminidase
GalNAc


Brain
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Brain
Galactose
galactosidase

Galactose


Brain
Galactose
sialidase
galactosidase
Galactose


Brain
Fucose
fucosidase

Fucose


Brain
Galactose
Galactosidase

Galactose


Brain
GlcNAc
hexosaminidase

GlcNAc


Brain
Sulfate
Sulfatase

Sulfate


Brain
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Brain
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Lymphomas
Sialic Acid
Sialidase

Sialic acid


Lymphomas
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Lymphomas
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Lymphomas
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Lymphomas
GalNAc
Hexosaminidase

GalNAc


Lymphomas
GalNAc
Sialidase
Hexosaminidase
GalNAc


Lymphomas
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Lymphomas
Galactose
galactosidase

Galactose


Lymphomas
Galactose
sialidase
galactosidase
Galactose


Lymphomas
Fucose
fucosidase

Fucose


Lymphomas
Galactose
Galactosidase

Galactose


Lymphomas
GlcNAc
hexosaminidase

GlcNAc


Lymphomas
Sulfate
Sulfatase

Sulfate


Lymphomas
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Lymphomas
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA


Leukemias
Sialic Acid
Sialidase

Sialic acid


Leukemias
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Leukemias
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Leukemias
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Leukemias
GalNAc
Hexosaminidase

GalNAc


Leukemias
GalNAc
Sialidase
Hexosaminidase
GalNAc


Leukemias
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Leukemias
Galactose
galactosidase

Galactose


Leukemias
Galactose
sialidase
galactosidase
Galactose


Leukemias
Fucose
fucosidase

Fucose


Leukemias
Galactose
Galactosidase

Galactose


Leukemias
GlcNAc
hexosaminidase

GlcNAc


Leukemias
Sulfate
Sulfatase

Sulfate


Leukemias
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Leukemias
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or



acid

glucouronidase
GlcA









Provided herein are methods of diagnosing individuals (including, e.g., a disease state or the severity of a disease states) with a disease state associated with abnormal glycan accumulation. Provided in Table 3 are specific embodiments of disease that are optionally diagnosed and/or monitored according to various embodiments described herein. Table 3 also illustrates various non-limiting embodiments of specific enzyme(s) that are optionally utilized to treat a biological sample from an individual suffering from or suspected of (e.g., through a pre- or preliminary screening process) suffering from various disease states associated with abnormal glycan accumulation. Moreover, Table 3 further illustrates various glycan residual compounds that are liberated in various embodiments described herein, such liberated glycan residual compounds optionally being detected and/or measured in order to diagnose and/or monitor various disease states.











TABLE 3







Primary

Glycan



Non-Reducing
Liberating
Secondary
Residual


Disease
End Structure
Enzyme
Liberating Enzyme
Compound







Alzheimers
Sialic Acid
Sialidase

Sialic acid


Alzheimers
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Alzheimers
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Alzheimers
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Alzheimers
GalNAc
Hexosaminidase

GalNAc


Alzheimers
GalNAc
Sialidase
Hexosaminidase
GalNAc


Alzheimers
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Alzheimers
Galactose
galactosidase

Galactose


Alzheimers
Galactose
sialidase
galactosidase
Galactose


Alzheimers
Fucose
fucosidase

Fucose


Alzheimers
Galactose
Galactosidase

Galactose


Alzheimers
GlcNAc
hexosaminidase

GlcNAc


Alzheimers
Sulfate
Sulfatase

Sulfate


Alzheimers
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Alzheimers
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucuronidase


Amyotrophic Lateral
Sialic Acid
Sialidase

Sialic acid


Sclerosis


Amyotrophic Lateral
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Sclerosis


Amyotrophic Lateral
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Sclerosis


Amyotrophic Lateral
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Sclerosis


Amyotrophic Lateral
GalNAc
Hexosaminidase

GalNAc


Sclerosis


Amyotrophic Lateral
GalNAc
Sialidase
Hexosaminidase
GalNAc


Sclerosis


Amyotrophic Lateral
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Sclerosis


Amyotrophic Lateral
Galactose
galactosidase

Galactose


Sclerosis


Amyotrophic Lateral
Galactose
sialidase
galactosidase
Galactose


Sclerosis


Amyotrophic Lateral
Fucose
fucosidase

Fucose


Sclerosis


Amyotrophic Lateral
Galactose
Galactosidase

Galactose


Sclerosis


Amyotrophic Lateral
GlcNAc
hexosaminidase

GlcNAc


Sclerosis


Amyotrophic Lateral
Sulfate
Sulfatase

Sulfate


Sclerosis


Amyotrophic Lateral
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or


Sclerosis



GalNAc


Amyotrophic Lateral
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA


Sclerosis
acid

glucuronidase


Cerebral Palsy
Sialic Acid
Sialidase

Sialic acid


Cerebral Palsy
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Cerebral Palsy
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Cerebral Palsy
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Cerebral Palsy
GalNAc
Hexosaminidase

GalNAc


Cerebral Palsy
GalNAc
Sialidase
Hexosaminidase
GalNAc


Cerebral Palsy
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Cerebral Palsy
Galactose
galactosidase

Galactose


Cerebral Palsy
Galactose
sialidase
galactosidase
Galactose


Cerebral Palsy
Fucose
fucosidase

Fucose


Cerebral Palsy
Galactose
Galactosidase

Galactose


Cerebral Palsy
GlcNAc
hexosaminidase

GlcNAc


Cerebral Palsy
Sulfate
Sulfatase

Sulfate


Cerebral Palsy
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Cerebral Palsy
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucuronidase


Schizophrenia
Sialic Acid
Sialidase

Sialic acid


Schizophrenia
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Schizophrenia
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Schizophrenia
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Schizophrenia
GalNAc
Hexosaminidase

GalNAc


Schizophrenia
GalNAc
Sialidase
Hexosaminidase
GalNAc


Schizophrenia
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Schizophrenia
Galactose
galactosidase

Galactose


Schizophrenia
Galactose
sialidase
galactosidase
Galactose


Schizophrenia
Fucose
fucosidase

Fucose


Schizophrenia
Galactose
Galactosidase

Galactose


Schizophrenia
GlcNAc
hexosaminidase

GlcNAc


Schizophrenia
Sulfate
Sulfatase

Sulfate


Schizophrenia
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Schizophrenia
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Bipolar Disorder
Sialic Acid
Sialidase

Sialic acid


Bipolar Disorder
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Bipolar Disorder
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Bipolar Disorder
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Bipolar Disorder
GalNAc
Hexosaminidase

GalNAc


Bipolar Disorder
GalNAc
Sialidase
Hexosaminidase
GalNAc


Bipolar Disorder
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Bipolar Disorder
Galactose
galactosidase

Galactose


Bipolar Disorder
Galactose
sialidase
galactosidase
Galactose


Bipolar Disorder
Fucose
fucosidase

Fucose


Bipolar Disorder
Galactose
Galactosidase

Galactose


Bipolar Disorder
GlcNAc
hexosaminidase

GlcNAc


Bipolar Disorder
Sulfate
Sulfatase

Sulfate


Bipolar Disorder
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Bipolar Disorder
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Depression
Sialic Acid
Sialidase

Sialic acid


Depression
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Depression
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Depression
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Depression
GalNAc
Hexosaminidase

GalNAc


Depression
GalNAc
Sialidase
Hexosaminidase
GalNAc


Depression
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Depression
Galactose
galactosidase

Galactose


Depression
Galactose
sialidase
galactosidase
Galactose


Depression
Fucose
fucosidase

Fucose


Depression
Galactose
Galactosidase

Galactose


Depression
GlcNAc
hexosaminidase

GlcNAc


Depression
Sulfate
Sulfatase

Sulfate


Depression
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Depression
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Epilepsy
Sialic Acid
Sialidase

Sialic acid


Epilepsy
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Epilepsy
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Epilepsy
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Epilepsy
GalNAc
Hexosaminidase

GalNAc


Epilepsy
GalNAc
Sialidase
Hexosaminidase
GalNAc


Epilepsy
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Epilepsy
Galactose
galactosidase

Galactose


Epilepsy
Galactose
sialidase
galactosidase
Galactose


Epilepsy
Fucose
fucosidase

Fucose


Epilepsy
Galactose
Galactosidase

Galactose


Epilepsy
GlcNAc
hexosaminidase

GlcNAc


Epilepsy
Sulfate
Sulfatase

Sulfate


Epilepsy
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Epilepsy
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Migraine
Sialic Acid
Sialidase

Sialic acid


Migraine
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Migraine
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Migraine
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Migraine
GalNAc
Hexosaminidase

GalNAc


Migraine
GalNAc
Sialidase
Hexosaminidase
GalNAc


Migraine
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Migraine
Galactose
galactosidase

Galactose


Migraine
Galactose
sialidase
galactosidase
Galactose


Migraine
Fucose
fucosidase

Fucose


Migraine
Galactose
Galactosidase

Galactose


Migraine
GlcNAc
hexosaminidase

GlcNAc


Migraine
Sulfate
Sulfatase

Sulfate


Migraine
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Migraine
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Multiple Sclerosis
Sialic Acid
Sialidase

Sialic acid


Multiple Sclerosis
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Multiple Sclerosis
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Multiple Sclerosis
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Multiple Sclerosis
GalNAc
Hexosaminidase

GalNAc


Multiple Sclerosis
GalNAc
Sialidase
Hexosaminidase
GalNAc


Multiple Sclerosis
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Multiple Sclerosis
Galactose
galactosidase

Galactose


Multiple Sclerosis
Galactose
sialidase
galactosidase
Galactose


Multiple Sclerosis
Fucose
fucosidase

Fucose


Multiple Sclerosis
Galactose
Galactosidase

Galactose


Multiple Sclerosis
GlcNAc
hexosaminidase

GlcNAc


Multiple Sclerosis
Sulfate
Sulfatase

Sulfate


Multiple Sclerosis
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Multiple Sclerosis
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Parkinson's
Sialic Acid
Sialidase

Sialic acid


Parkinson's
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Parkinson's
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Parkinson's
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Parkinson's
GalNAc
Hexosaminidase

GalNAc


Parkinson's
GalNAc
Sialidase
Hexosaminidase
GalNAc


Parkinson's
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Parkinson's
Galactose
galactosidase

Galactose


Parkinson's
Galactose
sialidase
galactosidase
Galactose


Parkinson's
Fucose
fucosidase

Fucose


Parkinson's
Galactose
Galactosidase

Galactose


Parkinson's
GlcNAc
hexosaminidase

GlcNAc


Parkinson's
Sulfate
Sulfatase

Sulfate


Parkinson's
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Parkinson's
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Rheumatoid Arthritis
Sialic Acid
Sialidase

Sialic acid


Rheumatoid Arthritis
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Rheumatoid Arthritis
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Rheumatoid Arthritis
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Rheumatoid Arthritis
GalNAc
Hexosaminidase

GalNAc


Rheumatoid Arthritis
GalNAc
Sialidase
Hexosaminidase
GalNAc


Rheumatoid Arthritis
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Rheumatoid Arthritis
Galactose
galactosidase

Galactose


Rheumatoid Arthritis
Galactose
sialidase
galactosidase
Galactose


Rheumatoid Arthritis
Fucose
fucosidase

Fucose


Rheumatoid Arthritis
Galactose
Galactosidase

Galactose


Rheumatoid Arthritis
GlcNAc
hexosaminidase

GlcNAc


Rheumatoid Arthritis
Sulfate
Sulfatase

Sulfate


Rheumatoid Arthritis
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Rheumatoid Arthritis
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Psoriatic Arthritis
Sialic Acid
Sialidase

Sialic acid


Psoriatic Arthritis
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Psoriatic Arthritis
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Psoriatic Arthritis
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Psoriatic Arthritis
GalNAc
Hexosaminidase

GalNAc


Psoriatic Arthritis
GalNAc
Sialidase
Hexosaminidase
GalNAc


Psoriatic Arthritis
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Psoriatic Arthritis
Galactose
galactosidase

Galactose


Psoriatic Arthritis
Galactose
sialidase
galactosidase
Galactose


Psoriatic Arthritis
Fucose
fucosidase

Fucose


Psoriatic Arthritis
Galactose
Galactosidase

Galactose


Psoriatic Arthritis
GlcNAc
hexosaminidase

GlcNAc


Psoriatic Arthritis
Sulfate
Sulfatase

Sulfate


Psoriatic Arthritis
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Psoriatic Arthritis
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Asthma
Sialic Acid
Sialidase

Sialic acid


Asthma
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Asthma
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Asthma
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Asthma
GalNAc
Hexosaminidase

GalNAc


Asthma
GalNAc
Sialidase
Hexosaminidase
GalNAc


Asthma
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Asthma
Galactose
galactosidase

Galactose


Asthma
Galactose
sialidase
galactosidase
Galactose


Asthma
Fucose
fucosidase

Fucose


Asthma
Galactose
Galactosidase

Galactose


Asthma
GlcNAc
hexosaminidase

GlcNAc


Asthma
Sulfate
Sulfatase

Sulfate


Asthma
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Asthma
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Chronic Obstructive
Sialic Acid
Sialidase

Sialic acid


Pulmonary Disorder


Chronic Obstructive
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Pulmonary Disorder


Chronic Obstructive
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Pulmonary Disorder


Chronic Obstructive
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Pulmonary Disorder


Chronic Obstructive
GalNAc
Hexosaminidase

GalNAc


Pulmonary Disorder


Chronic Obstructive
GalNAc
Sialidase
Hexosaminidase
GalNAc


Pulmonary Disorder


Chronic Obstructive
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Pulmonary Disorder


Chronic Obstructive
Galactose
galactosidase

Galactose


Pulmonary Disorder


Chronic Obstructive
Galactose
sialidase
galactosidase
Galactose


Pulmonary Disorder


Chronic Obstructive
Fucose
fucosidase

Fucose


Pulmonary Disorder


Chronic Obstructive
Galactose
Galactosidase

Galactose


Pulmonary Disorder


Chronic Obstructive
GlcNAc
hexosaminidase

GlcNAc


Pulmonary Disorder


Chronic Obstructive
Sulfate
Sulfatase

Sulfate


Pulmonary Disorder


Chronic Obstructive
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or


Pulmonary Disorder



GalNAc


Chronic Obstructive
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA


Pulmonary Disorder
acid

glucouronidase


Lupus
Sialic Acid
Sialidase

Sialic acid


Lupus
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Lupus
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Lupus
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Lupus
GalNAc
Hexosaminidase

GalNAc


Lupus
GalNAc
Sialidase
Hexosaminidase
GalNAc


Lupus
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Lupus
Galactose
galactosidase

Galactose


Lupus
Galactose
sialidase
galactosidase
Galactose


Lupus
Fucose
fucosidase

Fucose


Lupus
Galactose
Galactosidase

Galactose


Lupus
GlcNAc
hexosaminidase

GlcNAc


Lupus
Sulfate
Sulfatase

Sulfate


Lupus
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Lupus
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Hepatitis
Sialic Acid
Sialidase

Sialic acid


Hepatitis
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Hepatitis
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Hepatitis
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Hepatitis
GalNAc
Hexosaminidase

GalNAc


Hepatitis
GalNAc
Sialidase
Hexosaminidase
GalNAc


Hepatitis
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Hepatitis
Galactose
galactosidase

Galactose


Hepatitis
Galactose
sialidase
galactosidase
Galactose


Hepatitis
Fucose
fucosidase

Fucose


Hepatitis
Galactose
Galactosidase

Galactose


Hepatitis
GlcNAc
hexosaminidase

GlcNAc


Hepatitis
Sulfate
Sulfatase

Sulfate


Hepatitis
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Hepatitis
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Renal Disease
Sialic Acid
Sialidase

Sialic acid


Renal Disease
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Renal Disease
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Renal Disease
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Renal Disease
GalNAc
Hexosaminidase

GalNAc


Renal Disease
GalNAc
Sialidase
Hexosaminidase
GalNAc


Renal Disease
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Renal Disease
Galactose
galactosidase

Galactose


Renal Disease
Galactose
sialidase
galactosidase
Galactose


Renal Disease
Fucose
fucosidase

Fucose


Renal Disease
Galactose
Galactosidase

Galactose


Renal Disease
GlcNAc
hexosaminidase

GlcNAc


Renal Disease
Sulfate
Sulfatase

Sulfate


Renal Disease
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Renal Disease
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Sickle Cell Disease
Sialic Acid
Sialidase

Sialic acid


Sickle Cell Disease
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Sickle Cell Disease
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Sickle Cell Disease
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Sickle Cell Disease
GalNAc
Hexosaminidase

GalNAc


Sickle Cell Disease
GalNAc
Sialidase
Hexosaminidase
GalNAc


Sickle Cell Disease
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Sickle Cell Disease
Galactose
galactosidase

Galactose


Sickle Cell Disease
Galactose
sialidase
galactosidase
Galactose


Sickle Cell Disease
Fucose
fucosidase

Fucose


Sickle Cell Disease
Galactose
Galactosidase

Galactose


Sickle Cell Disease
GlcNAc
hexosaminidase

GlcNAc


Sickle Cell Disease
Sulfate
Sulfatase

Sulfate


Sickle Cell Disease
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Sickle Cell Disease
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Fibromyalgia
Sialic Acid
Sialidase

Sialic acid


Fibromyalgia
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Fibromyalgia
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Fibromyalgia
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Fibromyalgia
GalNAc
Hexosaminidase

GalNAc


Fibromyalgia
GalNAc
Sialidase
Hexosaminidase
GalNAc


Fibromyalgia
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Fibromyalgia
Galactose
galactosidase

Galactose


Fibromyalgia
Galactose
sialidase
galactosidase
Galactose


Fibromyalgia
Fucose
fucosidase

Fucose


Fibromyalgia
Galactose
Galactosidase

Galactose


Fibromyalgia
GlcNAc
hexosaminidase

GlcNAc


Fibromyalgia
Sulfate
Sulfatase

Sulfate


Fibromyalgia
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Fibromyalgia
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Irritable Bowel Syndrome
Sialic Acid
Sialidase

Sialic acid


Irritable Bowel Syndrome
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Irritable Bowel Syndrome
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Irritable Bowel Syndrome
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Irritable Bowel Syndrome
GalNAc
Hexosaminidase

GalNAc


Irritable Bowel Syndrome
GalNAc
Sialidase
Hexosaminidase
GalNAc


Irritable Bowel Syndrome
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Irritable Bowel Syndrome
Galactose
galactosidase

Galactose


Irritable Bowel Syndrome
Galactose
sialidase
galactosidase
Galactose


Irritable Bowel Syndrome
Fucose
fucosidase

Fucose


Irritable Bowel Syndrome
Galactose
Galactosidase

Galactose


Irritable Bowel Syndrome
GlcNAc
hexosaminidase

GlcNAc


Irritable Bowel Syndrome
Sulfate
Sulfatase

Sulfate


Irritable Bowel Syndrome
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Irritable Bowel Syndrome
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Ulcer
Sialic Acid
Sialidase

Sialic acid


Ulcer
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Ulcer
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Ulcer
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Ulcer
GalNAc
Hexosaminidase

GalNAc


Ulcer
GalNAc
Sialidase
Hexosaminidase
GalNAc


Ulcer
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Ulcer
Galactose
galactosidase

Galactose


Ulcer
Galactose
sialidase
galactosidase
Galactose


Ulcer
Fucose
fucosidase

Fucose


Ulcer
Galactose
Galactosidase

Galactose


Ulcer
GlcNAc
hexosaminidase

GlcNAc


Ulcer
Sulfate
Sulfatase

Sulfate


Ulcer
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Ulcer
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Irritable Bowel Disease
Sialic Acid
Sialidase

Sialic acid


Irritable Bowel Disease
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Irritable Bowel Disease
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Irritable Bowel Disease
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Irritable Bowel Disease
GalNAc
Hexosaminidase

GalNAc


Irritable Bowel Disease
GalNAc
Sialidase
Hexosaminidase
GalNAc


Irritable Bowel Disease
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Irritable Bowel Disease
Galactose
galactosidase

Galactose


Irritable Bowel Disease
Galactose
sialidase
galactosidase
Galactose


Irritable Bowel Disease
Fucose
fucosidase

Fucose


Irritable Bowel Disease
Galactose
Galactosidase

Galactose


Irritable Bowel Disease
GlcNAc
hexosaminidase

GlcNAc


Irritable Bowel Disease
Sulfate
Sulfatase

Sulfate


Irritable Bowel Disease
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Irritable Bowel Disease
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Coronary Artery Disease
Sialic Acid
Sialidase

Sialic acid


Coronary Artery Disease
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Coronary Artery Disease
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Coronary Artery Disease
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Coronary Artery Disease
GalNAc
Hexosaminidase

GalNAc


Coronary Artery Disease
GalNAc
Sialidase
Hexosaminidase
GalNAc


Coronary Artery Disease
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Coronary Artery Disease
Galactose
galactosidase

Galactose


Coronary Artery Disease
Galactose
sialidase
galactosidase
Galactose


Coronary Artery Disease
Fucose
fucosidase

Fucose


Coronary Artery Disease
Galactose
Galactosidase

Galactose


Coronary Artery Disease
GlcNAc
hexosaminidase

GlcNAc


Coronary Artery Disease
Sulfate
Sulfatase

Sulfate


Coronary Artery Disease
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Coronary Artery Disease
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Restenosis
Sialic Acid
Sialidase

Sialic acid


Restenosis
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Restenosis
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Restenosis
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Restenosis
GalNAc
Hexosaminidase

GalNAc


Restenosis
GalNAc
Sialidase
Hexosaminidase
GalNAc


Restenosis
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Restenosis
Galactose
galactosidase

Galactose


Restenosis
Galactose
sialidase
galactosidase
Galactose


Restenosis
Fucose
fucosidase

Fucose


Restenosis
Galactose
Galactosidase

Galactose


Restenosis
GlcNAc
hexosaminidase

GlcNAc


Restenosis
Sulfate
Sulfatase

Sulfate


Restenosis
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Restenosis
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Stroke
Sialic Acid
Sialidase

Sialic acid


Stroke
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Stroke
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Stroke
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Stroke
GalNAc
Hexosaminidase

GalNAc


Stroke
GalNAc
Sialidase
Hexosaminidase
GalNAc


Stroke
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Stroke
Galactose
galactosidase

Galactose


Stroke
Galactose
sialidase
galactosidase
Galactose


Stroke
Fucose
fucosidase

Fucose


Stroke
Galactose
Galactosidase

Galactose


Stroke
GlcNAc
hexosaminidase

GlcNAc


Stroke
Sulfate
Sulfatase

Sulfate


Stroke
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Stroke
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Diabetes
Sialic Acid
Sialidase

Sialic acid


Diabetes
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Diabetes
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Diabetes
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Diabetes
GalNAc
Hexosaminidase

GalNAc


Diabetes
GalNAc
Sialidase
Hexosaminidase
GalNAc


Diabetes
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Diabetes
Galactose
galactosidase

Galactose


Diabetes
Galactose
sialidase
galactosidase
Galactose


Diabetes
Fucose
fucosidase

Fucose


Diabetes
Galactose
Galactosidase

Galactose


Diabetes
GlcNAc
hexosaminidase

GlcNAc


Diabetes
Sulfate
Sulfatase

Sulfate


Diabetes
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Diabetes
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Hyperheparanemia
Sialic Acid
Sialidase

Sialic acid


Hyperheparanemia
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Hyperheparanemia
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Hyperheparanemia
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Hyperheparanemia
GalNAc
Hexosaminidase

GalNAc


Hyperheparanemia
GalNAc
Sialidase
Hexosaminidase
GalNAc


Hyperheparanemia
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Hyperheparanemia
Galactose
galactosidase

Galactose


Hyperheparanemia
Galactose
sialidase
galactosidase
Galactose


Hyperheparanemia
Fucose
fucosidase

Fucose


Hyperheparanemia
Galactose
Galactosidase

Galactose


Hyperheparanemia
GlcNAc
hexosaminidase

GlcNAc


Hyperheparanemia
Sulfate
Sulfatase

Sulfate


Hyperheparanemia
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Hyperheparanemia
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Hypergangliosidemia
Sialic Acid
Sialidase

Sialic acid


Hypergangliosidemia
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Hypergangliosidemia
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Hypergangliosidemia
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Hypergangliosidemia
GalNAc
Hexosaminidase

GalNAc


Hypergangliosidemia
GalNAc
Sialidase
Hexosaminidase
GalNAc


Hypergangliosidemia
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Hypergangliosidemia
Galactose
galactosidase

Galactose


Hypergangliosidemia
Galactose
sialidase
galactosidase
Galactose


Hypergangliosidemia
Fucose
fucosidase

Fucose


Hypergangliosidemia
Galactose
Galactosidase

Galactose


Hypergangliosidemia
GlcNAc
hexosaminidase

GlcNAc


Hypergangliosidemia
Sulfate
Sulfatase

Sulfate


Hypergangliosidemia
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Hypergangliosidemia
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Hypermucinemia
Sialic Acid
Sialidase

Sialic acid


Hypermucinemia
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Hypermucinemia
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Hypermucinemia
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Hypermucinemia
GalNAc
Hexosaminidase

GalNAc


Hypermucinemia
GalNAc
Sialidase
Hexosaminidase
GalNAc


Hypermucinemia
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Hypermucinemia
Galactose
galactosidase

Galactose


Hypermucinemia
Galactose
sialidase
galactosidase
Galactose


Hypermucinemia
Fucose
fucosidase

Fucose


Hypermucinemia
Galactose
Galactosidase

Galactose


Hypermucinemia
GlcNAc
hexosaminidase

GlcNAc


Hypermucinemia
Sulfate
Sulfatase

Sulfate


Hypermucinemia
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Hypermucinemia
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Hyper O-linked
Sialic Acid
Sialidase

Sialic acid


glycanemia


Hyper O-linked
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


glycanemia


Hyper O-linked
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


glycanemia


Hyper O-linked
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


glycanemia


Hyper O-linked
GalNAc
Hexosaminidase

GalNAc


glycanemia


Hyper O-linked
GalNAc
Sialidase
Hexosaminidase
GalNAc


glycanemia


Hyper O-linked
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


glycanemia


Hyper O-linked
Galactose
galactosidase

Galactose


glycanemia


Hyper O-linked
Galactose
sialidase
galactosidase
Galactose


glycanemia


Hyper O-linked
Fucose
fucosidase

Fucose


glycanemia


Hyper O-linked
Galactose
Galactosidase

Galactose


glycanemia


Hyper O-linked
GlcNAc
hexosaminidase

GlcNAc


glycanemia


Hyper O-linked
Sulfate
Sulfatase

Sulfate


glycanemia


Hyper O-linked
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or


glycanemia



GalNAc


Hyper O-linked
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA


glycanemia
acid

glucouronidase


Hyper N-linked glycanemia
Sialic Acid
Sialidase

Sialic acid


Hyper N-linked glycanemia
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Hyper N-linked glycanemia
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Hyper N-linked glycanemia
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Hyper N-linked glycanemia
GalNAc
Hexosaminidase

GalNAc


Hyper N-linked glycanemia
GalNAc
Sialidase
Hexosaminidase
GalNAc


Hyper N-linked glycanemia
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Hyper N-linked glycanemia
Galactose
galactosidase

Galactose


Hyper N-linked glycanemia
Galactose
sialidase
galactosidase
Galactose


Hyper N-linked glycanemia
Fucose
fucosidase

Fucose


Hyper N-linked glycanemia
Galactose
Galactosidase

Galactose


Hyper N-linked glycanemia
GlcNAc
hexosaminidase

GlcNAc


Hyper N-linked glycanemia
Sulfate
Sulfatase

Sulfate


Hyper N-linked glycanemia
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Hyper N-linked glycanemia
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Hypersialylemia
Sialic Acid
Sialidase

Sialic acid


Hypersialylemia
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Hypersialylemia
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Hypersialylemia
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Hypersialylemia
GalNAc
Hexosaminidase

GalNAc


Hypersialylemia
GalNAc
Sialidase
Hexosaminidase
GalNAc


Hypersialylemia
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Hypersialylemia
Galactose
galactosidase

Galactose


Hypersialylemia
Galactose
sialidase
galactosidase
Galactose


Hypersialylemia
Fucose
fucosidase

Fucose


Hypersialylemia
Galactose
Galactosidase

Galactose


Hypersialylemia
GlcNAc
hexosaminidase

GlcNAc


Hypersialylemia
Sulfate
Sulfatase

Sulfate


Hypersialylemia
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Hypersialylemia
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Hyperfucosylemia
Sialic Acid
Sialidase

Sialic acid


Hyperfucosylemia
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Hyperfucosylemia
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Hyperfucosylemia
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Hyperfucosylemia
GalNAc
Hexosaminidase

GalNAc


Hyperfucosylemia
GalNAc
Sialidase
Hexosaminidase
GalNAc


Hyperfucosylemia
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Hyperfucosylemia
Galactose
galactosidase

Galactose


Hyperfucosylemia
Galactose
sialidase
galactosidase
Galactose


Hyperfucosylemia
Fucose
fucosidase

Fucose


Hyperfucosylemia
Galactose
Galactosidase

Galactose


Hyperfucosylemia
GlcNAc
hexosaminidase

GlcNAc


Hyperfucosylemia
Sulfate
Sulfatase

Sulfate


Hyperfucosylemia
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Hyperfucosylemia
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase


Hypersulfogycanemia
Sialic Acid
Sialidase

Sialic acid


Hypersulfogycanemia
Sialic Acid
Alpha 2,8 Sialidase

Sialic acid


Hypersulfogycanemia
Sialic Acid
Alpha 2,3 Sialidase

Sialic acid


Hypersulfogycanemia
Sialic Acid
Alpha 2,6 Sialidase

Sialic acid


Hypersulfogycanemia
GalNAc
Hexosaminidase

GalNAc


Hypersulfogycanemia
GalNAc
Sialidase
Hexosaminidase
GalNAc


Hypersulfogycanemia
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Hypersulfogycanemia
Galactose
galactosidase

Galactose


Hypersulfogycanemia
Galactose
sialidase
galactosidase
Galactose


Hypersulfogycanemia
Fucose
fucosidase

Fucose


Hypersulfogycanemia
Galactose
Galactosidase

Galactose


Hypersulfogycanemia
GlcNAc
hexosaminidase

GlcNAc


Hypersulfogycanemia
Sulfate
Sulfatase

Sulfate


Hypersulfogycanemia
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Hypersulfogycanemia
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase









Provided herein are methods of diagnosing individuals (including, e.g., a disease state or the severity of a disease states) with an infectious disease state associated with abnormal glycan accumulation. Provided in Table 4 are specific embodiments of disease that are optionally diagnosed and/or monitored according to various embodiments described herein. Table 4 also illustrates various non-limiting embodiments of specific enzyme(s) that are optionally utilized to treat a biological sample from an individual suffering from or suspected of (e.g., through a pre- or preliminary screening process) suffering from various infectious disease states associated with abnormal glycan accumulation. Moreover, Table 4 further illustrates various glycan residual compounds that are liberated in various embodiments described herein, such liberated glycan residual compounds optionally being detected and/or measured in order to diagnose and/or monitor various infectious disease states.







TABLE 4







Infectious Diseases













Primary
Secondary
Glycan



Non-Reducing
Liberating
Liberating
Residual


Disease
end structure
Enzyme
Enzyme
Compound





Bacterial Infections
Mannose
Mannosidase

Mannose


Bacterial Infections
Fucose
Fucosidase

Fucose


Bacterial Infections
Glucose
Glucosidase

Glucose


Bacterial Infections
Galactose
Galactosidase

Galactose


Bacterial Infections
GlcNAc
hexosaminidase

GlcNAc


Bacterial Infections
GalNAc
hexosaminidase

GalNAc


Bacterial Infections
Arabinose
Arabinosidase

Arabinose


Bacterial Infections
Xylose
Xylosidase

Xylose


Bacterial Infections
Ribose
Ribosidase

Ribose


Bacterial Infections
Lyxose
Lyxosidase

Lyxose


Bacterial Infections
Talose
Talosidase

Talose


Bacterial Infections
Idose
Idosidase

Idose


Bacterial Infections
Gulose
Gulosidase

Gulose


Bacterial Infections
Altrose
Altrosidase

Altrose


Bacterial Infections
Allose
Allosidase

Allose


Fungal Infections
Mannose
Mannosidase

Mannose


Fungal Infections
Fucose
Fucosidase

Fucose


Fungal Infections
Glucose
Glucosidase

Glucose


Fungal Infections
Galactose
Galactosidase

Galactose


Fungal Infections
GlcNAc
hexosaminidase

GlcNAc


Fungal Infections
GalNAc
hexosaminidase

GalNAc


Fungal Infections
Arabinose
Arabinosidase

Arabinose


Fungal Infections
Xylose
Xylosidase

Xylose


Fungal Infections
Ribose
Ribosidase

Ribose


Fungal Infections
Lyxose
Lyxosidase

Lyxose


Fungal Infections
Talose
Talosidase

Talose


Fungal Infections
Idose
Idosidase

Idose


Fungal Infections
Gulose
Gulosidase

Gulose


Fungal Infections
Altrose
Altrosidase

Altrose


Fungal Infections
Allose
Allosidase

Allose


Viral Infections
Sialic Acid
Sialidase

Sialic acid


Viral Infections
Sialic Acid
Alpha 2,8

Sialic acid




Sialidase


Viral Infections
Sialic Acid
Alpha 2,3

Sialic acid




Sialidase


Viral Infections
Sialic Acid
Alpha 2,6

Sialic acid




Sialidase


Viral Infections
GalNAc
Hexosaminidase

GalNAc


Viral Infections
GalNAc
Sialidase
Hexosaminidase
GalNAc


Viral Infections
Sialic acid
Hexosaminidase
Sialidase
Sialic acid


Viral Infections
Galactose
galactosidase

Galactose


Viral Infections
Galactose
sialidase
galactosidase
Galactose


Viral Infections
Fucose
fucosidase

Fucose


Viral Infections
Galactose
Galactosidase

Galactose


Viral Infections
GlcNAc
hexosaminidase

GlcNAc


Viral Infections
Sulfate
Sulfatase

Sulfate


Viral Infections
Sulfated hexose
Sulfatase
hexosaminidase
GlcNAc or






GalNAc


Viral Infections
Sulfated uronic
Sulfatase
Iduronidase or
IdoA or GlcA



acid

glucouronidase









FIG. 1 illustrates compounds present in a normal biological sample not subject to an enzymatic glycan residual liberation process described herein. FIG. 2 illustrates compounds present in a normal biological subject to an enzymatic glycan residual liberation process described herein. FIG. 3 illustrates compounds present in a biological sample of an individual suffering from a disorder associated with abnormal glycan accumulation not subject to an enzymatic glycan residual liberation process described herein. FIG. 4 illustrates compounds present in a biological sample of an individual suffering from a disorder associated with abnormal glycan accumulation subject to an enzymatic glycan residual liberation process described herein.
Detecting and Measuring:
Glycan residual compounds (including, e.g., oligosaccharides, monosaccharides, sulfate, phosphate, sialic acid, acetate, or the like) described herein are detected and/or measured in processes described herein in any suitable manner. In some embodiments, glycan residual compounds are detected and/or measured in unmodified form. In other embodiments, glycan residual compounds are tagged with a detectable label prior and the labeled glycan residual compound is detected.
In some embodiments, non-labeled compounds are optionally detected and/or measured in any suitable manner, e.g., by pH, by quantitative nuclear magnetic resonance (NMR), or the like.
In various embodiments, a method described herein comprises determining whether the amount of liberated glycan residue is abnormal and such a determination comprises labeling the glycan residue with a detectable label and measuring the amount of labeled glycan residue with an analytical instrument. In specific embodiments, the detectable label is a mass label, a radioisotope label, a fluorescent label, a chromophore label, or affinity label. In some embodiments, the amount of liberated glycan is measured using UV-Vis spectroscopy, IR spectroscopy, mass spectrometry, or a combination thereof.
In the various embodiments of any process or method described herein, any suitable detectable label is optionally utilized. In some embodiments, detectable labels useful in the processes or methods described herein include, by way of non-limiting example, mass labels, antibodies, affinity labels, radioisotope labels, chromophores, fluorescent labels, or the like.
Fluorescent labels suitable for use in various embodiments herein include, by way of non-limiting example, 2-aminopyridine (2-AP), 2-aminobenzoic acid (2-AA), 2-aminobenzamide (2-AB), 2-aminoacridone (AMAC), p-aminobenzoic acid ethyl ester (ABEE), p-aminobenzonitrile (ABN), 2-amino-6-cyanoethylpyridine (ACP), 7-amino-4-methylcoumarine (AMC), 8-aminonaphthalene-1,3,6-trisulfate (ANTS),7-aminonaphthalene-1,3-disulfide (ANDS), and 8-aminopyrene-1,3,6-trisulfate (APTS), or the like. The fluorescent labels can be attached by reductive amination with the fluorescent label and sodium cyanoborohydride or the like.
Mass labels suitable for use in various embodiments herein include, by way of non-limiting example, D-2-anthranilic acid, D-2-aminopyridine, D-methyl iodide, 13C methyl iodide, deuterated-pyridyl-amine, D-biotin or the like. The mass labels can be attached by permethylation or reductive amination by any method that is known to those of skill in the art.
Affinity labels suitable for use in various embodiments herein include, by way of non-limiting example, biotin and derivatives.
Radioisotope labels suitable for use in various embodiments herein include, by way of non-limiting example, sodium borotritide (NaB3H4), 3H, 14C, 32P, 35S, or the like.
Chromophores suitable for use in various embodiments herein include, by way of non-limiting example, 4-amino-1,1′-azobenzene, 4′-N,N-dimethylamino-4-aminoazobenzene, aminoazobenzene, diaminoazobenzene, Direct Red 16, CI Acid Red 57, CI Acid Blue 45, CI Acid Blue 22, CL Mordant Brown 13, CI Direct Orange 75, or the like. The chromophores may be labeled by any method that is known to those of skill in the art, such as reductive amination with the chromophore and sodium cyanoborohydride.
In some embodiments, the detectable label is an antibody. In specific embodiments, the antibody is attached to a detectable compound, such as mass labels, radioisotope labels, chromophores, fluorescent labels, or the like. In some embodiments, antibodies are themselves detected and/or are detectable in various manners, e.g., as a chromophore, a fluorophore, or the like; or with a probe (e.g., using dot blot techniques, immune-detection techniques, or the like).
In certain embodiments, detectable labels are detected and/or quantified according to any process described herein using any technique, particularly any technique suitable for the detectable label utilized. In some embodiments, suitable detection techniques include, by way of non-limiting example, one or more of a mass spectrometer, a nuclear magnetic resonance spectrometer, a UV-Vis spectrometer, an IR spectrometer, a fluorimeter, a phosphorimeter, a radiation spectrometer (e.g., a scintillation counter), a thin layer chromatographic technique, or the like. In certain embodiments, in any process described herein, glycan residual compounds are optionally directly detected using a suitable technique, such as quantitative nuclear magnetic resonance. Quantitative nuclear magnetic resonance is also optionally utilized to quantify and/or detect the presence of a detectable label. In certain embodiments, one or more glycan residual compounds are optionally detected using a suitable liquid chromatography mass spectrometer (LC-MS).
In some embodiments, glycan residual compounds are tagged with an antibody or probe, and are quantified using any suitable method (e.g., dot blot techniques, immune detection techniques (e.g., ELISA), or the like).
Various analytical methods useful for the processes described herein include, by way of non-limiting example, mass spectrometry, chromatography, HPLC, HPLC, TLC, GC, HPAEC-PAD, electrophoresis capillary or gel, or the like. In certain embodiments, wherein a chromatographic technique is utilized, any suitable solvent system is optionally employed. In certain embodiments, a column (e.g., Cosmogel DEAE, Tsk Gel DEAE, Cosmogel QA, Cosmogel CM, Cosmogel SP, or the like) is optionally loaded with an equilibrating solvent (e.g., a buffer or salt solution, such as a potassium acetate solution, sodium chloride solution, sodium acetate solution, ammonium acetate solution, or the like), e.g., with a pH of about 6, 7, or 8. In some embodiments, the buffer or salt solution has a concentration of about 10 mM, 20 mM, 30 mM, 50 mM, 100 mM, 500 mM, 1 M, 2 M, or the like. Any suitable flow rate is used, e.g., 0.5 mL/min, 1 mL, min, 1.5 mL/min, 2 mL/min, or the like. Following equilibration, a linear gradient is optionally utilized. In some embodiments, the linear gradient is run over 1-20 min, 1-10 min, 10-20 min, 1-5 min, 5-10 min, or the like. In certain embodiments, the gradient is a buffer or salt solution, e.g., as described above (e.g., from 0 M to 0.5 M, from 0 M to 3 M, from 0.5 M to 2 M, from 0 M to 2 M, from 1 M to 2 M, from 0 M to 3 M, from 2 M to 0 M, from 3 M to 0 M, or the like). Once the gradient has reached a final concentration, the eluent is optionally held at the final concentration for a suitable period of time (e.g., 1-20 min, 5-10 min, 10-15 min, 1-5 min, 1-10 min, 15-20 min, or the like). After the optional holding of the final concentration, the eluent may be switched to a second solvent or solvent system (e.g., an alcohol, such as methanol, ethanol, or isopropanol, acetonitrile, water, or the like). The switch to the second solvent system may be over a period of time, e.g., 15 seconds, 30 seconds, 45 seconds, 60 seconds, 2 min, 3 min, or the like. The second solvent system is optionally held for a period of time, such as 1 min, 2 min, 3 min, 4 min, 5 min, 6 min, or the like. Following the second solvent system cycle, the column is optionally restored to initial solvent conditions.
Purification:
In certain embodiments, methods described herein comprise purifying a biological sample, e.g., to remove non-glycan compounds from the biological sample. In some embodiments, a biological sample is purified prior to transforming a glycan thereof.
In certain embodiments, a biological sample containing glycans (purified or not) can also be prepared so that all free glycan residual compounds (e.g., monosaccharides) that are naturally present in the biological sample (i.e., as taken from an individual and without being treated) are eliminated from the sample to reduce background signal (for example using dialysis, spin column, gel filtration, etc).
In some embodiments, any process described herein includes a step of purifying a biological sample comprising removing monosaccharides therefrom, removing sulfates therefrom, removing phosphates therefrom, removing acetate therefrom, removing sialic acid therefrom, or a combination thereof. For example, in some embodiments, a biological sample is optionally placed in to a defined MW cut off spin column (retains large molecules when spun), optionally washed (e.g., with 1 or more volumes of water or buffer), and/or the like.
In certain embodiments, purification of biological samples may further or alternatively comprise, e.g., fractionation, purification, enrichment, or the like of glycans contained therein. In some instances, such purification techniques are suitable to isolate and/or separate different glycan classes within the biological sample prior to transformation of one or more of such glycans. In more specific instances, such purification techniques are used to isolate and/or separate different subsets of a single glycan class (such as isolating complex N-linked glycans from hybrid N-linked structures) prior to transformation of one or more of such glycans. In certain embodiments, a biological sample is optionally prepared in such a way to enrich for specific glycan classes. For example, a PHA affinity column is optionally used to isolate a sub-fraction of complex N-linked glycans while a Con A column could be used to enrich in a different subset of N-linked glycans.
In some embodiments, any process described herein comprises purification of a glycan residual compound resulting from a process described herein (e.g., purification of the glycan residual compound prior to analysis thereof). For example, in some embodiments, the glycan residual compound is optionally isolated by any suitable process, such as by washing the free glycan residual compound (e.g., through a defined MW cut off membrane or by any other suitable method). Moreover, in certain embodiments, the resulting isolated glycan residual compound containing composition is optionally dried or otherwise treated to concentrate the sample and subsequently analyzed for glycan residual compound content by any suitable analytical technique.
In some embodiments, the processes described herein comprises further treatment steps of the test and/or control samples. For example, in some embodiments, the samples are homogenized and/or purified. In specific embodiments homogenization is achieved in any suitable manner including, by way of non-limiting example, with a basic solution, sonication, tissue grinding, or other chemical agents. In some embodiments, severity of a disorder is determined if a certain threshold amount is measured (e.g., as compared to a control or controls) or a threshold signal (e.g., on a fluorimeter or other analytical device utilized to detect and/or measure the generated biomarker). Similarly, a carrier of a disorder described herein is, in certain embodiments, determined if a certain threshold amount is measured (e.g., as compared to a control or controls) or a threshold signal (e.g., on a fluorimeter or other analytical device utilized to detect and/or measure the generated biomarker).
In certain embodiments, samples, including test samples and/or control samples, described herein are optionally purified prior to glycan processing (e.g., lyase treatment) and/or characterization. Test samples and/or control samples (i.e., one or more or all of the glycans found therein) are optionally purified using any suitable purification technique. Test samples and/or control samples are optionally purified at any suitable point in a process described herein, including before or after tagging of the glycans founds within the sample. In certain embodiments, purification techniques include centrifugation, electrophoresis, chromatography (e.g., silica gel or alumina column chromatography), gas chromatography, high performance liquid chromatography (HPLC) (e.g., reverse phase HPLC on chiral or achiral columns), thin layer chromatography, ion exchange chromatography, gel chromatography (e.g., gel filtration or permeation or size exclusion chromatography, gel electrophoresis), molecular sieve chromatography, affinity chromatography, size exclusion, filtration (e.g. through a florisil or activated charcoal plug), precipitation, osmosis, recrystallization, fluorous phase purification, distillation, extraction, chromatofocusing, supercritical fluid extraction, preparative flash chromatography (e.g., flash chromatography using a UV-Vis detector and/or a mass spectrometer (e.g., using the Biotage® suite of products) or the like.
In some embodiments, glycans, such as heparan sulfate, are naturally found attached to a core protein (together forming a proteoglycan) or a lipid. In some embodiments, provided herein are purification processes of separating glycan fragments (e.g., heparan sulfate fragments) from proteoglycans or glycolipids prior to processing the glycan for processing and analysis.
Monitoring Therapy
Provided in certain embodiments are methods of treating disorders associated with the abnormal degradation, biosynthesis and/or accumulation of glycans, the methods comprising:

    
    
        a. administering an agent for treating disorders associated with the abnormal degradation, biosynthesis and/or accumulation of glycans (e.g., an anti-LSD agent, an anti-cancer agent, or the like) to an individual in need thereof;
        b. monitoring the accumulation of glycans in the individual using any process described herein for detecting or quantifying the amount of glycan residual compounds (e.g., monosaccharides, sulfate, or the like) present in a lyase digested biological sample (e.g., urine, serum, plasma, or CSF sample) according to any process described herein.
    
    


Provided in further or alternative embodiments are methods of monitoring the treatment of disorders associated with the abnormal degradation, biosynthesis and/or accumulation of glycans, the methods comprising the following steps:

    
    
        a. following administration of an agent for treating a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans (e.g., an anti-LSD agent, an anti-cancer agent, or the like) to an individual in need thereof, generating a biomarker comprising of one or more non-reducing end glycan residual compound (e.g., monosaccharide).
    
    


In some embodiments, the biomarker is a saturated monosaccharide and is generated by treating a population of glycans, in or isolated from a biological sample from the individual, with at least one digesting glycan enzymes, wherein prior to enzyme treatment, the biomarker is not present in abundance in samples from individuals with the disease or condition relative to individuals without the disease or condition. In certain embodiments, monitoring of the accumulation of glycans comprises using an analytical instrument to detect the presence of and/or measure the amount of the biomarker produced and displaying or recording the presence of or a measure of a population of the biomarker; wherein the presence of and/or measure the amount of the biomarker is utilized to monitor the treatment.
In some embodiments, the agent is administered one or more times. In certain embodiments, the agent is administered multiple times. In some embodiments, the agent is administered in a loading dose one or more times (e.g., in a loading dosing schedule) and subsequently administered in a maintenance dose (e.g., in a maintenance dosing schedule, such as three times a day, twice a day, once a day, once every two days, once every three days, once every four days, once a week, or the like). In some embodiments, when glycan (as measure by one or more glycan residual compound(s)) accumulation begins to increase or accelerate, the dose is optionally adjusted (e.g., the maintenance dose is increased, or an additional loading dose or dosing schedule is utilized).
In some embodiments, monitoring the accumulation of glycans comprises repeating the step of: using an analytical instrument to detect the presence of and/or measure the amount of a population of one or more glycan residual compounds present in a transformed biological sample that has been prepared by treating a population of glycans, in or isolated from a biological sample from the individual, with at least one digesting glycan lyase to transform the glycan into the population of the one or more glycan residual compounds. In specific embodiments, the step is repeated at periodic intervals (e.g., every day, every other day, every 2 days, every 3 days, every 4 days, every week, every month, every 3 months, quarterly, every 6 months, yearly, or the like), at regular times following a dose (e.g., 4 hours after a administration of the agent, 6 hours after administration of the agent, 8 hours after administration of the agent, 12 hours after administration of the agent, or the like), prior to administration of the dose (e.g., immediately prior to administration of the agent, 2 hours prior to administration of the agent, or the like), or any other monitoring schedule.
In some embodiments, the monitoring of the accumulation of glycan is conducted over a period of time, e.g., over a week, two weeks, a month, two months, three months, six months, a year, or the like. In some embodiments, the method for quantifying the amount of one or more glycan residual compounds in a lyase digested biological sample (e.g., urine, serum, plasma, or CSF) comprises detecting and/or measuring (e.g., with an analytical device), one or more glycan residual compounds within the lyase digested biological sample from the individual after the biological sample obtained from the individual has been treated with one or more glycan lyases. In certain embodiments, such glycan lyases are suitable for preparing glycan residual compounds from the glycan present in the biological sample obtained from the individual. In certain instances a representative portion of the one or more glycan residual compounds in the transformed biological sample is tagged with any suitable detectable label (e.g., a mass label, a radioisotope label, a fluorescent label, a chromophore label, affinity label, an antibody). In some embodiments, the process comprises displaying or recording such a characterization of the population of glycan residual compounds and/or tagged glycan residual compounds.
In some embodiments, the agent described in a therapy herein includes glycan accumulation inhibitors, agents that promote glycan degradation, agents that activate enzymes that degrade glycans, agents that inhibit biosynthesis of glycans, or the like. In some embodiments, the agent that modulates glycan biosynthesis is an agent that selectively modulates heparan sulfate biosynthesis, an agent that selectively modulates chondroitin sulfate biosynthesis, an agent that selectively modulates dermatan sulfate biosynthesis, an agent that selectively modulates keratan sulfate biosynthesis, an agent that selectively modulates hyaluronan biosynthesis, or a combination thereof. Anti-LSD drugs include, by way of non-limiting example, Imiglucerase (Cerazyme), laronidase (Aldurazyme), idursulfase (Elaprase), galsulfase (Naglazyme), agalsidase beta (Fabrazyme), alglucosidase alfa (Myozyme), agalsidase alfa (Replagal), miglustat (Zavesca).
In some embodiments, one or more of the anti-cancer agents are proapoptotic agents. Examples of anti-cancer agents include, by way of non-limiting example: gossyphol, genasense, polyphenol E, Chlorofusin, all trans-retinoic acid (ATRA), bryostatin, tumor necrosis factor-related apoptosis-inducing ligand (TRAIL), 5-aza-2′-deoxycytidine, all trans retinoic acid, doxorubicin, vincristine, etoposide, gemcitabine, imatinib (Gleevec®), geldanamycin, 17-N-Allylamino-17-Demethoxygeldanamycin (17-AAG), flavopiridol, LY294002, bortezomib, trastuzumab, BAY 11-7082, PKC412, or PD184352, TaxolTM, also referred to as “paclitaxel”, which is a well-known anti-cancer drug which acts by enhancing and stabilizing microtubule formation, and analogs of TaxolTM, such as TaxotereTM. Compounds that have the basic taxane skeleton as a common structure feature, have also been shown to have the ability to arrest cells in the G2-M phases due to stabilized microtubules and may be useful for treating cancer in combination with the compounds described herein.
Further examples of anti-cancer agents include inhibitors of mitogen-activated protein kinase signaling, e.g., U0126, PD98059, PD184352, PD0325901, ARRY-142886, SB239063, SP600125, BAY 43-9006, wortmannin, or LY294002; Syk inhibitors; mTOR inhibitors; and antibodies (e.g., rituxan).
Other anti-cancer agents include Adriamycin, Dactinomycin, Bleomycin, Vinblastine, Cisplatin, acivicin; aclarubicin; acodazole hydrochloride; acronine; adozelesin; aldesleukin; altretamine; ambomycin; ametantrone acetate; aminoglutethimide; amsacrine; anastrozole; anthramycin; asparaginase; asperlin; azacitidine; azetepa; azotomycin; batimastat; benzodepa; bicalutamide; bisantrene hydrochloride; bisnafide dimesylate; bizelesin; bleomycin sulfate; brequinar sodium; bropirimine; busulfan; cactinomycin; calusterone; caracemide; carbetimer; carboplatin; carmustine; carubicin hydrochloride; carzelesin; cedefingol; chlorambucil; cirolemycin; cladribine; crisnatol mesylate; cyclophosphamide; cytarabine; dacarbazine; daunorubicin hydrochloride; decitabine; dexormaplatin; dezaguanine; dezaguanine mesylate; diaziquone; doxorubicin; doxorubicin hydrochloride; droloxifene; droloxifene citrate; dromostanolone propionate; duazomycin; edatrexate; eflornithine hydrochloride; elsamitrucin; enloplatin; enpromate; epipropidine; epirubicin hydrochloride; erbulozole; esorubicin hydrochloride; estramustine; estramustine phosphate sodium; etanidazole; etoposide; etoposide phosphate; etoprine; fadrozole hydrochloride; fazarabine; fenretinide; floxuridine; fludarabine phosphate; fluorouracil; fluorocitabine; fosquidone; fostriecin sodium; gemcitabine; gemcitabine hydrochloride; hydroxyurea; idarubicin hydrochloride; ifosfamide; iimofosine; interleukin I1 (including recombinant interleukin II, or r1L2), interferon alfa-2a; interferon alfa-2b; interferon alfa-n1; interferon alfa-n3; interferon beta-1a; interferon gamma-1b; iproplatin; irinotecan hydrochloride; lanreotide acetate; letrozole; leuprolide acetate; liarozole hydrochloride; lometrexol sodium; lomustine; losoxantrone hydrochloride; masoprocol; maytansine; mechlorethamine hydrochloride; megestrol acetate; melengestrol acetate; melphalan; menogaril; mercaptopurine; methotrexate; methotrexate sodium; metoprine; meturedepa; mitindomide; mitocarcin; mitocromin; mitogillin; mitomalcin; mitomycin; mitosper; mitotane; mitoxantrone hydrochloride; mycophenolic acid; nocodazoie; nogalamycin; ormaplatin; oxisuran; pegaspargase; peliomycin; pentamustine; peplomycin sulfate; perfosfamide; pipobroman; piposulfan; piroxantrone hydrochloride; plicamycin; plomestane; porfimer sodium; porfiromycin; prednimustine; procarbazine hydrochloride; puromycin; puromycin hydrochloride; pyrazofurin; riboprine; rogletimide; safingol; safingol hydrochloride; semustine; simtrazene; sparfosate sodium; sparsomycin; spirogermanium hydrochloride; spiromustine; spiroplatin; streptonigrin; streptozocin; sulofenur; talisomycin; tecogalan sodium; tegafur; teloxantrone hydrochloride; temoporfin; teniposide; teroxirone; testolactone; thiamiprine; thioguanine; thiotepa; tiazofurin; tirapazamine; toremifene citrate; trestolone acetate; triciribine phosphate; trimetrexate; trimetrexate glucuronate; triptorelin; tubulozole hydrochloride; uracil mustard; uredepa; vapreotide; verteporfin; vinblastine sulfate; vincristine sulfate; vindesine; vindesine sulfate; vinepidine sulfate; vinglycinate sulfate; vinleurosine sulfate; vinorelbine tartrate; vinrosidine sulfate; vinzolidine sulfate; vorozole; zeniplatin; zinostatin; zorubicin hydrochloride.
Other anti-cancer agents include: 20-epi-1, 25 dihydroxyvitamin D3; 5-ethynyluracil; abiraterone; aclarubicin; acylfulvene; adecypenol; adozelesin; aldesleukin; ALL-TK antagonists; altretamine; ambamustine; amidox; amifostine; aminolevulinic acid; amrubicin; amsacrine; anagrelide; anastrozole; andrographolide; angiogenesis inhibitors; antagonist D; antagonist G; antarelix; anti-dorsalizing morphogenetic protein-1; antiandrogen, prostatic carcinoma; antiestrogen; antineoplaston; antisense oligonucleotides; aphidicolin glycinate; apoptosis gene modulators; apoptosis regulators; apurinic acid; ara-CDP-DL-PTBA; arginine deaminase; asulacrine; atamestane; atrimustine; axinastatin 1; axinastatin 2; axinastatin 3; azasetron; azatoxin; azatyrosine; baccatin III derivatives; balanol; batimastat; BCR/ABL antagonists; benzochlorins; benzoylstaurosporine; beta lactam derivatives; beta-alethine; betaclamycin B; betulinic acid; bFGF inhibitor; bicalutamide; bisantrene; bisaziridinylspermine; bisnafide; bistratene A; bizelesin; breflate; bropirimine; budotitane; buthionine sulfoximine; calcipotriol; calphostin C; camptothecin derivatives; canarypox IL-2; capecitabine; carboxamide-amino-triazole; carboxyamidotriazole; CaRest M3; CARN 700; cartilage derived inhibitor; carzelesin; casein kinase inhibitors (ICOS); castanospermine; cecropin B; cetrorelix; chlorins; chloroquinoxaline sulfonamide; cicaprost; cis-porphyrin; cladribine; clomifene analogues; clotrimazole; collismycin A; collismycin B; combretastatin A4; combretastatin analogue; conagenin; crambescidin 816; crisnatol; cryptophycin 8; cryptophycin A derivatives; curacin A; cyclopentanthraquinones; cycloplatam; cypemycin; cytarabine ocfosfate; cytolytic factor; cytostatin; dacliximab; decitabine; dehydrodidemnin B; deslorelin; dexamethasone; dexifosfamide; dexrazoxane; dexverapamil; diaziquone; didemnin B; didox; diethylnorspermine; dihydro-5-azacytidine; 9-dioxamycin; diphenyl spiromustine; docosanol; dolasetron; doxifluridine; droloxifene; dronabinol; duocarmycin SA; ebselen; ecomustine; edelfosine; edrecolomab; eflornithine; elemene; emitefur; epirubicin; epristeride; estramustine analogue; estrogen agonists; estrogen antagonists; etanidazole; etoposide phosphate; exemestane; fadrozole; fazarabine; fenretinide; filgrastim; finasteride; flavopiridol; flezelastine; fluasterone; fludarabine; fluorodaunorunicin hydrochloride; forfenimex; formestane; fostriecin; fotemustine; gadolinium texaphyrin; gallium nitrate; galocitabine; ganirelix; gelatinase inhibitors; gemcitabine; glutathione inhibitors; hepsulfam; heregulin; hexamethylene bisacetamide; hypericin; ibandronic acid; idarubicin; idoxifene; idramantone; ilmofosine; ilomastat; imidazoacridones; imiquimod; immunostimulant peptides; insulin-like growth factor-1 receptor inhibitor; interferon agonists; interferons; interleukins; iobenguane; iododoxorubicin; ipomeanol, 4-; iroplact; irsogladine; isobengazole; isohomohalicondrin B; itasetron; jasplakinolide; kahalalide F; lamellarin-N triacetate; lanreotide; leinamycin; lenograstim; lentinan sulfate; leptolstatin; letrozole; leukemia inhibiting factor; leukocyte alpha interferon; leuprolide+estrogen+progesterone; leuprorelin; levamisole; liarozole; linear polyamine analogue; lipophilic disaccharide peptide; lipophilic platinum compounds; lissoclinamide 7; lobaplatin; lombricine; lometrexol; lonidamine; losoxantrone; lovastatin; loxoribine; lurtotecan; lutetium texaphyrin; lysofylline; lytic peptides; maitansine; mannostatin A; marimastat; masoprocol; maspin; matrilysin inhibitors; matrix metalloproteinase inhibitors; menogaril; merbarone; meterelin; methioninase; metoclopramide; MIF inhibitor; mifepristone; miltefosine; mirimostim; mismatched double stranded RNA; mitoguazone; mitolactol; mitomycin analogues; mitonafide; mitotoxin fibroblast growth factor-saporin; mitoxantrone; mofarotene; molgramostim; monoclonal antibody, human chorionic gonadotrophin; monophosphoryl lipid A+myobacterium cell wall sk; mopidamol; multiple drug resistance gene inhibitor; multiple tumor suppressor 1-based therapy; mustard anticancer agent; mycaperoxide B; mycobacterial cell wall extract; myriaporone; N-acetyldinaline; N-substituted benzamides; nafarelin; nagrestip; naloxone+pentazocine; napavin; naphterpin; nartograstim; nedaplatin; nemorubicin; neridronic acid; neutral endopeptidase; nilutamide; nisamycin; nitric oxide modulators; nitroxide antioxidant; nitrullyn; O6-benzylguanine; octreotide; okicenone; oligonucleotides; onapristone; ondansetron; ondansetron; oracin; oral cytokine inducer; ormaplatin; osaterone; oxaliplatin; oxaunomycin; palauamine; palmitoylrhizoxin; pamidronic acid; panaxytriol; panomifene; parabactin; pazelliptine; pegaspargase; peldesine; pentosan polysulfate sodium; pentostatin; pentrozole; perflubron; perfosfamide; perillyl alcohol; phenazinomycin; phenylacetate; phosphatase inhibitors; picibanil; pilocarpine hydrochloride; pirarubicin; piritrexim; placetin A; placetin B; plasminogen activator inhibitor; platinum complex; platinum compounds; platinum-triamine complex; porfimer sodium; porfiromycin; prednisone; propyl bis-acridone; prostaglandin J2; proteasome inhibitors; protein A-based immune modulator; protein kinase C inhibitor; protein kinase C inhibitors, microalgal; protein tyrosine phosphatase inhibitors; purine nucleoside phosphorylase inhibitors; purpurins; pyrazoloacridine; pyridoxylated hemoglobin polyoxyethylerie conjugate; raf antagonists; raltitrexed; ramosetron; ras farnesyl protein transferase inhibitors; ras inhibitors; ras-GAP inhibitor; retelliptine demethylated; rhenium Re 186 etidronate; rhizoxin; ribozymes; RII retinamide; rogletimide; rohitukine; romurtide; roquinimex; rubiginone B1; ruboxyl; safingol; saintopin; SarCNU; sarcophytol A; sargramostim; Sdi 1 mimetics; semustine; senescence derived inhibitor 1; sense oligonucleotides; signal transduction inhibitors; signal transduction modulators; single chain antigen-binding protein; sizofuran; sobuzoxane; sodium borocaptate; sodium phenylacetate; solverol; somatomedin binding protein; sonermin; sparfosic acid; spicamycin D; spiromustine; splenopentin; spongistatin 1; squalamine; stem cell inhibitor; stem-cell division inhibitors; stipiamide; stromelysin inhibitors; sulfinosine; superactive vasoactive intestinal peptide antagonist; suradista; suramin; swainsonine; synthetic glycosaminoglycans; tallimustine; tamoxifen methiodide; tauromustine; tazarotene; tecogalan sodium; tegafur; tellurapyrylium; telomerase inhibitors; temoporfin; temozolomide; teniposide; tetrachlorodecaoxide; tetrazomine; thaliblastine; thiocoraline; thrombopoietin; thrombopoietin mimetic; thymalfasin; thymopoietin receptor agonist; thymotrinan; thyroid stimulating hormone; tin ethyl etiopurpurin; tirapazamine; titanocene bichloride; topsentin; toremifene; totipotent stem cell factor; translation inhibitors; tretinoin; triacetyluridine; triciribine; trimetrexate; triptorelin; tropisetron; turosteride; tyrosine kinase inhibitors; tyrphostins; UBC inhibitors; ubenimex; urogenital sinus-derived growth inhibitory factor; urokinase receptor antagonists; vapreotide; variolin B; vector system, erythrocyte gene therapy; velaresol; veramine; verdins; verteporfin; vinorelbine; vinxaltine; vitaxin; vorozole; zanoterone; zeniplatin; zilascorb; and zinostatin stimalamer.
Yet other anticancer agents that include alkylating agents, antimetabolites, natural products, or hormones, e.g., nitrogen mustards (e.g., mechloroethamine, cyclophosphamide, chlorambucil, etc.), alkyl sulfonates (e.g., busulfan), nitrosoureas (e.g., carmustine, lomusitne, ete.), or triazenes (decarbazine, etc.). Examples of antimetabolites include but are not limited to folic acid analog (e.g., methotrexate), or pyrimidine analogs (e.g., Cytarabine), purine analogs (e.g., mercaptopurine, thioguanine, pentostatin).
Examples of natural products include but are not limited to vinca alkaloids (e.g., vinblastin, vincristine), epipodophyllotoxins (e.g., etoposide), antibiotics (e.g., daunorubicin, doxorubicin, bleomycin), enzymes (e.g., L-asparaginase), or biological response modifiers (e.g., interferon alpha).
Examples of alkylating agents include, but are not limited to, nitrogen mustards (e.g., mechloroethamine, cyclophosphamide, chlorambucil, meiphalan, etc.), ethylenimine and methylmelamines (e.g., hexamethlymelamine, thiotepa), alkyl sulfonates (e.g., busulfan), nitrosoureas (e.g., carmustine, lomusitne, semustine, streptozocin, etc.), or triazenes (decarbazine, ete.). Examples of antimetabolites include, but are not limited to folic acid analog (e.g., methotrexate), or pyrimidine analogs (e.g., fluorouracil, floxouridine, Cytarabine), purine analogs (e.g., mercaptopurine, thioguanine, pentostatin.
Examples of hormones and antagonists include, but are not limited to, adrenocorticosteroids (e.g., prednisone), progestins (e.g., hydroxyprogesterone caproate, megestrol acetate, medroxyprogesterone acetate), estrogens (e.g., diethlystilbestrol, ethinyl estradiol), antiestrogen (e.g., tamoxifen), androgens (e.g., testosterone propionate, fluoxymesterone), antiandrogen (e.g., flutamide), gonadotropin releasing hormone analog (e.g., leuprolide). Other agents that can be used in the methods and compositions described herein for the treatment or prevention of cancer include platinum coordination complexes (e.g., cisplatin, carboblatin), anthracenedione (e.g., mitoxantrone), substituted urea (e.g., hydroxyurea), methyl hydrazine derivative (e.g., procarbazine), adrenocortical suppressant (e.g., mitotane, aminoglutethimide).
In some instances, the detection and/or the quantification of the identity and/or amount of glycan residual compounds present in a biological sample is used to identify and/or diagnose a disorder associated with abnormal degradation, biosynthesis and/or accumulation of glycan in an individual suspected of having such a disorder.
In some instances, the detection and/or the quantification of the identity and/or amount of glycan residual compounds present in the biological sample is used to monitor severity and course of the disease in an individual diagnosed with or suspected of having a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans. In some instances, the detection and/or the quantification of the identity and/or amount of glycan residual compounds present in the biological sample is used to calculate the administered dose of an agent that modulates (e.g., promotes and/or inhibits) glycan biosynthesis and/or degradation.
In certain instances, wherein following administration of a selected dose of a therapeutic agent utilized in a therapeutic method described herein, an individual's condition does not improve, the detection and/or the quantification of the identity and/or amount of glycan residual compounds present in a biological sample provides for a treatment regimen to be modified depending on the severity and course of the disease, disorder or condition, previous therapy, the individual's health status and response to the drugs, and the judgment of the treating physician.
In certain embodiments, monitoring the accumulation of glycans in the individual comprises detecting or quantifying the amount of an glycan residual compounds (or one or more glycan residual compounds) in a sample obtained from the individual (e.g., according to any method described herein) to obtain a first accumulation result (e.g., an initial reading before treatment has begun, or at any other time) and a second accumulation result that is subsequent to obtaining the first result. In some embodiments, the second result is compared to the first result to determine if the treatment is effectively reducing, maintaining, or reducing the rate of increasing the glycan residual compounds levels in a substantially identically obtained sample from the individual being treated. In certain embodiments, depending on the difference between the first and second results, the treatment can be altered, e.g., to increase or decrease the amount of agent administered; to substitute the therapeutic agent with an alternative therapeutic agent; or the like. In certain embodiments, the dose of the therapeutic agent is decreased to a maintenance level (e.g., if the glycan residual compound level has been reduced sufficiently); further monitoring of glycan residual compound levels is optional in such situation, e.g., to ensure that reduced or maintained levels of glycan residual compounds (e.g., monosaccharide(s)) are achieved.
Alternatively, provided herein is a method of detecting response to therapy in an individual or a method of predicting response to therapy in an individual comprising:

    
    
        a. administering an agent for treating a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans to a plurality of cells from an individual in need thereof (e.g., a plurality of fibroblasts, serum, plasma, or CSF cells from a human suffering from a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans, such as an LSD or cancer);
        b. monitoring the accumulation of glycans in the plurality of cells using any process described herein for detecting or quantifying the amount of glycan residual compounds (e.g., monosaccharides, sulfate, sialic acid, phosphate, acetate, or the like) present in a lyase digested biological sample from the plurality of cells according to any process described herein.
    
    


In specific embodiments, the glycan residual compound(s) detected or measured is one or more monosaccharide. It is to be understood that a plurality of cells from an individual includes cells that are directly taken from the individual, and/or cells that are taken from an individual followed by culturing to expand the population thereof.
EXAMPLES
Example 1
To illustrate the methods described herein, we have used human urine sample from normal patients and patients diagnosed with MPS IIIA. MPS IIIA patients have reduced function of the lysosomal enzyme that de-N-sulfates the nonreducing end glucosamine residues present in heparan sulfate. This unique nonreducing end glycan residual (N-sulfated GlcN) can be liberated by treating the glycans with heparin lyases and quantified by fluorescent detection on HPLC. As shown below, glycans prepared in this manner from normal individuals lack N-sulfate GlcN while MPS IIIA patients have a very high level.
Purification: The biological sample (cells, tissue, blood, serum, or the like) is homogenized and solublized in 0.1-1.0 N NaOH (e.g., 0.1 N, 0.2 N, 0.3 N, 0.4 N, 0.5 N, 0.6 N, 0.7 N, 0.8 N, 0.9 N, or 1.0 N) or acetic acid and then neutralized with acetic acid or NaOH. Next a small sample is taken to measure protein content of the sample using standard methods. 0.01-0.5 mg/mL (0.01 mg/mL, 0.07 mg/mL, 0.12 mg/mL, 0.17 mg/mL, 0.22 mg/mL, 0.27 mg/mL, 0.32 mg/mL, 0.37 mg/mL, 0.42 mg/mL, or 0.5 mg/mL) protease (trypsin, chymotrypsin, pepsin, pronase, papain, or elastase) is treated in 0.1-0.5 M (e.g., 0.1 M, 0.16 M, 0.23 M, 0.32 M, 0.39 M, 0.44 M, or 0.5 M) NaCl, 0.01-0.1 M (e.g., 0.01 M, 0.02 M, 0.04 M, 0.06 M, 0.08 M, 0.1 M) NaOAc, at pH 5.5-7.5 (e.g., 5.5, 6.0, 6.5, 7.0, or 7.5) and 25-40 C (e.g., 25 C, 30 C, 35 C, or 40 C) for 1-24 hours (e.g., 1 h, 2 h, 4 h, 6 h, 8 h, 12 h, 18 h, 24 h). The sample is diluted to reduce the ionic strength and loaded onto an ion exchange column in 5-100 mM (e.g., 5 mM, 10 mM, 20 mM, 30 mM, 40 mM, 50 mM, 60 mM, 70 mM, 75 mM, 80 mM, 90 mM, 95 mM, 100 mM) NaOAc pH 5-7 with 0-300 mM NaCl. After washing, the bound glycosaminoglycans are eluted with 5-100 mM NaOAc pH 5-7 (e.g., 5, 5.5, 6, 6.5, 7) with 0.8-3 M (e.g., 0.8 M, 1 M, 1.2 M, 1.4 M, 1.6 M, 1.8 M, 2 M, 2.5 M, or 3 M) NaCl. The eluted glycans are then concentrated and desalted by ethanol precipitation, size exclusion, or other methods. The purified glycans are dried for further analysis.
Liberation of non-reducing end residual: The purified glycans are resuspended in 10-300 mM sodium acetate, tris, phosphate, or other suitable buffer, 0.02-1 mM (e.g., 0.02, 0.04, 0.06, 0.08, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, or 1) calcium acetate, pH 5-8 (e.g., 5, 5.5, 6, 6.5, 7, 7.5, or 8), were digested with heparin lyases I, II, III, I and II, I and III, II and III, or I, II, and III (0.0.15-1.5 milliunits of each in 100-ul reactions, IBEX, Montreal, Canada) at 25 to 37° C. for 1 to 24 hours.
Fluorescent tagging of glycan residual: Dried glycan sample is re-suspended in 2-100 μL 0.003-0.1 M (e.g., 0.003 M, 0.003 M, 0.03 M, 0.06 M, 0.1 M) AB, AA, AMAC, or Bodipy dye and incubated at room temperature for 1-120 minutes (e.g., 1-10 min, 10-15 min, 15-20 min, 20-25 min, 25-30 min, 30-40 min, 40-50 min, 50-60 min, 60-90 min, 90-120 min). Next, the reaction is initiated with 2-100 μL (2 μL, 5 μL, 10 μL, 15 μL, 20 μL, 25 μL, 30 μL, 40 μL, 50 μL, 60 μL, 70 μL, 80 μL, 90 μL, or 100 μL) 1 M NaCNBH4 and the reaction is allowed to proceed at 25-100 C. (e.g., 25 C, 30 C, 35 C, 40 C, 50 C, 60 C, 70 C, 80 C, 90 C, 100 C).
Detection of glycan residual: HPLC separation of tagged saccharides was performed utilizing the following conditions: Column types: 130A BEH particle Phenyl (1.7, 2.5, 3.5, 5, or 10 uM particle size), 130A BEH particle C18 (1.7, 2.5, 3.5, 5, or 10 uM particle size), HSS particle C18 (1.8, 3.5, or 5 uM particle size), or 300A BEH particle C18 (1.7, 3.5, 5, 10 uM particle size) with suitable length and internal diameter.
Buffer Conditions:

    
    
        A=Ammonium Acetate, Sodium Acetate, or Sodium Chloride (e.g., 0 M, 10 mM, 20 mM, 30 mM, 40 mM, 100 mM, 500 mM, 1 M, 2 M) with 0-20% methanol
        B=100% Alcohol, such as methanol, ethanol, or isopropanol
        Initial Conditions: 70-95% A, 0-30% B
        Flow Rate is constant at 0.05-1 ml/min
        Runs a gradient down to 70-90% A, 10-30% B over 5-65 min.
        At 8.1 min runs a gradient to 0-20% A, 80-100% B over 5-20 min.
        5-65 min returns to initial conditions
    
    


FIG. 1 illustrates an HPLC trace of eluted compounds detected in normal patient urine not subject to enzymatic glycan residual liberation (i.e., providing background signals). FIG. 2 illustrates an HPLC trace of eluted compounds detected in normal patient urine subject to enzymatic glycan residual liberation as set forth in Example 1. FIG. 3 illustrates an HPLC trace of eluted compounds detected in MPS IIIA patient urine not subject to enzymatic glycan residual liberation (i.e., providing background signals). FIG. 4 illustrates an HPLC trace of eluted compounds detected in MPS IIIA patient urine subject to enzymatic glycan residual liberation.
Example 2
The processes described in Example 1 are repeated and/or modified for the diseases listed in Tables 1-4 utilizing the enzymes described there in and detecting the glycan residual compounds also described therein.

## Claims

1. A method of diagnosing an individual as having a disease or condition associated with abnormal glycan biosynthesis, degradation, or accumulation, the method comprising:
(a) generating a biomarker comprising of one or more non-reducing end glycan residual compounds, wherein the biomarker is generated by treating a population of glycans, in or isolated from a biological sample from the individual, with at least one digesting glycan enzymes, wherein prior to enzyme treatment, the biomarker is not present in abundance in samples from individuals with the disease or condition relative to individuals without the disease or condition, and
(b) using an analytical instrument to detect the presence of and/or measure the amount of the biomarker produced and displaying or recording the presence of or a measure of a population of the biomarker;

wherein the presence of and/or measure of the amount of the biomarker is utilized to determine the presence, identity, and/or severity of the disease or condition.

2. The method of claim 1, wherein the disease or disorder is caused by an abnormally functioning glycan degradation enzyme and wherein the abnormally functioning glycan degradation enzyme and the digesting glycan enzyme are of the same type.

3. The method of claim 1, wherein the abnormal glycan accumulation comprises the accumulation of abnormal amounts of normal glycans.

4. The method of claim 1, wherein the abnormal glycan accumulation comprises the accumulation of abnormal amounts of abnormal glycans.

5. The method of claim 1, wherein the digesting glycan enzyme is an exo-glycosidase.

6. The method of claim 1 wherein the digesting glycan enzyme is an endo-glycosidase.

7. The method of claim 1, wherein the glycan residual compound is a monosaccharide.

8. The method of claim 1, wherein the glycan residual compound is sulfate, phosphate, acetate, or a combination thereof.

9. The method of claim 1, further comprising purifying a biological sample prior to transforming a glycan thereof.

10. The method of claim 9, wherein the process of purifying a biological sample comprises removing monosaccharides therefrom, removing sulfates therefrom, removing phosphates therefrom, removing acetate therefrom, or a combination thereof.

11. The method of claim 1, wherein transforming a glycan of a biological sample with a digesting glycan enzyme comprises transforming a glycan of a biological sample with a plurality of digesting glycan enzymes.

12. The method of claim 1, wherein the disorder associated with an abnormal glycan accumulation is Lysosomal Storage Disease.

13. The method of claim 1, wherein determining whether the amount of liberated glycan residue is abnormal comprises labeling the glycan residue with a detectable label and measuring the amount of labeled glycan residue with an analytical instrument.

14. The method of claim 13, wherein the detectable label is a mass label, a radioisotope label, a fluorescent label, a chromophore label, or affinity label.

15. The process of claim 1, wherein the biomarker comprising a non-reducing end glycan residual compound is utilized to monitor the treatment of a disorder associated with the abnormal degradation, biosynthesis and/or accumulation of glycans.