WO2018009845A1 - Compositions, devices, and methods of depression sensitivity testing - Google Patents

Compositions, devices, and methods of depression sensitivity testing Download PDF

Info

Publication number
WO2018009845A1
WO2018009845A1 PCT/US2017/041166 US2017041166W WO2018009845A1 WO 2018009845 A1 WO2018009845 A1 WO 2018009845A1 US 2017041166 W US2017041166 W US 2017041166W WO 2018009845 A1 WO2018009845 A1 WO 2018009845A1
Authority
WO
WIPO (PCT)
Prior art keywords
value
determined
food preparations
average discriminatory
depression
Prior art date
Application number
PCT/US2017/041166
Other languages
French (fr)
Inventor
Zackary IRANI-COHEN
Elisabeth LADERMAN
Original Assignee
Biomerica, Inc.
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Biomerica, Inc. filed Critical Biomerica, Inc.
Priority to EP17825010.6A priority Critical patent/EP3497447B1/en
Priority to CN201780042639.8A priority patent/CN109804247A/en
Priority to MX2019000143A priority patent/MX2019000143A/en
Priority to AU2017293937A priority patent/AU2017293937A1/en
Priority to JP2019500576A priority patent/JP6943479B2/en
Priority to CA3069308A priority patent/CA3069308A1/en
Publication of WO2018009845A1 publication Critical patent/WO2018009845A1/en
Priority to US16/242,519 priority patent/US20190242904A1/en

Links

Classifications

    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/53—Immunoassay; Biospecific binding assay; Materials therefor
    • G01N33/564—Immunoassay; Biospecific binding assay; Materials therefor for pre-existing immune complex or autoimmune disease, i.e. systemic lupus erythematosus, rheumatoid arthritis, multiple sclerosis, rheumatoid factors or complement components C1-C9
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2800/00—Detection or diagnosis of diseases
    • G01N2800/02—Nutritional disorders
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2800/00—Detection or diagnosis of diseases
    • G01N2800/30—Psychoses; Psychiatry
    • G01N2800/304—Mood disorders, e.g. bipolar, depression

Definitions

  • the field of the invention is sensitivity testing for food intolerance, and especially as it relates to testing and possible elimination of selected food items as trigger foods for patients diagnosed with or suspected to have Depression.
  • the subject matter described herein provides systems and methods for testing food intolerance in patients diagnosed with or suspected to have Depression.
  • One aspect of the disclosure is a test kit for testing food intolerance in patients diagnosed with or suspected to have Depression.
  • the test kit includes a plurality of distinct food preparations coupled to individually addressable respective solid carriers.
  • the plurality of distinct food preparations have an average discriminatory p-value of ⁇ 0.07 as determined by raw p-value or an average discriminatory p- value of ⁇ 0.10 as determined by FDR multiplicity adjusted p-value.
  • the average discriminatory p-value is determined by a process, which includes comparing assay values of a first patient test cohort that is diagnosed with or suspected of having Depression with assay values of a second patient test cohort that is not diagnosed with or suspected of having Depression.
  • Another aspect of the embodiments described herein includes a method of testing food intolerance in patients diagnosed with or suspected to have Depression.
  • the method includes a step of contacting a food preparation with a bodily fluid of a patient that is diagnosed with or suspected to have Depression.
  • the bodily fluid is associated with gender identification.
  • the step of contacting is performed under conditions that allow IgG from the bodily fluid to bind to at least one component of the food preparation.
  • the method continues with a step of measuring IgG bound to the at least one component of the food preparation to obtain a signal, and then comparing the signal to a gender-stratified reference value for the food preparation using the gender identification to obtain a result.
  • the method also includes a step of updating or generating a report using the result.
  • Another aspect of the embodiments described herein includes a method of generating a test for food intolerance in patients diagnosed with or suspected to have Depression.
  • the method includes a step of obtaining test results for a plurality of distinct food preparations.
  • the test results are based on bodily fluids of patients diagnosed with or suspected to have Depression and bodily fluids of a control group not diagnosed with or not suspected to have Depression.
  • the method also includes a step of stratifying the test results by gender for each of the distinct food preparations. Then the method continues with a step of assigning for a predetermined percentile rank a different cutoff value for male and female patients for each of the distinct food preparations.
  • Still another aspect of the embodiments described herein includes a use of a plurality of distinct food preparations coupled to individually addressable respective solid carriers in a diagnosis of Depression.
  • the plurality of distinct food preparations are selected based on their average discriminatory p-value of ⁇ 0.07 as determined by raw p-value or an average discriminatory p-value of ⁇ 0.10 as determined by FDR multiplicity adjusted p-value.
  • Table 1 shows a list of food items from which food preparations can be prepared.
  • Table 2 shows statistical data of foods ranked according to 2-tailed FDR multiplicity- adjusted p-values.
  • Table 3 shows statistical data of ELISA score by food and gender.
  • Table 4 shows cutoff values of foods for a predetermined percentile rank.
  • Figure 1A illustrates ELISA signal score of male Depression patients and control tested with almond.
  • Figure IB illustrates a distribution of percentage of male Depression subjects exceeding the 90 th and 95 th percentile tested with almond.
  • Figure 1C illustrates a signal distribution in women along with the 95 th percentile cutoff as determined from the female control population tested with almond.
  • Figure ID illustrates a distribution of percentage of female Depression subjects exceeding the 90 th and 95 th percentile tested with almond.
  • Figure 2A illustrates ELISA signal score of male Depression patients and control tested with tomato.
  • Figure 2B illustrates a distribution of percentage of male Depression subjects exceeding the 90 th and 95 th percentile tested with tomato.
  • Figure 2C illustrates a signal distribution in women along with the 95 percentile cutoff as determined from the female control population tested with tomato.
  • Figure 2D illustrates a distribution of percentage of female Depression subjects exceeding the 90 th and 95 th percentile tested with tomato.
  • Figure 3A illustrates ELISA signal score of male Depression patients and control tested with tobacco.
  • Figure 3B illustrates a distribution of percentage of male Depression subjects exceeding the 90 th and 95 th percentile tested with tobacco.
  • Figure 3C illustrates a signal distribution in women along with the 95 th percentile cutoff as determined from the female control population tested with tobacco.
  • Figure 3D illustrates a distribution of percentage of female Depression subjects exceeding the 90 th and 95 th percentile tested with tobacco.
  • Figure 4A illustrates ELISA signal score of male Depression patients and control tested with carrot.
  • Figure 4B illustrates a distribution of percentage of male Depression subjects exceeding the 90 th and 95 th percentile tested with carrot.
  • Figure 4C illustrates a signal distribution in women along with the 95 th percentile cutoff as determined from the female control population tested with carrot.
  • Figure 4D illustrates a distribution of percentage of female Depression subjects exceeding the 90 th and 95 th percentile tested with carrot.
  • Figure 5A illustrates distributions of Depression subjects by number of foods that were identified as trigger foods at the 90 th percentile.
  • Figure 5B illustrates distributions of Depression subjects by number of foods that were identified as trigger foods at the 95 th percentile.
  • Table 5A shows raw data of Depression patients and control with number of positive results based on the 90 th percentile.
  • Table 5B shows raw data of Depression patients and control with number of positive results based on the 95 th percentile.
  • Table 6A shows statistical data summarizing the raw data of Depression patient populations shown in Table 5A.
  • Table 6B shows statistical data summarizing the raw data of Depression patient populations shown in Table 5B.
  • Table 7A shows statistical data summarizing the raw data of control populations shown in Table 5A.
  • Table 7B shows statistical data summarizing the raw data of control populations shown in Table 5B.
  • Table 8A shows statistical data summarizing the raw data of Depression patient populations shown in Table 5 A transformed by logarithmic transformation.
  • Table 8B shows statistical data summarizing the raw data of Depression patient populations shown in Table 5B transformed by logarithmic transformation.
  • Table 9A shows statistical data summarizing the raw data of control populations shown in Table 5 A transformed by logarithmic transformation.
  • Table 9B shows statistical data summarizing the raw data of control populations shown in Table 5B transformed by logarithmic transformation.
  • Table 10A shows statistical data of an independent T-test to compare the geometric mean number of positive foods between the Depression and non-Depression samples based on the 90 th percentile.
  • Table 10B shows statistical data of an independent T-test to compare the geometric mean number of positive foods between the Depression and non-Depression samples based on the 95 th percentile.
  • Table 11A shows statistical data of a Mann-Whitney test to compare the geometric mean number of positive foods between the Depression and non-Depression samples based on the 90 th percentile.
  • Table 11B shows statistical data of a Mann-Whitney test to compare the geometric mean number of positive foods between the Depression and non-Depression samples based on the 95 th percentile.
  • Figure 6A illustrates a box and whisker plot of data shown in Table 5A.
  • Figure 6B illustrates a notched box and whisker plot of data shown in Table 5A.
  • Figure 6C illustrates a box and whisker plot of data shown in Table 5B.
  • Figure 6D illustrates a notched box and whisker plot of data shown in Table 5B.
  • Table 12A shows statistical data of a Receiver Operating Characteristic (ROC) curve analysis of data shown in Tables 5A-11 A.
  • ROC Receiver Operating Characteristic
  • Table 12B shows statistical data of a Receiver Operating Characteristic (ROC) curve analysis of data shown in Tables 5B-1 IB.
  • ROC Receiver Operating Characteristic
  • Figure 7A illustrates the ROC curve corresponding to the statistical data shown in Table 12 A.
  • Figure 7B illustrates the ROC curve corresponding to the statistical data shown in Table 12B.
  • Table 13A shows a statistical data of performance metrics in predicting Depression status among female patients from number of positive foods based on the 90 th percentile.
  • Table 13B shows a statistical data of performance metrics in predicting Depression status among male patients from number of positive foods based on the 90 th percentile.
  • Table 14A shows a statistical data of performance metrics in predicting Depression status among female patients from number of positive foods based on the 95 th percentile.
  • Table 14B shows a statistical data of performance metrics in predicting Depression status among male patients from number of positive foods based on the 95 th percentile.
  • test kits and methods are now presented with substantially higher predictive power in the choice of food items that could be eliminated for reduction of Depression signs and symptoms.
  • inventive subject matter provides many example embodiments of the inventive subject matter. Although each embodiment represents a single combination of inventive elements, the inventive subject matter is considered to include all possible combinations of the disclosed elements. Thus if one embodiment comprises elements A, B, and C, and a second embodiment comprises elements B and D, then the inventive subject matter is also considered to include other remaining combinations of A, B, C, or D, even if not explicitly disclosed.
  • the numbers expressing quantities or ranges, used to describe and claim certain embodiments of the invention are to be understood as being modified in some instances by the term "about.” Accordingly, in some embodiments, the numerical parameters set forth in the written description and attached claims are approximations that can vary depending upon the desired properties sought to be obtained by a particular embodiment. In some embodiments, the numerical parameters should be construed in light of the number of reported significant digits and by applying ordinary rounding techniques. Notwithstanding that the numerical ranges and parameters setting forth the broad scope of some embodiments of the invention are approximations, the numerical values set forth in the specific examples are reported as precisely as practicable.
  • test kit or test panel that is suitable for testing food intolerance in patients where the patient is diagnosed with or suspected to have Depression.
  • test kit or panel will include a plurality of distinct food preparations (e.g., raw or processed extract, preferably aqueous extract with optional co-solvent, which may or may not be filtered) that are coupled to individually addressable respective solid carriers (e.g., in a form of an array or a micro well plate), wherein the distinct food preparations have an average discriminatory p-value of ⁇ 0.07 as determined by raw p-value or an average discriminatory p-value of ⁇ 0.10 as determined by FDR multiplicity adjusted p-value.
  • distinct food preparations e.g., raw or processed extract, preferably aqueous extract with optional co-solvent, which may or may not be filtered
  • respective solid carriers e.g., in a form of an array or a micro well plate
  • food preparations will typically be drawn from foods generally known or suspected to trigger signs or symptoms of Depression. Particularly suitable food preparations may be identified by the experimental procedures outlined below. Thus, it should be appreciated that the food items need not be limited to the items described herein, but that all items are contemplated that can be identified by the methods presented herein. Therefore, exemplary food preparations include at least two, at least four, at least eight, or at least 12 food preparations prepared from foods 1-26 of Table 2. Still further especially contemplated food items and food additives from which food preparations can be prepared are listed in Table 1.
  • Such identified food items will have high discriminatory power and as such have a p-value of ⁇ 0.15, more preferably ⁇ 0.10, and most preferably ⁇ 0.05 as determined by raw p-value, and/or a p-value of ⁇ 0.10, more preferably ⁇ 0.08, and most preferably ⁇ 0.07 as determined by False Discovery Rate (FDR) multiplicity adjusted p-value.
  • FDR False Discovery Rate
  • such identified food preparations will have high discriminatory power and, as such, will have a p-value of ⁇ 0.15, ⁇ 0.10, or even ⁇ 0.05 as determined by raw p- value, and/or a p-value of ⁇ 0.10, ⁇ 0.08, or even ⁇ 0.07 as determined by False Discovery Rate (FDR) multiplicity adjusted p-value.
  • FDR False Discovery Rate
  • the plurality of distinct food preparations has an average discriminatory p-value of ⁇ 0.05 as determined by raw p-value or an average discriminatory p-value of ⁇ 0.08 as determined by FDR multiplicity adjusted p-value, or even more preferably an average discriminatory p-value of ⁇ 0.025 as determined by raw p-value or an average discriminatory p-value of ⁇ 0.07 as determined by FDR multiplicity adjusted p-value.
  • the FDR multiplicity adjusted p-value may be adjusted for at least one of age and gender, and most preferably adjusted for both age and gender.
  • a test kit or panel is stratified for use with a single gender, it is also contemplated that in a test kit or panel at least 50% (and more typically 70% or all) of the plurality of distinct food
  • preparations when adjusted for a single gender, have an average discriminatory p-value of ⁇ 0.07 as determined by raw p-value or an average discriminatory p-value of ⁇ 0.10 as determined by FDR multiplicity adjusted p-value.
  • stratifications e.g., dietary preference, ethnicity, place of residence, genetic predisposition or family history, etc.
  • PHOSITA person of ordinary skill in the art
  • the solid carrier to which the food preparations are coupled may include wells of a multiwell plate, a (e.g., color-coded or magnetic) bead, or an adsorptive film (e.g., nitrocellulose or micro/nanoporous polymeric film), or an electrical sensor, (e.g., a printed copper sensor or microchip).
  • a multiwell plate e.g., color-coded or magnetic
  • an adsorptive film e.g., nitrocellulose or micro/nanoporous polymeric film
  • an electrical sensor e.g., a printed copper sensor or microchip
  • the inventors also contemplate a method of testing food intolerance in patients that are diagnosed with or suspected to have Depression.
  • a food preparation with a bodily fluid (e.g., whole blood, plasma, serum, saliva, or a fecal suspension) of a patient that is diagnosed with or suspected to have Depression, and wherein the bodily fluid is associated with a gender identification.
  • the step of contacting is preferably performed under conditions that allow IgG (or IgE or IgA or IgM) from the bodily fluid to bind to at least one component of the food preparation, and the IgG bound to the component(s) of the food preparation are then
  • the signal is then compared against a gender-stratified reference value (e.g., at least a 90th percentile value) for the food preparation using the gender identification to obtain a result, which is then used to update or generate a report (e.g., written medical report; oral report of results from doctor to patient;
  • a gender-stratified reference value e.g., at least a 90th percentile value
  • such methods will not be limited to a single food preparation, but will employ multiple different food preparations.
  • suitable food preparations can be identified using various methods as described below, however, especially preferred food preparations include foods 1-26, of Table 2, and/or items of Table 1.
  • food preparations are prepared from single food items as crude extracts, or crude filtered extracts
  • food preparations can be prepared from mixtures of a plurality of food items (e.g., a mixture of citrus comprising lemon, orange, and a grapefruit, a mixture of yeast comprising baker' s yeast and brewer' s yeast, a mixture of rice comprising a brown rice and white rice, a mixture of sugars comprising honey, malt, and cane sugar).
  • a mixture of citrus comprising lemon, orange, and a grapefruit
  • yeast comprising baker' s yeast and brewer' s yeast
  • rice comprising a brown rice and white rice
  • sugars comprising honey, malt, and cane sugar
  • the food preparation is immobilized on a solid surface (typically in an addressable manner)
  • a solid surface typically in an addressable manner
  • the step of measuring the IgG or other type of antibody bound to the component of the food preparation is performed via an ELISA test.
  • Exemplary solid surfaces include, but are not limited to, wells in a multiwell plate, such that each food preparation may be isolated to a separate microwell.
  • the food preparation will be coupled to, or immobilized on, the solid surface.
  • the food preparation(s) will be coupled to a molecular tag that allows for binding to human immunoglobulins (e.g., IgG) in solution.
  • the inventors also contemplate a method of generating a test for food intolerance in patients diagnosed with or suspected to have Depression. Because the test is applied to patients already diagnosed with or suspected to have Depression, the authors do not contemplate that the method has a diagnostic purpose. Instead, the method is for identifying triggering food items among already diagnosed or suspected Depression patients.
  • Such test will typically include a step of obtaining one or more test results (e.g., ELISA) for various distinct food preparations, wherein the test results are based on bodily fluids (e.g., blood saliva, fecal suspension) of patients diagnosed with or suspected to have Depression and bodily fluids of a control group not diagnosed with or not suspected to have Depression.
  • test results e.g., ELISA
  • test results are then stratified by gender for each of the distinct food preparations, a different cutoff value for male and female patients for each of the distinct food preparations (e.g., cutoff value for male and female patients has a difference of at least 10% (abs)) is assigned for a predetermined percentile rank (e.g., 90th or 95th percentile).
  • a different cutoff value for male and female patients for each of the distinct food preparations e.g., cutoff value for male and female patients has a difference of at least 10% (abs)
  • a predetermined percentile rank e.g. 90th or 95th percentile
  • the distinct food preparations include at least two (or six, or ten, or 15) food preparations prepared from food items selected from the group consisting of foods 1-26 of Table 2, and/or items of Table 1.
  • the distinct food preparations include a food preparation prepared from a food items other than foods 1-26 of Table 2.
  • the distinct food preparations have an average discriminatory p-value of ⁇ 0.07 (or ⁇ 0.05, or ⁇ 0.025) as determined by raw p-value or an average discriminatory p-value of ⁇ 0.10 (or ⁇ 0.08, or ⁇ 0.07) as determined by FDR multiplicity adjusted p-value.
  • ⁇ 0.07 or ⁇ 0.05, or ⁇ 0.025
  • ⁇ 0.10 or ⁇ 0.08, or ⁇ 0.07
  • the inventors expect that food extracts prepared with specific procedures to generate food extracts provides more superior results in detecting elevated IgG reactivity in Depression patients compared to commercially available food extracts.
  • a three-step procedure of generating food extracts is preferred.
  • the first step is a defatting step.
  • lipids from grains and nuts are extracted by contacting the flour of grains and nuts with a non-polar solvent and collecting residue.
  • the defatted grain or nut flour are extracted by contacting the flour with elevated pH to obtain a mixture and removing the solid from the mixture to obtain the liquid extract.
  • the liquid extract is stabilized by adding an aqueous formulation.
  • the aqueous formulation includes a sugar alcohol, a metal chelating agent, protease inhibitor, mineral salt, and buffer component 20-50 mM of buffer from 4-9 pH. This formulation allowed for long term storage at -70 °C and multiple freeze-thaws without a loss of activity.
  • the first step is an extraction step.
  • extracts from raw, uncooked meats or fish are generated by emulsifying the raw, uncooked meats or fish in an aqueous buffer formulation in a high impact pressure processor.
  • solid materials are removed to obtain liquid extract.
  • the liquid extract is stabilized by adding an aqueous formulation.
  • the aqueous formulation includes a sugar alcohol, a metal chelating agent, protease inhibitor, mineral salt, and buffer component 20-50 mM of buffer from 4-9 pH. This formulation allowed for long term storage at -70 °C and multiple freeze-thaws without a loss of activity.
  • a two step procedure of generating food extract is preferred.
  • the first step is an extraction step.
  • liquid extracts from fruits or vegetables are generated using an extractor (e.g., masticating juicer, etc) to pulverize foods and extract juice.
  • solid materials are removed to obtain liquid extract.
  • the liquid extract is stabilized by adding an aqueous formulation.
  • the aqueous formulation includes a sugar alcohol, a metal chelating agent, protease inhibitor, mineral salt, and buffer component 20-50 mM of buffer from 4-9 pH. This formulation allowed for long term storage at -70 °C and multiple freeze-thaws without a loss of activity.
  • Blocking of ELISA plates To optimize signal to noise, plates will be blocked with a proprietary blocking buffer.
  • the blocking buffer includes 20-50 mM of buffer from 4-9 pH, a protein of animal origin and a short chain alcohol.
  • Other blocking buffers including several commercial preparations, can be attempted but may not provide adequate signal to noise and low assay variability required.
  • ELISA preparation and sample testing Food antigen preparations were immobilized onto respective microtiter wells following the manufacturer' s instructions. For the assays, the food antigens were allowed to react with antibodies present in the patients' serum, and excess serum proteins were removed by a wash step. For detection of IgG antibody binding, enzyme labeled anti-IgG antibody conjugate was allowed to react with antigen-antibody complex. A color was developed by the addition of a substrate that reacts with the coupled enzyme. The color intensity was measured and is directly proportional to the concentration of IgG antibody specific to a particular food antigen.
  • Depression and controls using a permutation test on a two-sample t-test with a relative high number of resamplings e.g., >1,000, more preferably >10,000, even more preferably >50,000.
  • the Satterthwaite approximation can then be used for the denominator degrees of freedom to account for lack of homogeneity of variances, and the 2-tailed permuted p-value will represent the raw p-value for each food.
  • False Discovery Rates (FDR) among the comparisons will be adjusted by any acceptable statistical procedures (e.g., Benjamini-Hochberg, Family-wise Error Rate (FWER), Per Comparison Error Rate (PCER), etc.).
  • Table 2 representative of the outcome of the statistical procedure is provided in Table 2.
  • Table 2 representative of the outcome of the statistical procedure is provided in Table 2.
  • the ranking of foods is according to 2-tailed permutation T-test p-values with FDR adjustment.
  • each food-specific and gender-specific dataset will be bootstrap resampled 1000 times. Within each bootstrap replicate, the 90th and 95th percentiles of the Control signal scores will be determined. Each Depression subject in the bootstrap sample will be compared to the 90th and 95% percentiles to determine whether he/she had a "positive" response. The final 90th and 95th percentile-based cutpoints for each food and gender will be computed as the average 90th and 95th percentiles across the 1000 samples. The number of foods for which each
  • Depression subject will be rated as "positive” was computed by pooling data across foods. Using such method, the inventors will be now able to identify cutoff values for a predetermined percentile rank that in most cases was substantially different as can be taken from Table 4.
  • Figures 1A-1D Typical examples for the gender difference in IgG response in blood with respect to almond is shown in Figures 1A-1D, where Figure 1 A shows the signal distribution in men along with the 95 th percentile cutoff as determined from the male control population.
  • Figure IB shows the distribution of percentage of male Depression subjects exceeding the 90 th and 95 th percentile
  • Figure 1C shows the signal distribution in women along with the 95 th percentile cutoff as determined from the female control population.
  • Figure ID shows the distribution of percentage of female Depression subjects exceeding the 90 th and 95 th percentile.
  • Figures 2A-2D exemplarily depict the differential response to tomato
  • Figures 3A-3D exemplarily depict the differential response to tomato
  • Figures 5A-5B show the distribution of Depression subjects by number of foods that were identified as trigger foods at the 90 th percentile (5 A) and 95 th percentile (5B). Inventors contemplate that regardless of the particular food items, male and female responses will be notably distinct.
  • IgG response results can be used to compare strength of response among given foods
  • the IgG response results of a patient are normalized and indexed to generate unit-less numbers for comparison of relative strength of response to a given food.
  • one or more of a patient' s food specific IgG results e.g., IgG specific to orange and IgG specific to malt
  • IgG specific to orange can be normalized to the patient' s total IgG.
  • the normalized value of the patient' s IgG specific to orange can be 0.1 and the normalized value of the patient's IgG specific to malt can be 0.3.
  • the relative strength of the patient' s response to malt is three times higher compared to orange. Then, the patient' s sensitivity to malt and orange can be indexed as such.
  • one or more of a patient' s food specific IgG results can be normalized to the global mean of that patient's food specific IgG results.
  • the global means of the patient's food specific IgG can be measured by total amount of the patient's food specific IgG.
  • the patient' s specific IgG to shrimp can be normalized to the mean of patient's total food specific IgG (e.g., mean of IgG levels to shrimp, pork, Dungeness crab, chicken, peas, etc.) .
  • the global means of the patient's food specific IgG can be measured by the patient's IgG levels to a specific type of food via multiple tests. If the patient has been tested for his sensitivity to shrimp five times and to pork seven times previously, the patient' s new IgG values to shrimp or to pork are normalized to the mean of five-times test results to shrimp or the mean of seven- times test results to pork.
  • the normalized value of the patient' s IgG specific to shrimp can be 6.0 and the normalized value of the patient's IgG specific to pork can be 1.0. In this scenario, the patient has six times higher sensitivity to shrimp at this time compared to his average sensitivity to shrimp, but substantially similar sensitivity to pork.
  • Table 5A and Table 5B provide exemplary raw data.
  • the data indicate number of positive results out of 26 sample foods based on 90 th percentile value (Table 5A) or 95 th percentile value (Table 5B).
  • the number and percentage of patients with zero positive foods in the Depression population is approximately 50% lower than the percentage of patients with zero positive foods in the non- Depression population (27.2% vs. 51.5%, respectively) based on 90 th percentile value (Table 5A), and the percentage of patients in the Depression population with zero positive foods is also significantly lower (i.e. approximately 40% lower) than that seen in the non-Depression population (39.5 % vs. 66.7%, respectively) based on 95 th percentile value (Table 5B).
  • Table 6A and Table 7A show exemplary statistical data summarizing the raw data of two patient populations shown in Table 5A.
  • the statistical data includes normality, arithmetic mean, median, percentiles and 95% confidence interval (CI) for the mean and median
  • Table 6B and Table 7B show exemplary statistical data summarizing the raw data of two patient populations shown in Table 5B.
  • the statistical data includes normality, arithmetic mean, median, percentiles and 95% confidence interval (CI) for the mean and median representing number of positive foods in the Depression population and the non-Depression population.
  • Table 8A and Table 9A show exemplary statistical data summarizing the raw data of two patient populations shown in Table 5 A.
  • the raw data was transformed by logarithmic transformation to improve the data interpretation.
  • Table 8B and Table 9B show another exemplary statistical data summarizing the raw data of two patient populations shown in Table 5B.
  • the raw data was transformed by logarithmic transformation to improve the data interpretation.
  • Table 10A and Table 11A show exemplary statistical data of an independent T-test (Table 10A, logarithmically transformed data) and a Mann-Whitney test (Table 1 1 A) to compare the geometric mean number of positive foods between the Depression and non-Depression samples.
  • Table 10A and Table 11 A indicate statistically significant differences in the geometric mean of positive number of foods between the Depression population and the non-Depression population. In both statistical tests, it is shown that the number of positive responses with 26 food samples is significantly higher in the Depression population than in the non-Depression population with an average discriminatory p-value of ⁇ 0.0001.
  • These statistical data is also illustrated as a box and whisker plot in Figure 6A, and a notched box and whisker plot in Figure 6B.
  • Table 10B and Table 11B show exemplary statistical data of an independent T-test (Table 10A, logarithmically transformed data) and a Mann-Whitney test (Table 1 IB) to compare the geometric mean number of positive foods between the Depression and non-Depression samples.
  • Table 10B and Table 11B indicate statistically significant differences in the geometric mean of positive number of foods between the Depression population and the non-Depression population. In both statistical tests, it is shown that the number of positive responses with 26 food samples is significantly higher in the Depression population than in the non-Depression population with an average discriminatory p-value of ⁇ 0.0001.
  • These statistical data is also illustrated as a box and whisker plot in Figure 6C, and a notched box and whisker plot in Figure 6D.
  • Table 12A shows exemplary statistical data of a Receiver Operating Characteristic (ROC) curve analysis of data shown in Tables 5A-11 A to determine the diagnostic power of the test used in Table 5 at discriminating Depression from non- Depression subjects.
  • ROC Receiver Operating Characteristic
  • AUROC area under the curve
  • Figure 7A illustrates the ROC curve corresponding to the statistical data shown in Table 12A.
  • the above test can be used as another 'rule in' test to add to currently available clinical criteria for diagnosis for Depression.
  • the absolute number and percentage of subjects with 0 positive foods is also very different in Depression vs. non-Depression subjects, with a far lower percentage of Depression subjects (27.2%)) having 0 positive foods than non-Depression subjects (51.5%>).
  • the data suggests a subset of Depression patients may have Depression due to other factors than diet, and may not benefit from dietary restriction.
  • Table 12B shows exemplary statistical data of a Receiver Operating Characteristic (ROC) curve analysis of data shown in Tables 5B-1 IB to determine the diagnostic power of the test used in Table 5 at discriminating Depression from non-Depression subjects.
  • ROC Receiver Operating Characteristic
  • the above test can be used as another 'rule in' test to add to currently available clinical criteria for diagnosis for Depression.
  • the absolute number and percentage of subjects with 0 positive foods is also very different in Depression vs. non-Depression subjects, with a far lower percentage of Depression subjects (39.5%)) having 0 positive foods than non- Depression subjects (66.7%>).
  • the data suggests a subset of Depression patients may have Depression due to other factors than diet, and may not benefit from dietary restriction.
  • Cinnamon Control 51 8.317 6.347 1.490 38.804
  • CowJViilk Control 51 65.188 90.937 1.798 400.00
  • Green_Pepper Control 51 4.001 2.220 1.153 1 1 .464
  • Halibut Control 51 1 1.307 6.424 0.855 35.367
  • Trout Con rol 51 15.254 16.016 3.000 93.127
  • Cinnamon Control 81 9.850 7.037 1.640 40.477
  • Wainut_Blk Control 81 20.821 10.402 5.682 58.466

Landscapes

  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Immunology (AREA)
  • Hematology (AREA)
  • Engineering & Computer Science (AREA)
  • Urology & Nephrology (AREA)
  • Molecular Biology (AREA)
  • Biomedical Technology (AREA)
  • Chemical & Material Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Biochemistry (AREA)
  • Cell Biology (AREA)
  • Rehabilitation Therapy (AREA)
  • Biotechnology (AREA)
  • Food Science & Technology (AREA)
  • Medicinal Chemistry (AREA)
  • Rheumatology (AREA)
  • Analytical Chemistry (AREA)
  • Microbiology (AREA)
  • General Health & Medical Sciences (AREA)
  • General Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • General Preparation And Processing Of Foods (AREA)
  • Soy Sauces And Products Related Thereto (AREA)

Abstract

Contemplated test kits and methods for food sensitivity are based on rational-based selection of food preparations with established discriminatory p-value. Particularly preferred kits include those with a minimum number of food preparations that have an average discriminatory p-value of ≤ 0.07 as determined by their raw p-value or an average discriminatory p-value of ≤ 0.10 as determined by FDR multiplicity adjusted p-value. In further contemplated aspects, compositions and methods for food sensitivity are also stratified by gender to further enhance predictive value

Description

COMPOSITIONS, DEVICES, AND METHODS OF DEPRESSION SENSITIVITY
TESTING
Related Applications
[0001] This application claims priority to our U.S. provisional patent application with the serial number, 62/359909, filed July 8, 2016, which is incorporated by reference herein in its entirety.
Field of the Invention
[0002] The field of the invention is sensitivity testing for food intolerance, and especially as it relates to testing and possible elimination of selected food items as trigger foods for patients diagnosed with or suspected to have Depression.
Background
[0003] The background description includes information that may be useful in understanding the present invention. It is not an admission that any of the information provided herein is prior art or relevant to the presently claimed invention, or that any publication specifically or implicitly referenced is prior art.
[0004] Food sensitivity, especially as it relates to Depression (a type of mental disorder), often presents with a pervasive and persistent low mood that is accompanied by low self-esteem and by a loss of interest or pleasure in normally enjoyable activities, and underlying causes of Depression are not well understood in the medical community. Most typically, Depression is diagnosed by a mental state examination, which is an assessment of the person's current mood and thought content. Unfortunately, treatment of Depression is often less than effective and may present new difficulties due to neurochemical modulatory effects. Elimination of one or more food items has also shown promise in at least reducing incidence and/or severity of the symptoms. However, Depression is often quite diverse with respect to dietary items triggering symptoms, and no standardized test to help identify trigger food items with a reasonable degree of certainty is known, leaving such patients often to trial-and-error.
[0005] While there are some commercially available tests and labs to help identify trigger foods, the quality of the test results from these labs is generally poor as is reported by a consumer advocacy group (e.g., http://www.which.co.uk/news/2008/08/food-allergy-tests-could-risk-your- health- 15471 1/). Most notably, problems associated with these tests and labs were high false positive rates, high false negative rates, high intra-patient variability, and inter-laboratory variability, rendering such tests nearly useless. Similarly, further inconclusive and highly variable test results were also reported elsewhere (Alternative Medicine Review, Vol. 9, No. 2, 2004: pp 198-207), and the authors concluded that this may be due to food reactions and food sensitivities occurring via a number of different mechanisms. For example, not all Depression patients show positive response to food A, and not all Depression patients show negative response to food B. Thus, even if a Depression patient shows positive response to food A, removal of food A from the patient' s diet may not relieve the patient's Depression symptoms. In other words, it is not well determined whether food samples used in the currently available tests are properly selected based on the high probabilities to correlate sensitivities to those food samples to Depression.
[0006] All publications identified herein are incorporated by reference to the same extent as if each individual publication or patent application were specifically and individually indicated to be incorporated by reference. Where a definition or use of a term in an incorporated reference is inconsistent or contrary to the definition of that term provided herein, the definition of that term provided herein applies and the definition of that term in the reference does not apply.
[0007] Thus, even though various tests for food sensitivities are known in the art, all or almost all of them suffer from one or more disadvantages. Therefore, there is still a need for improved compositions, devices, and methods of food sensitivity testing, especially for identification and possible elimination of trigger foods for patients identified with or suspected of having
Depression.
Summary
[0008] The subject matter described herein provides systems and methods for testing food intolerance in patients diagnosed with or suspected to have Depression. One aspect of the disclosure is a test kit for testing food intolerance in patients diagnosed with or suspected to have Depression. The test kit includes a plurality of distinct food preparations coupled to individually addressable respective solid carriers. The plurality of distinct food preparations have an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p- value of < 0.10 as determined by FDR multiplicity adjusted p-value. In some embodiments, the average discriminatory p-value is determined by a process, which includes comparing assay values of a first patient test cohort that is diagnosed with or suspected of having Depression with assay values of a second patient test cohort that is not diagnosed with or suspected of having Depression.
[0009] Another aspect of the embodiments described herein includes a method of testing food intolerance in patients diagnosed with or suspected to have Depression. The method includes a step of contacting a food preparation with a bodily fluid of a patient that is diagnosed with or suspected to have Depression. The bodily fluid is associated with gender identification. In certain embodiments, the step of contacting is performed under conditions that allow IgG from the bodily fluid to bind to at least one component of the food preparation. The method continues with a step of measuring IgG bound to the at least one component of the food preparation to obtain a signal, and then comparing the signal to a gender-stratified reference value for the food preparation using the gender identification to obtain a result. Then, the method also includes a step of updating or generating a report using the result.
[0010] Another aspect of the embodiments described herein includes a method of generating a test for food intolerance in patients diagnosed with or suspected to have Depression. The method includes a step of obtaining test results for a plurality of distinct food preparations. The test results are based on bodily fluids of patients diagnosed with or suspected to have Depression and bodily fluids of a control group not diagnosed with or not suspected to have Depression. The method also includes a step of stratifying the test results by gender for each of the distinct food preparations. Then the method continues with a step of assigning for a predetermined percentile rank a different cutoff value for male and female patients for each of the distinct food preparations.
[0011] Still another aspect of the embodiments described herein includes a use of a plurality of distinct food preparations coupled to individually addressable respective solid carriers in a diagnosis of Depression. The plurality of distinct food preparations are selected based on their average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value.
[0012] Various objects, features, aspects and advantages of the embodiments described herein will become more apparent from the following detailed description of preferred embodiments, along with the accompanying drawing figures in which like numerals represent like components.
Brief Description of The Drawings
[0013] Table 1 shows a list of food items from which food preparations can be prepared.
[0014] Table 2 shows statistical data of foods ranked according to 2-tailed FDR multiplicity- adjusted p-values.
[0015] Table 3 shows statistical data of ELISA score by food and gender.
[0016] Table 4 shows cutoff values of foods for a predetermined percentile rank.
[0017] Figure 1A illustrates ELISA signal score of male Depression patients and control tested with almond.
[0018] Figure IB illustrates a distribution of percentage of male Depression subjects exceeding the 90th and 95th percentile tested with almond.
[0019] Figure 1C illustrates a signal distribution in women along with the 95th percentile cutoff as determined from the female control population tested with almond.
[0020] Figure ID illustrates a distribution of percentage of female Depression subjects exceeding the 90th and 95th percentile tested with almond.
[0021] Figure 2A illustrates ELISA signal score of male Depression patients and control tested with tomato.
[0022] Figure 2B illustrates a distribution of percentage of male Depression subjects exceeding the 90th and 95th percentile tested with tomato. [0023] Figure 2C illustrates a signal distribution in women along with the 95 percentile cutoff as determined from the female control population tested with tomato.
[0024] Figure 2D illustrates a distribution of percentage of female Depression subjects exceeding the 90th and 95th percentile tested with tomato.
[0025] Figure 3A illustrates ELISA signal score of male Depression patients and control tested with tobacco.
[0026] Figure 3B illustrates a distribution of percentage of male Depression subjects exceeding the 90th and 95th percentile tested with tobacco.
[0027] Figure 3C illustrates a signal distribution in women along with the 95th percentile cutoff as determined from the female control population tested with tobacco.
[0028] Figure 3D illustrates a distribution of percentage of female Depression subjects exceeding the 90th and 95th percentile tested with tobacco.
[0029] Figure 4A illustrates ELISA signal score of male Depression patients and control tested with carrot.
[0030] Figure 4B illustrates a distribution of percentage of male Depression subjects exceeding the 90th and 95th percentile tested with carrot.
[0031] Figure 4C illustrates a signal distribution in women along with the 95th percentile cutoff as determined from the female control population tested with carrot.
[0032] Figure 4D illustrates a distribution of percentage of female Depression subjects exceeding the 90th and 95th percentile tested with carrot.
[0033] Figure 5A illustrates distributions of Depression subjects by number of foods that were identified as trigger foods at the 90th percentile.
[0034] Figure 5B illustrates distributions of Depression subjects by number of foods that were identified as trigger foods at the 95th percentile. [0035] Table 5A shows raw data of Depression patients and control with number of positive results based on the 90th percentile.
[0036] Table 5B shows raw data of Depression patients and control with number of positive results based on the 95th percentile.
[0037] Table 6A shows statistical data summarizing the raw data of Depression patient populations shown in Table 5A.
[0038] Table 6B shows statistical data summarizing the raw data of Depression patient populations shown in Table 5B.
[0039] Table 7A shows statistical data summarizing the raw data of control populations shown in Table 5A.
[0040] Table 7B shows statistical data summarizing the raw data of control populations shown in Table 5B.
[0041] Table 8A shows statistical data summarizing the raw data of Depression patient populations shown in Table 5 A transformed by logarithmic transformation.
[0042] Table 8B shows statistical data summarizing the raw data of Depression patient populations shown in Table 5B transformed by logarithmic transformation.
[0043] Table 9A shows statistical data summarizing the raw data of control populations shown in Table 5 A transformed by logarithmic transformation.
[0044] Table 9B shows statistical data summarizing the raw data of control populations shown in Table 5B transformed by logarithmic transformation.
[0045] Table 10A shows statistical data of an independent T-test to compare the geometric mean number of positive foods between the Depression and non-Depression samples based on the 90th percentile. [0046] Table 10B shows statistical data of an independent T-test to compare the geometric mean number of positive foods between the Depression and non-Depression samples based on the 95th percentile.
[0047] Table 11A shows statistical data of a Mann-Whitney test to compare the geometric mean number of positive foods between the Depression and non-Depression samples based on the 90th percentile.
[0048] Table 11B shows statistical data of a Mann-Whitney test to compare the geometric mean number of positive foods between the Depression and non-Depression samples based on the 95th percentile.
[0049] Figure 6A illustrates a box and whisker plot of data shown in Table 5A.
[0050] Figure 6B illustrates a notched box and whisker plot of data shown in Table 5A.
[0051] Figure 6C illustrates a box and whisker plot of data shown in Table 5B.
[0052] Figure 6D illustrates a notched box and whisker plot of data shown in Table 5B.
[0053] Table 12A shows statistical data of a Receiver Operating Characteristic (ROC) curve analysis of data shown in Tables 5A-11 A.
[0054] Table 12B shows statistical data of a Receiver Operating Characteristic (ROC) curve analysis of data shown in Tables 5B-1 IB.
[0055] Figure 7A illustrates the ROC curve corresponding to the statistical data shown in Table 12 A.
[0056] Figure 7B illustrates the ROC curve corresponding to the statistical data shown in Table 12B.
[0057] Table 13A shows a statistical data of performance metrics in predicting Depression status among female patients from number of positive foods based on the 90th percentile. [0058] Table 13B shows a statistical data of performance metrics in predicting Depression status among male patients from number of positive foods based on the 90th percentile.
[0059] Table 14A shows a statistical data of performance metrics in predicting Depression status among female patients from number of positive foods based on the 95th percentile.
[0060] Table 14B shows a statistical data of performance metrics in predicting Depression status among male patients from number of positive foods based on the 95th percentile.
Detailed Description
[0061] The inventors have discovered that food preparations used in food tests to identify trigger foods in patients diagnosed with or suspected to have Depression are not equally well predictive and/or associated with Depression/Depression symptoms. Indeed, various experiments have revealed that among a wide variety of food items certain food items are highly
predictive/associated with Depression whereas others have no statistically significant association with Depression.
[0062] Even more unexpectedly, the inventors discovered that in addition to the high variability of food items, gender variability with respect to response in a test plays a substantial role in the determination of association or a food item with Depression. Consequently, based on the inventors' findings and further contemplations, test kits and methods are now presented with substantially higher predictive power in the choice of food items that could be eliminated for reduction of Depression signs and symptoms.
[0063] The following discussion provides many example embodiments of the inventive subject matter. Although each embodiment represents a single combination of inventive elements, the inventive subject matter is considered to include all possible combinations of the disclosed elements. Thus if one embodiment comprises elements A, B, and C, and a second embodiment comprises elements B and D, then the inventive subject matter is also considered to include other remaining combinations of A, B, C, or D, even if not explicitly disclosed.
[0064] In some embodiments, the numbers expressing quantities or ranges, used to describe and claim certain embodiments of the invention are to be understood as being modified in some instances by the term "about." Accordingly, in some embodiments, the numerical parameters set forth in the written description and attached claims are approximations that can vary depending upon the desired properties sought to be obtained by a particular embodiment. In some embodiments, the numerical parameters should be construed in light of the number of reported significant digits and by applying ordinary rounding techniques. Notwithstanding that the numerical ranges and parameters setting forth the broad scope of some embodiments of the invention are approximations, the numerical values set forth in the specific examples are reported as precisely as practicable. The numerical values presented in some embodiments of the invention may contain certain errors necessarily resulting from the standard deviation found in their respective testing measurements. Unless the context dictates the contrary, all ranges set forth herein should be interpreted as being inclusive of their endpoints and open-ended ranges should be interpreted to include only commercially practical values. Similarly, all lists of values should be considered as inclusive of intermediate values unless the context indicates the contrary.
[0065] As used in the description herein and throughout the claims that follow, the meaning of "a," "an," and "the" includes plural reference unless the context clearly dictates otherwise. Also, as used in the description herein, the meaning of "in" includes "in" and "on" unless the context clearly dictates otherwise.
[0066] All methods described herein can be performed in any suitable order unless otherwise indicated herein or otherwise clearly contradicted by context. The use of any and all examples, or exemplary language (e.g., "such as") provided with respect to certain embodiments herein is intended merely to better illuminate the invention and does not pose a limitation on the scope of the invention otherwise claimed. No language in the specification should be construed as indicating any non-claimed element essential to the practice of the invention.
[0067] Groupings of alternative elements or embodiments of the invention disclosed herein are not to be construed as limitations. Each group member can be referred to and claimed individually or in any combination with other members of the group or other elements found herein. One or more members of a group can be included in, or deleted from, a group for reasons of convenience and/or patentability. When any such inclusion or deletion occurs, the specification is herein deemed to contain the group as modified thus fulfilling the written description of all Markush groups used in the appended claims.
[0068] In one aspect, the inventors therefore contemplate a test kit or test panel that is suitable for testing food intolerance in patients where the patient is diagnosed with or suspected to have Depression. Most preferably, such test kit or panel will include a plurality of distinct food preparations (e.g., raw or processed extract, preferably aqueous extract with optional co-solvent, which may or may not be filtered) that are coupled to individually addressable respective solid carriers (e.g., in a form of an array or a micro well plate), wherein the distinct food preparations have an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value.
[0069] In some embodiments, the numbers expressing quantities of ingredients, properties such as concentration, reaction conditions, and so forth, used to describe and claim certain
embodiments of the invention are to be understood as being modified in some instances by the term "about." Accordingly, in some embodiments, the numerical parameters set forth in the written description and attached claims are approximations that can vary depending upon the desired properties sought to be obtained by a particular embodiment. In some embodiments, the numerical parameters should be construed in light of the number of reported significant digits and by applying ordinary rounding techniques. Notwithstanding that the numerical ranges and parameters setting forth the broad scope of some embodiments of the invention are
approximations, the numerical values set forth in the specific examples are reported as precisely as practicable. The numerical values presented in some embodiments of the invention may contain certain errors necessarily resulting from the standard deviation found in their respective testing measurements. Moreover, and unless the context dictates the contrary, all ranges set forth herein should be interpreted as being inclusive of their endpoints and open-ended ranges should be interpreted to include only commercially practical values. Similarly, all lists of values should be considered as inclusive of intermediate values unless the context indicates the contrary.
[0070] While not limiting to the inventive subject matter, food preparations will typically be drawn from foods generally known or suspected to trigger signs or symptoms of Depression. Particularly suitable food preparations may be identified by the experimental procedures outlined below. Thus, it should be appreciated that the food items need not be limited to the items described herein, but that all items are contemplated that can be identified by the methods presented herein. Therefore, exemplary food preparations include at least two, at least four, at least eight, or at least 12 food preparations prepared from foods 1-26 of Table 2. Still further especially contemplated food items and food additives from which food preparations can be prepared are listed in Table 1.
[0071] Using bodily fluids from patients diagnosed with or suspected to have Depression and healthy control group individuals (i.e., those not diagnosed with or not suspected to have Depression), numerous additional food items may be identified. Preferably, such identified food items will have high discriminatory power and as such have a p-value of < 0.15, more preferably < 0.10, and most preferably < 0.05 as determined by raw p-value, and/or a p-value of < 0.10, more preferably < 0.08, and most preferably < 0.07 as determined by False Discovery Rate (FDR) multiplicity adjusted p-value.
[0072] In certain embodiments, such identified food preparations will have high discriminatory power and, as such, will have a p-value of < 0.15, < 0.10, or even < 0.05 as determined by raw p- value, and/or a p-value of < 0.10, < 0.08, or even < 0.07 as determined by False Discovery Rate (FDR) multiplicity adjusted p-value.
[0073] Therefore, where a panel has multiple food preparations, it is contemplated that the plurality of distinct food preparations has an average discriminatory p-value of < 0.05 as determined by raw p-value or an average discriminatory p-value of < 0.08 as determined by FDR multiplicity adjusted p-value, or even more preferably an average discriminatory p-value of < 0.025 as determined by raw p-value or an average discriminatory p-value of < 0.07 as determined by FDR multiplicity adjusted p-value. In further preferred aspects, it should be appreciated that the FDR multiplicity adjusted p-value may be adjusted for at least one of age and gender, and most preferably adjusted for both age and gender. On the other hand, where a test kit or panel is stratified for use with a single gender, it is also contemplated that in a test kit or panel at least 50% (and more typically 70% or all) of the plurality of distinct food
preparations, when adjusted for a single gender, have an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value. Furthermore, it should be appreciated that other stratifications (e.g., dietary preference, ethnicity, place of residence, genetic predisposition or family history, etc.) are also contemplated, and the person of ordinary skill in the art (PHOSITA) will be readily appraised of the appropriate choice of stratification.
[0074] The recitation of ranges of values herein is merely intended to serve as a shorthand method of referring individually to each separate value falling within the range. Unless otherwise indicated herein, each individual value is incorporated into the specification as if it were individually recited herein. All methods described herein can be performed in any suitable order unless otherwise indicated herein or otherwise clearly contradicted by context. The use of any and all examples, or exemplary language (e.g., "such as") provided with respect to certain embodiments herein is intended merely to better illuminate the invention and does not pose a limitation on the scope of the invention otherwise claimed. No language in the specification should be construed as indicating any non-claimed element essential to the practice of the invention.
[0075] Of course, it should be noted that the particular format of the test kit or panel may vary considerably and contemplated formats include micro well plates, dip sticks, membrane-bound arrays, etc. Consequently, the solid carrier to which the food preparations are coupled may include wells of a multiwell plate, a (e.g., color-coded or magnetic) bead, or an adsorptive film (e.g., nitrocellulose or micro/nanoporous polymeric film), or an electrical sensor, (e.g., a printed copper sensor or microchip).
[0076] Consequently, the inventors also contemplate a method of testing food intolerance in patients that are diagnosed with or suspected to have Depression. Most typically, such methods will include a step of contacting a food preparation with a bodily fluid (e.g., whole blood, plasma, serum, saliva, or a fecal suspension) of a patient that is diagnosed with or suspected to have Depression, and wherein the bodily fluid is associated with a gender identification. As noted before, the step of contacting is preferably performed under conditions that allow IgG (or IgE or IgA or IgM) from the bodily fluid to bind to at least one component of the food preparation, and the IgG bound to the component(s) of the food preparation are then
quantified/measured to obtain a signal. In some embodiments, the signal is then compared against a gender-stratified reference value (e.g., at least a 90th percentile value) for the food preparation using the gender identification to obtain a result, which is then used to update or generate a report (e.g., written medical report; oral report of results from doctor to patient;
written or oral directive from physician based on results).
[0077] In certain embodiments, such methods will not be limited to a single food preparation, but will employ multiple different food preparations. As noted before, suitable food preparations can be identified using various methods as described below, however, especially preferred food preparations include foods 1-26, of Table 2, and/or items of Table 1. As also noted above, it is generally preferred that at least some, or all of the different food preparations have an average discriminatory p-value of < 0.07 (or < 0.05, or < 0.025) as determined by raw p-value, and/or an average discriminatory p-value of < 0.10 (or < 0.08, or < 0.07) as determined by FDR
multiplicity adjusted p-value.
[0078] While in certain embodiments food preparations are prepared from single food items as crude extracts, or crude filtered extracts, it is contemplated that food preparations can be prepared from mixtures of a plurality of food items (e.g., a mixture of citrus comprising lemon, orange, and a grapefruit, a mixture of yeast comprising baker' s yeast and brewer' s yeast, a mixture of rice comprising a brown rice and white rice, a mixture of sugars comprising honey, malt, and cane sugar). In some embodiments, it is also contemplated that food preparations can be prepared from purified food antigens or recombinant food antigens.
[0079] As it is generally preferred that the food preparation is immobilized on a solid surface (typically in an addressable manner), it is contemplated that the step of measuring the IgG or other type of antibody bound to the component of the food preparation is performed via an ELISA test. Exemplary solid surfaces include, but are not limited to, wells in a multiwell plate, such that each food preparation may be isolated to a separate microwell. In certain
embodiments, the food preparation will be coupled to, or immobilized on, the solid surface. In other embodiments, the food preparation(s) will be coupled to a molecular tag that allows for binding to human immunoglobulins (e.g., IgG) in solution.
[0080] Viewed from a different perspective, the inventors also contemplate a method of generating a test for food intolerance in patients diagnosed with or suspected to have Depression. Because the test is applied to patients already diagnosed with or suspected to have Depression, the authors do not contemplate that the method has a diagnostic purpose. Instead, the method is for identifying triggering food items among already diagnosed or suspected Depression patients. Such test will typically include a step of obtaining one or more test results (e.g., ELISA) for various distinct food preparations, wherein the test results are based on bodily fluids (e.g., blood saliva, fecal suspension) of patients diagnosed with or suspected to have Depression and bodily fluids of a control group not diagnosed with or not suspected to have Depression. Most preferably, the test results are then stratified by gender for each of the distinct food preparations, a different cutoff value for male and female patients for each of the distinct food preparations (e.g., cutoff value for male and female patients has a difference of at least 10% (abs)) is assigned for a predetermined percentile rank (e.g., 90th or 95th percentile).
[0081] As noted earlier, and while not limiting to the inventive subject matter, it is contemplated that the distinct food preparations include at least two (or six, or ten, or 15) food preparations prepared from food items selected from the group consisting of foods 1-26 of Table 2, and/or items of Table 1. On the other hand, where new food items are tested, it should be appreciated that the distinct food preparations include a food preparation prepared from a food items other than foods 1-26 of Table 2. Regardless of the particular choice of food items, it is generally preferred however, that the distinct food preparations have an average discriminatory p-value of < 0.07 (or < 0.05, or < 0.025) as determined by raw p-value or an average discriminatory p-value of < 0.10 (or < 0.08, or < 0.07) as determined by FDR multiplicity adjusted p-value. Exemplary aspects and protocols, and considerations are provided in the experimental description below.
[0082] Thus, it should be appreciated that by having a high-confidence test system as described herein, the rate of false-positive and false negatives can be significantly reduced, and especially where the test systems and methods are gender stratified or adjusted for gender differences as shown below. Such advantages have heretofore not been realized and it is expected that the systems and methods presented herein will substantially increase the predictive power of food sensitivity tests for patients diagnosed with or suspected to have Depression. Experiments
[0083] General Protocol for food preparation generation: Commercially available food extracts (available from Biomerica Inc., 17571 Von Karman Ave, Irvine, CA 92614) prepared from the edible portion of the respective raw foods were used to prepare ELISA plates following the manufacturer's instructions.
[0084] For some food extracts, the inventors expect that food extracts prepared with specific procedures to generate food extracts provides more superior results in detecting elevated IgG reactivity in Depression patients compared to commercially available food extracts. For example, for grains and nuts, a three-step procedure of generating food extracts is preferred. The first step is a defatting step. In this step, lipids from grains and nuts are extracted by contacting the flour of grains and nuts with a non-polar solvent and collecting residue. Then, the defatted grain or nut flour are extracted by contacting the flour with elevated pH to obtain a mixture and removing the solid from the mixture to obtain the liquid extract. Once the liquid extract is generated, the liquid extract is stabilized by adding an aqueous formulation. In a preferred embodiment, the aqueous formulation includes a sugar alcohol, a metal chelating agent, protease inhibitor, mineral salt, and buffer component 20-50 mM of buffer from 4-9 pH. This formulation allowed for long term storage at -70 °C and multiple freeze-thaws without a loss of activity.
[0085] For another example, for meats and fish, a two step procedure of generating food extract is preferred. The first step is an extraction step. In this step, extracts from raw, uncooked meats or fish are generated by emulsifying the raw, uncooked meats or fish in an aqueous buffer formulation in a high impact pressure processor. Then, solid materials are removed to obtain liquid extract. Once the liquid extract is generated, the liquid extract is stabilized by adding an aqueous formulation. In a preferred embodiment, the aqueous formulation includes a sugar alcohol, a metal chelating agent, protease inhibitor, mineral salt, and buffer component 20-50 mM of buffer from 4-9 pH. This formulation allowed for long term storage at -70 °C and multiple freeze-thaws without a loss of activity.
[0086] For still another example, for fruits and vegetables, a two step procedure of generating food extract is preferred. The first step is an extraction step. In this step, liquid extracts from fruits or vegetables are generated using an extractor (e.g., masticating juicer, etc) to pulverize foods and extract juice. Then, solid materials are removed to obtain liquid extract. Once the liquid extract is generated, the liquid extract is stabilized by adding an aqueous formulation. In a preferred embodiment, the aqueous formulation includes a sugar alcohol, a metal chelating agent, protease inhibitor, mineral salt, and buffer component 20-50 mM of buffer from 4-9 pH. This formulation allowed for long term storage at -70 °C and multiple freeze-thaws without a loss of activity.
[0087] Blocking of ELISA plates: To optimize signal to noise, plates will be blocked with a proprietary blocking buffer. In a preferred embodiment, the blocking buffer includes 20-50 mM of buffer from 4-9 pH, a protein of animal origin and a short chain alcohol. Other blocking buffers, including several commercial preparations, can be attempted but may not provide adequate signal to noise and low assay variability required.
[0088] ELISA preparation and sample testing: Food antigen preparations were immobilized onto respective microtiter wells following the manufacturer' s instructions. For the assays, the food antigens were allowed to react with antibodies present in the patients' serum, and excess serum proteins were removed by a wash step. For detection of IgG antibody binding, enzyme labeled anti-IgG antibody conjugate was allowed to react with antigen-antibody complex. A color was developed by the addition of a substrate that reacts with the coupled enzyme. The color intensity was measured and is directly proportional to the concentration of IgG antibody specific to a particular food antigen.
[0089] Methodology to determine ranked food list in order of ability of ELISA signals to distinguish Depression from control subjects: Out of an initial selection (e.g., 100 food items, or 150 food items, or even more), samples can be eliminated prior to analysis due to low consumption in an intended population. In addition, specific food items can be used as being representative of the a larger more generic food group, especially where prior testing has established a correlation among different species within a generic group (most preferably in both genders, but also suitable for correlation for a single gender). For example, green pepper could be dropped in favor of chili pepper as representative of the "pepper" food group, or sweet potato could be dropped in favor of potato as representative of the "potato" food group. In further preferred aspects, the final list foods will be shorter than 50 food items, and more preferably equal or less than of 40 food items.
[0090] Since the foods ultimately selected for the food intolerance panel will not be specific for a particular gender, a gender-neutral food list is necessary. Since the observed sample will be at least initially imbalanced by gender (e.g., Controls: 38.6% female, Depression: 74.3% female), differences in ELISA signal magnitude strictly due to gender will be removed by modeling signal scores against gender using a two-sample t-test and storing the residuals for further analysis. For each of the tested foods, residual signal scores will be compared between
Depression and controls using a permutation test on a two-sample t-test with a relative high number of resamplings (e.g., >1,000, more preferably >10,000, even more preferably >50,000). The Satterthwaite approximation can then be used for the denominator degrees of freedom to account for lack of homogeneity of variances, and the 2-tailed permuted p-value will represent the raw p-value for each food. False Discovery Rates (FDR) among the comparisons, will be adjusted by any acceptable statistical procedures (e.g., Benjamini-Hochberg, Family-wise Error Rate (FWER), Per Comparison Error Rate (PCER), etc.).
[0091] Foods were then ranked according to their 2-tailed FDR multiplicity-adjusted p-values. Foods with adjusted p-values equal to or lower than the desired FDR threshold are deemed to have significantly higher signal scores among Depression than control subjects and therefore deemed candidates for inclusion into a food intolerance panel. A typical result that is
representative of the outcome of the statistical procedure is provided in Table 2. Here the ranking of foods is according to 2-tailed permutation T-test p-values with FDR adjustment.
[0092] Based on earlier experiments (data not shown here, see US 62/359909), the inventors contemplate that even for the same food preparation tested, the ELISA score for at least several food items will vary dramatically, and exemplary raw data are provided in Table 3. As should be readily appreciated, data unstratified by gender will therefore lose significant explanatory power where the same cutoff value is applied to raw data for male and female data. To overcome such disadvantage, the inventors therefore contemplate stratification of the data by gender as described below. [0093] Statistical Method for Cutpoint Selection for each Food: The determination of what ELISA signal scores would constitute a "positive" response can be made by summarizing the distribution of signal scores among the Control subjects. For each food, Depression subjects who have observed scores greater than or equal to selected quantiles of the Control subject distribution will be deemed "positive". To attenuate the influence of any one subject on cutpoint determination, each food-specific and gender-specific dataset will be bootstrap resampled 1000 times. Within each bootstrap replicate, the 90th and 95th percentiles of the Control signal scores will be determined. Each Depression subject in the bootstrap sample will be compared to the 90th and 95% percentiles to determine whether he/she had a "positive" response. The final 90th and 95th percentile-based cutpoints for each food and gender will be computed as the average 90th and 95th percentiles across the 1000 samples. The number of foods for which each
Depression subject will be rated as "positive" was computed by pooling data across foods. Using such method, the inventors will be now able to identify cutoff values for a predetermined percentile rank that in most cases was substantially different as can be taken from Table 4.
[0094] Typical examples for the gender difference in IgG response in blood with respect to almond is shown in Figures 1A-1D, where Figure 1 A shows the signal distribution in men along with the 95th percentile cutoff as determined from the male control population. Figure IB shows the distribution of percentage of male Depression subjects exceeding the 90th and 95th percentile, while Figure 1C shows the signal distribution in women along with the 95th percentile cutoff as determined from the female control population. Figure ID shows the distribution of percentage of female Depression subjects exceeding the 90th and 95th percentile. In the same fashion,
Figures 2A-2D exemplarily depict the differential response to tomato, Figures 3A-3D
exemplarily depict the differential response to tobacco, and Figures 4A-4D exemplarily depict the differential response to carrot. Figures 5A-5B show the distribution of Depression subjects by number of foods that were identified as trigger foods at the 90th percentile (5 A) and 95th percentile (5B). Inventors contemplate that regardless of the particular food items, male and female responses will be notably distinct.
[0095] It should be noted that nothing in the art have provided any predictable food groups related to Depression that is gender-stratified. Thus, a discovery of food items that show distinct responses by gender is a surprising result, which could not be obviously expected in view of all previously available arts. In other words, selection of food items based on gender stratification provides an unexpected technical effect such that statistical significances for particular food items as triggering food among male or female Depression patients have been significantly improved.
[0096] Normalization of IgG Response Data: While the raw data of the patient' s IgG response results can be used to compare strength of response among given foods, it is also contemplated that the IgG response results of a patient are normalized and indexed to generate unit-less numbers for comparison of relative strength of response to a given food. For example, one or more of a patient' s food specific IgG results (e.g., IgG specific to orange and IgG specific to malt) can be normalized to the patient' s total IgG. The normalized value of the patient' s IgG specific to orange can be 0.1 and the normalized value of the patient's IgG specific to malt can be 0.3. In this scenario, the relative strength of the patient' s response to malt is three times higher compared to orange. Then, the patient' s sensitivity to malt and orange can be indexed as such.
[0097] In other examples, one or more of a patient' s food specific IgG results (e.g., IgG specific to shrimp and IgG specific to pork) can be normalized to the global mean of that patient's food specific IgG results. The global means of the patient's food specific IgG can be measured by total amount of the patient's food specific IgG. In this scenario, the patient' s specific IgG to shrimp can be normalized to the mean of patient's total food specific IgG (e.g., mean of IgG levels to shrimp, pork, Dungeness crab, chicken, peas, etc.) . However, it is also contemplated that the global means of the patient's food specific IgG can be measured by the patient's IgG levels to a specific type of food via multiple tests. If the patient has been tested for his sensitivity to shrimp five times and to pork seven times previously, the patient' s new IgG values to shrimp or to pork are normalized to the mean of five-times test results to shrimp or the mean of seven- times test results to pork. The normalized value of the patient' s IgG specific to shrimp can be 6.0 and the normalized value of the patient's IgG specific to pork can be 1.0. In this scenario, the patient has six times higher sensitivity to shrimp at this time compared to his average sensitivity to shrimp, but substantially similar sensitivity to pork. Then, the patient's sensitivity to shrimp and pork can be indexed based on such comparison. [0098] Methodology to determine the subset of Depression patients with food sensitivities that underlie Depression: While it is suspected that food sensitivities plays a substantial role in signs and symptoms of Depression, some Depression patients may not have food sensitivities that underlie Depression. Those patients would not be benefit from dietary intervention to treat signs and symptoms of Depression. To determine the subset of such patients, body fluid samples of Depression patients and non- Depression patients can be tested with ELISA test using test devices with up to 26 food samples.
[0099] Table 5A and Table 5B provide exemplary raw data. As should be readily appreciated, the data indicate number of positive results out of 26 sample foods based on 90th percentile value (Table 5A) or 95th percentile value (Table 5B). The first column is Depression (n=l 14); second column is non-Depression (n=132) by ICD-10 code. Average and median number of positive foods was computed for Depression and non-Depression patients. From the raw data shown in Table 5A and Table 5B, average and standard deviation of the number of positive foods was computed for Depression and non-Depression patients. Additionally, the number and percentage of patients with zero positive foods was calculated for both Depression and non-Depression. The number and percentage of patients with zero positive foods in the Depression population is approximately 50% lower than the percentage of patients with zero positive foods in the non- Depression population (27.2% vs. 51.5%, respectively) based on 90th percentile value (Table 5A), and the percentage of patients in the Depression population with zero positive foods is also significantly lower (i.e. approximately 40% lower) than that seen in the non-Depression population (39.5 % vs. 66.7%, respectively) based on 95th percentile value (Table 5B). Thus, it can be easily appreciated that the Depression patient having sensitivity to zero positive foods is unlikely to have food sensitivities underlying their signs and symptoms of Depression.
[00100] Table 6A and Table 7A show exemplary statistical data summarizing the raw data of two patient populations shown in Table 5A. The statistical data includes normality, arithmetic mean, median, percentiles and 95% confidence interval (CI) for the mean and median
representing number of positive foods in the Depression population and the non-Depression population. Table 6B and Table 7B show exemplary statistical data summarizing the raw data of two patient populations shown in Table 5B. The statistical data includes normality, arithmetic mean, median, percentiles and 95% confidence interval (CI) for the mean and median representing number of positive foods in the Depression population and the non-Depression population.
[00101] Table 8A and Table 9A show exemplary statistical data summarizing the raw data of two patient populations shown in Table 5 A. In Tables 8A and 9A, the raw data was transformed by logarithmic transformation to improve the data interpretation. Table 8B and Table 9B show another exemplary statistical data summarizing the raw data of two patient populations shown in Table 5B. In Tables 8B and 9B, the raw data was transformed by logarithmic transformation to improve the data interpretation.
[00102] Table 10A and Table 11A show exemplary statistical data of an independent T-test (Table 10A, logarithmically transformed data) and a Mann-Whitney test (Table 1 1 A) to compare the geometric mean number of positive foods between the Depression and non-Depression samples. The data shown in Table 10A and Table 11 A indicate statistically significant differences in the geometric mean of positive number of foods between the Depression population and the non-Depression population. In both statistical tests, it is shown that the number of positive responses with 26 food samples is significantly higher in the Depression population than in the non-Depression population with an average discriminatory p-value of < 0.0001. These statistical data is also illustrated as a box and whisker plot in Figure 6A, and a notched box and whisker plot in Figure 6B.
[00103] Table 10B and Table 11B show exemplary statistical data of an independent T-test (Table 10A, logarithmically transformed data) and a Mann-Whitney test (Table 1 IB) to compare the geometric mean number of positive foods between the Depression and non-Depression samples. The data shown in Table 10B and Table 11B indicate statistically significant differences in the geometric mean of positive number of foods between the Depression population and the non-Depression population. In both statistical tests, it is shown that the number of positive responses with 26 food samples is significantly higher in the Depression population than in the non-Depression population with an average discriminatory p-value of < 0.0001. These statistical data is also illustrated as a box and whisker plot in Figure 6C, and a notched box and whisker plot in Figure 6D. [00104] Table 12A shows exemplary statistical data of a Receiver Operating Characteristic (ROC) curve analysis of data shown in Tables 5A-11 A to determine the diagnostic power of the test used in Table 5 at discriminating Depression from non- Depression subjects. When a cutoff criterion of more than 4 positive foods is used, the test yields a data with 36.8% sensitivity and 87.8% specificity, with an area under the curve (AUROC) of 0.665. The p-value for the ROC is significant at a p-value of <0.0001. Figure 7A illustrates the ROC curve corresponding to the statistical data shown in Table 12A. Because the statistical difference between the Depression population and the non-Depression population is significant when the test results are cut off to a positive number of 4, the number of foods for which a patient tests positive could be used as a confirmation of the primary clinical diagnosis of Depression, and whether it is likely that food sensitivities underlies on the patient's signs and symptoms of Depression. Therefore, the above test can be used as another 'rule in' test to add to currently available clinical criteria for diagnosis for Depression.
[00105] As shown in Tables 5A-12A, and Figure 7A, based on 90th percentile data, the number of positive foods seen in Depression vs. non-Depression subjects is significantly different whether the geometric mean or median of the data is compared. The number of positive foods that a person has is indicative of the presence of Depression in subjects. The test has discriminatory power to detect Depression with 36.8% sensitivity and 87.8% specificity.
Additionally, the absolute number and percentage of subjects with 0 positive foods is also very different in Depression vs. non-Depression subjects, with a far lower percentage of Depression subjects (27.2%)) having 0 positive foods than non-Depression subjects (51.5%>). The data suggests a subset of Depression patients may have Depression due to other factors than diet, and may not benefit from dietary restriction.
[00106] Table 12B shows exemplary statistical data of a Receiver Operating Characteristic (ROC) curve analysis of data shown in Tables 5B-1 IB to determine the diagnostic power of the test used in Table 5 at discriminating Depression from non-Depression subjects. When a cutoff criterion of more than 0 positive foods is used, the test yields a data with 60.5%> sensitivity and 66.7%) specificity, with an area under the curve (AUROC) of 0.659. The p-value for the ROC is significant at a p-value of <0.0001. Figure 7B illustrates the ROC curve corresponding to the statistical data shown in Table 12B. Because the statistical difference between the Depression population and the non-Depression population is significant when the test results are cut off to positive number of >0, the number of foods that a patient tests positive could be used as a confirmation of the primary clinical diagnosis of Depression, and whether it is likely that food sensitivities underlies on the patient's signs and symptoms of Depression. Therefore, the above test can be used as another 'rule in' test to add to currently available clinical criteria for diagnosis for Depression.
[00107] As shown in Tables 5B-12B, and Figure 7B, based on 95th percentile data, the number of positive foods seen in Depression vs. non-Depression subjects is significantly different whether the geometric mean or median of the data is compared. The number of positive foods that a person has is indicative of the presence of Depression in subjects. The test has
discriminatory power to detect Depression with 60.5% sensitivity and 66.7% specificity.
Additionally, the absolute number and percentage of subjects with 0 positive foods is also very different in Depression vs. non-Depression subjects, with a far lower percentage of Depression subjects (39.5%)) having 0 positive foods than non- Depression subjects (66.7%>). The data suggests a subset of Depression patients may have Depression due to other factors than diet, and may not benefit from dietary restriction.
[00108] Method for determining distribution of per-person number of foods declared
"positive": To determine the distribution of number of "positive" foods per person and measure the diagnostic performance, the analysis will be performed with 26 food items from Table 2, which shows most positive responses to Depression patients. To attenuate the influence of any one subject on this analysis, each food-specific and gender-specific dataset will be bootstrap resampled 1000 times. Then, for each food item in the bootstrap sample, sex-specific cutpoint will be determined using the 90th and 95th percentiles of the control population. Once the sex- specific cutpoints are determined, the sex-specific cutpoints will be compared with the observed ELISA signal scores for both control and Depression subjects. In this comparison, if the observed signal is equal or more than the cutpoint value, then it will be determined "positive" food, and if the observed signal is less than the cutpoint value, then it will be determined
"negative" food. [00109] Once all food items were determined either positive or negative, the results of the 52 (26 foods x 2 cutpoints) calls for each subject will be saved within each bootstrap replicate. Then, for each subject, 26 calls will be summed using 90th percentile as cutpoint to get "Number of Positive Foods (90th)," and the rest of 26 calls will be summed using 95th percentile to get "Number of Positive Foods (95th)." Then, within each replicate, "Number of Positive Foods (90th)" and "Number of Positive Foods (95th)" will be summarized across subjects to get descriptive statistics for each replicate as follows: 1) overall means equals to the mean of means, 2) overall standard deviation equals to the mean of standard deviations, 3) overall medial equals to the mean of medians, 4) overall minimum equals to the minimum of minimums, and 5) overall maximum equals to maximum of maximum. In this analysis, to avoid non-integer "Number of Positive Foods" when computing frequency distribution and histogram, the authors will pretend that the 1000 repetitions of the same original dataset were actually 999 sets of new subjects of the same size added to the original sample. Once the summarization of data is done, frequency distributions and histograms will be generated for both "Number of Positive Foods (90th)" and "Number of Positive Foods (95th)" for both genders and for both Depression subjects and control subjects using programs "a_pos_foods.sas, a_pos_foods_by_dx.sas".
[00110] Method for measuring diagnostic performance: To measure diagnostic performance for each food items for each subject, we will use data of "Number of Positive Foods (90th)" and "Number of Positive Foods (95th)" for each subject within each bootstrap replicate described above. In this analysis, the cutpoint was set to 1. Thus, if a subject has one or more "Number of Positive Foods (90th)", then the subject will be called "Has Depression." If a subject has less than one "Number of Positive Foods (90th)", then the subject will be called "Does Not Have
Depression." When all calls were made, the calls were compared with actual diagnosis to determine whether a call was a True Positive (TP), True Negative (TN), False Positive (FP), or False Negative (FN). The comparisons will be summarized across subjects to get the
performance metrics of sensitivity, specificity, positive predictive value, and negative predictive value for both "Number of Positive Foods (90th)" and "Number of Positive Foods(95th)" when the cutpoint is set to 1 for each method. Each (sensitivity, 1 -specificity) pair becomes a point on the ROC curve for this replicate. [00111] To increase the accuracy, the analysis above will be repeated by incrementing cutpoint from 2 up to 26, and repeated for each of the 1000 bootstrap replicates. Then the performance metrics across the 1000 bootstrap replicates will be summarized by calculating averages using a program "t_pos_foods_by_dx.sas". The results of diagnostic performance for female and male are shown in Tables 13A and 13B (90th percentile) and Tables 14 A and 14B (95th percentile).
[00112] Of course, it should be appreciated that certain variations in the food preparations may be made without altering the inventive subject matter presented herein. For example, where the food item was yellow onion, that item should be understood to also include other onion varieties that were demonstrated to have equivalent activity in the tests. Indeed, the inventors have noted that for each tested food preparation, certain other related food preparations also tested in the same or equivalent manner (data not shown). Thus, it should be appreciated that each tested and claimed food preparation will have equivalent related preparations with demonstrated equal or equivalent reactions in the test.
[00113] It should be apparent to those skilled in the art that many more modifications besides those already described are possible without departing from the inventive concepts herein. The inventive subject matter, therefore, is not to be restricted except in the spirit of the appended claims. Moreover, in interpreting both the specification and the claims, all terms should be interpreted in the broadest possible manner consistent with the context. In particular, the terms "comprises" and "comprising" should be interpreted as referring to elements, components, or steps in a non-exclusive manner, indicating that the referenced elements, components, or steps may be present, or utilized, or combined with other elements, components, or steps that are not expressly referenced. Where the specification claims refers to at least one of something selected from the group consisting of A, B, C .... and N, the text should be interpreted as requiring only one element from the group, not A plus N, or B plus N, etc. Abalone Cured Cheese Onion Walnut, black
Ad lay Cuttlefish Orange Watermelon
Almond Duck Oyster Welch Onion
American Cheese Durian Papaya Wheat
Apple Eel Paprika Wheat bran
Artichoke Egg White (separate) Parsley Yeast (S. cerevisiae)
Asparagus Egg Yolk (separate) Peach Yogurt
Avocado Egg, white/yolk (comb.) Peanut
Baby Bok Choy Eggplant Pear FOOD ADDITIVES
Bamboo shoots Garlic Pepper, Black Arabic Gum
Banana Ginger Pineapple Carboxymethy l Cellulose
Barley, whole grain Gluten - Gliadin Pinto bean Carrageneenan
Beef Goat's milk Plum FD&C Blue #1
Beets Grape, white/concord Pork FD&C Red #3
Beta-!acioglobulin Grapefruit Potato FD&C Red #40
Blueberry Grass Carp Rabbit FD&C Yellow #5
Broccoli Green Onion Rice FD&C Yellow #6
Buckwheat Green pea Roquefort Cheese Gelatin
Butter Green pepper Rye Guar G um
Cabbage Guava Saccharine Maltodextrin
Cane sugar Hair Tail Safflower seed Pectin
Cantaloupe Hake Salmon Whey
Caraway Halibut Sardine Xanthan Gum
Carrot Hazelnut Scallop
Casein Honey Sesame
Cashew Kelp Shark fin
Cauliflower Kidney bean Sheep's milk
Celery- Kiwi Emit Shrimp
Chard Lamb Sole
Cheddar Cheese Leek Soybean
Chick Peas Lemon Spinach
Chicken Lentils Squashes
Chili pepper Lettuce, iceberg Squid
Chocolate Lima bean Strawberry
Cinnamon Lobster String bean
Clam Longan Sunflower seed
Cocoa Bean Mackerel Sweet potato
Coconut Malt Swiss cheese
Codfish Mango Taro
Coffee Marjoram Tea, black
Cola nut Millet Tobacco
Com Mung bean Tomato
Cottage cheese Mushroom Trout
Cow's milk Mustard seed Tuna
Crab Oat Turkey
Cucumber Olive Vanilla
Table 1 Ranking of Foods according to 2 -tailed Permutation T-test p-values with FDR adjustment
FDR
Raw Multip!icity-adj
Rank Food p-value p-value
1 Almond 0.0001 0.0080
2 Tomato 0.0002 0.0080
3 Tobacco 0.0006 0.0166
4 Carrot 0.0010 0.0185
5 Orange 0.0010 0.0185
6 Cucumber 0.0017 0.0252
7 Broccoli 0.0028 0.0323
8 Lettuce 0.0029 0.0323
9 Malt 0.0034 0.0340
10 Cantaloupe 0.0044 0.0390
1 1 Corn 0.0048 0.0390
12 Wheat 0.0066 0.0449
13 Honey 0.0069 0.0449
14 Chocolate 0.0071 0.0449
15 Oat 0.0101 0.0567
16 Avocado 0.0102 0.0567
17 Rye 0.01 19 0.0602
18 Strawberry 0.0122 0.0602
19 Cauliflower 0.0130 0.0606
20 Safflower 0.0136 0.0606
21 Tea 0.0151 0.0630
22 Banana 0.0156 0.0630
23 Squashes 0.0184 0.0710
24 Green_Pepper 0.0213 0.0790
25 Butter 0.0237 0.0842
26 Buck_Wheat 0.0258 0.0885
27 Rice 0.0307 0.1013
28 Soybean 0.0363 0.1 1 18
29 Grapefruit 0.0364 0.1 1 18
30 Oyster 0.0427 0.1266 FDR
Raw Multiplicity-adj
Rank Food p-value p-value
31 Yeast_Brewer 0.0473 0.1359
32 Peach 0.0569 0.1584
33 Cane_j3ugar 0.0594 0.1603
34 CowJV!ilk 0.0616 0.1613
35 Spinach 0.0667 0.1697
36 Mustard 0.0719 0.1779
37 Cinnamon 0.0800 0.1923
38 Eggplant 0.0854 0.2001
39 Cabbage 0.1034 0.2303
40 Pinto__Bean 0.1053 0.2303
41 Onion 0.1061 0.2303
42 Sunflower_Sd 0.1204 0.2552
43 Wa!nut_B!k 0.1233 0.2552
44 Blueberry 0.1312 0.2655
45 Cottage_Ch_ 0.1398 0.2714
46 Cheddar__Ch__ 0.1403 0.2714
47 GoatJViilk 0.1438 0.2715
48 Lemon 0.1464 0.2715
49 Appie 0.1891 0.3435
50 O!ive 0.1965 0.3498
51 Garlic 0.2065 0.3604
52 Yeast_Baker 0.2187 0.3742
53 Parsley 0.2262 0.3798
54 Sweet_Pot_ 0.2585 0.4231
55 Yogurt 0.2615 0.4231
56 Swiss_Ch_ 0.2712 0.431 1
57 Amer Cheese 0.2839 0.4394
58 Beef 0.2873 0.4394
59 Barley 0.2934 0.4394
60 Clam 0.2962 0.4394
61 Green_Pea 0.31 18 0.4550
62 Salmon 0.3239 0.4649
63 Scallop 0.3518 0.4969
64 Celery 0.3573 0.4969 FDR
Raw Multiplicity-adj
Rank Food p-value p-value
65 Chicken 0.4077 0.5582
66 Sardine 0.4479 0.5963
67 Lima_Bean 0.4489 0.5963
68 Codfish 0.4567 0.5977
69 Cashew 0.4784 0.6171
70 Peanut 0.5032 0.6384
71 Potato 0.5093 0.6384
72 Millet 0.5283 0.6530
73 Turkey 0.5557 0.6775
74 Pork 0.5674 0.6820
75 Mushroom 0.5748 0.6820
76 Coffee 0.6105 0.7150
77 Trout 0.6332 0.7319
78 Crab 0.6492 0.7407
79 Pineapple 0.6858 0.7726
80 Lobster 0.7421 0.8256
81 Egg 0.7893 0.8673
82 Sesame 0.8279 0.8886
83 Sole 0.8314 0.8886
84 Tuna 0.8387 0.8886
85 Halibut 0.8863 0.9280
86 String_ Bean 0.9103 0.9421
87 Colajslut 0.9604 0.9739
88 Chili_Pepper 0.9629 0.9739
89 Grape 0.9849 0.9849
Table 2 Basic Descriptive Statistics of ELISA Score by Food and Gender Comparing Depression to Control
EUSA Score
Sex Food Diagnosis N Mean SD Min Max
FEMALE Almond Control 51 4.057 1.630 1.275 8.090
Depression 84 6.053 5.372 1.210 33.082
Diff (1 -2) _ -1.996 4.360 _ _
Amer Cheese Control 51 32.961 66.654 0.100 400.00
Depression 84 31.594 42.040 1.002 244.77
Diff (1 -2) 1.367 52.660
Apple Control 51 4.793 6.600 0.100 44.163
Depression 84 4.700 5.000 0.288 29.157
Diff (1 -2) _ 0.093 5.655 _ _
Avocado Control 51 2.144 1.129 0.100 5.561
Depression 84 3.734 6.321 0.099 43.891
Diff (1 -2) _ -1.589 5.041 _ _
Banana Control 51 3.042 2.909 0.100 17.212
Depression 84 4.254 3.270 0.605 21 .544
Diff (1 -2) _ -1.212 3.139 _ _
Barley Control 51 3.867 3.919 0.100 25.1 10
Depression 84 9.751 27.814 0.504 227.10
Diff (1 -2) -5.883 22.103
Beef Control 51 9.007 12.047 1.029 81 .664
Depression 84 10.130 15.645 2.337 1 14.56
Diff (1 -2) -1.124 14.398
Blueberry Control 51 3. 33 4.712 0.100 26.459
Depression 84 3.925 2.782 0.706 17.918
Diff (1 -2) _ -0.392 3.630 _ _
Broccoli Control 51 5.21 1 4.424 0.107 29.602
Depression 84 7.516 3.766 1.31 1 26.282
Diff (1 -2) _ -2.305 4.026 _ _
Buck_Wheat Control 51 5.151 4.281 0.100 26.453
Depression 84 6.040 6.662 1.543 51 .255
Diff (1 -2) _ -0.890 5.881 _ _
Butter Control 51 17.809 24.981 0.100 150.93
Depression 84 19.850 26.939 1.776 169.07 ELiSA Score
Food Diagnosis N Mean SD Min Max
Diff ( 1 -2) _ -2.041 26.220 _ _
Cabbage Con rol 51 5.038 6.005 0.346 37.840
Dep 'ession 84 5.930 5.330 0.706 28.026
Diff < 1 -2) -0.892 5.593
Cane_Sugar Con rol 51 15.189 10.152 3.462 50.454
Dep "ession 84 25.216 32.661 4.615 273.09
Diff ( 1 -2) -10.027 26.542
Cantaloupe Con rol 51 4.707 2.368 1.153 12.761
Dep "ession 84 6.464 6.047 1.506 39.659
Diff ( 1 -2) -1.757 4.993
Carrot Con rol 51 2.702 1.549 0.100 6.945
Dep "ession 84 4.670 4.958 0.706 33.323
Diff { 1 -2) _ -1.968 4.030 _ _
Cashew Con rol 51 8.621 13.756 0.100 81 .886
Dep "ession 84 13.003 44.243 0.504 400.00
Diff < 1 -2) _ -4.382 35.954 _ _
Cauliflower Con rol 51 4.203 2.424 0.427 1 1 .768
Dep "ession 84 5.122 4.128 1.109 31 .1 16
Diff ( 1 -2) _ -0.920 3.583 _ _
Celery Con rol 51 7.815 5.561 2.058 32.827
Dep "ession 84 7.848 6.159 1.923 37.247
Diff ( 1 -2) _ -0.034 5.941 _ _
Cheddar_Ch_ Con rol 51 25.261 59.385 1.533 400.00
Dep "ession 84 25.785 46.652 0.992 271.88
Diff ( 1 -2) -0.524 51.807
Chicken Con rol 51 14.077 8.350 2.690 50.000
Depression 84 16.733 25.109 2.054 164.81
Diff ( 1 -2) -2.655 20.485
Chiii_Pepper Con rol 51 7.281 6.348 0.571 32.357
Dep 'ession 84 6.294 5.445 1.326 43.789
Diff ( 1 -2) _ 0.987 5.801 _ _
Chocolate Con rol 51 13.516 6.136 3.405 30.536
Dep "ession 84 17.719 9.93_^ 4.135 47.953
Diff ( 1 -2) -4.203 8.701 ELiSA Score
Sex Food Diagnosis N Mean SD Min Max
Cinnamon Control 51 8.317 6.347 1.490 38.804
Depression 84 10.753 1 1.058 1.169 89.952
Diff (1 -2) _ -2.436 9.563 _ _
Clam Control 51 36.890 57.603 7.452 400.00
Depression 84 26.931 27.003 4.547 171.60
Diff (1 -2) _ 9.960 41.261 _ _
Codfish Control 51 27.484 34.270 6.174 203.91
Depression 84 24.346 32.188 3.328 232.15
Diff (1 -2) 3.137 32.986
Coffee Control 51 34.003 55.076 6.732 400.00
Depression 84 28.989 44.549 3.065 312.78
Diff (1 -2) 5.014 48.774
Cola_Nut Control 51 1 1.928 5.390 2.629 27.263
Depression 84 12.964 6.626 2.521 37.735
Diff (1 -2) -1.035 6.190
Corn Control 51 7.351 5.170 2.076 27.010
Depression 84 10.825 1 1.201 1.614 71 .435
Diff (1 -2) -3.474 9.399
Cottage__Ch__ Control 51 83.139 107.442 2.1 15 400.00
Depression 84 87.213 1 17.081 3.341 400.00
Diff (1 -2) -4.074 1 13.554
CowJViilk Control 51 65.188 90.937 1.798 400.00
Depression 84 69.385 88.404 2.220 400.00
Diff (1 -2) _ -4.197 89.365 _ _
Crab Control 51 30.366 21.673 3.770 1 14.37
Depression 84 27.416 27.641 3.955 183.02
Diff (1 -2) 2.951 25.562
Cucumber Control 51 6.559 5.1 10 1.269 26.496
Depression 84 10.518 12.910 1.655 105.57
Diff (1 -2) -3.959 10.669
Egg Control 51 70.569 97.1 19 5.109 400.00
Depression 84 63.169 102.626 2.103 400.00
Diff (1 -2) 7.399 100.591
Eggplant Control 51 3.980 4.120 0.100 26.496 ELiSA Score
Food Diagnosis N Mean SD Min Max
Depression 84 4.808 4.545 0.769 31 .159
Diff (1 -2) -0.828 4.390
Garlic Control 51 8.615 4.650 0.100 23.410
Depression 84 12.491 21.359 2.825 195.76
Diff (1 -2) -3.876 17.1 12
Goat JV1 ilk Control 51 12.631 28.034 0.100 149.14
Depression 84 10.452 14.140 0.769 75.952
Diff (1 -2) 2.179 20.499
Grape Control 51 13.069 6.123 2.351 44.190
Depression 84 1 1.984 6.244 5.166 48.166
Diff (1 -2) _ 1.085 6.199 _ _
Grapefruit Control 51 3.129 1.808 0.100 8.039
Depression 84 4.425 4.535 0.473 27.688
Diff (1 -2) -1.297 3.750
Green_Pea Control 51 5.735 5.596 0.100 27.006
Depression 84 6.700 5.824 1.473 32.598
Diff (1 -2) -0.966 5.739
Green_Pepper Control 51 4.001 2.220 1.153 1 1 .464
Depression 84 4.961 3.740 0.568 28.231
Diff (1 -2) -0.960 3.253
Halibut Control 51 1 1.307 6.424 0.855 35.367
Depression 84 10.593 9.057 3.026 77.575
Diff (1 -2) 0.713 8.167
Honey Control 51 8.234 3.765 0.534 22.795
Depression 84 1 1.1 19 9.294 3.158 69.779
Diff (1 -2) _ -2.885 7.697 _ _
Lemon Control 51 2.560 1.273 0.100 6.269
Depression 84 2.960 1.809 0.100 10.352
Diff (1 -2) _ -0.400 1.628 _ _
Lettuce Control 51 9.676 5.180 3.726 27.085
Depression 84 13.809 13.075 2.919 68.1 19
Diff (1 -2) -4.133 10.807
Lima_Bean Control 51 4.955 4. 58 0.100 25.007
Depression 84 5.594 3.681 0.100 22.803 ELiSA Score
Food Diagnosis N Mean SD Min Max
Diff (1 -2) _ -0.640 3.867 _ _
Lobster Control 51 7.008 4.348 1.175 23.980
Depression 84 7.919 9.497 0.302 81 .273
Diff (1 -2) -0.910 7.962 alt Control 51 13.807 7.087 1.923 31 .196
Depression 84 17.205 10.029 3.138 64.864
Diff (1 -2) -3.399 9.036
Millet Control 51 3.883 6.158 0.100 45.888
Depression 84 3.293 1.457 0.284 7.902
Diff (1 -2) 0.590 3.947
Mushroom Control 51 22.698 22.937 1.486 106.22
Depression 84 26.098 35.501 2.596 269.25
Diff (1 -2) _ -3.399 31.374 _ _
Mustard Control 51 5.398 2.689 0.914 1 1 .657
Depression 84 6.532 5.934 1.346 51 .410
Diff (1 -2) _ -1.133 4.969 _ _
Oat Control 51 1 1.120 9.563 0.100 49.538
Depression 84 21.731 30.234 1.224 172.55
Diff (1 -2) _ -10.61 24.593 _ _
Olive Control 51 5.480 19.299 3.048 1 1 1.23
Depression 84 15.462 13.966 1.815 83.159
Diff (1 -2) _ 0.019 16.178 _ _
Onion Control 51 9.740 10.258 1.169 70.461
Depression 84 1 1.730 10.513 2.045 57.666
Diff (1 -2) -1.990 10.418
Orange Control 51 23.728 28.881 4.173 149.43
Depression 84 40.043 61.930 3.273 400.00
Diff (1 -2) -16.314 52.029
Oyster Control 51 44.125 34.722 9.622 168.93
Depression 84 47.302 55.126 2.746 365.92
Diff (1 -2) _ -3.177 48.473 _ _
Parsley Control 51 21.959 46.256 5.988 342.33
Depression 84 23.172 46.201 4.615 395.02
Diff (1 -2) -1.214 46.221 ELiSA Score
Food Diagnosis N Mean SD Min Max
Peach Con rol 51 6.507 7.491 0.100 34.647
Dep 'ession 84 10.153 13.064 0.501 86.767
Diff < 1 -2) _ -3.646 1 1.296 _ _
Peanut Con rol 51 5.445 4.273 0.100 24.233
Dep "ession 84 4.574 3.767 0.401 23.669
Diff ( 1 -2) _ 0.871 3.965 _ _
Pineapple Con rol 51 8.460 18.977 0.100 122.86
Dep "ession 84 9.496 10.815 0.301 68.963
Diff ( 1 -2) -1.036 14.435
Pinto_Bean Con rol 51 9.830 9.653 0.214 47.923
Dep "ession 84 9.690 8.769 1.519 49.208
Diff ( 1 -2) 0.140 9.1 1 1
Pork Con rol 51 15.095 8.745 4.796 44.259
Depression 84 14.848 16.951 2.105 136.08
Diff ( 1 -2) 0.247 14.424
Potato Con rol 51 8.664 2.240 4.899 14.014
Dep 'ession 84 9.829 6.551 3.530 50.433
Diff ( 1 -2) -1.165 5.354
Rice Con rol 51 18.985 14.969 4.896 73.099
Dep "ession 84 27.187 27.51 1 3.039 183.65
Diff ( 1 -2) -8.203 23.591
Rye Con rol 51 4.185 2.647 0.229 17.994
Dep "ession 84 5.528 6.331 0.568 50.541
Diff ( 1 -2) _ -1.343 5.258 _ _
Safflower Con rol 51 6.557 5.363 1.619 36.646
Depression 84 10.104 18.078 1.513 158.79
Diff { 1 -2) -3.547 14.655
Salmon Con rol 51 13.155 1 1.632 3.483 68.368
Dep 'ession 84 1 1.244 7.823 2.005 38.104
Diff < 1 -2) 1.91 1 9.437
Sardine Con rol 51 29.733 14.098 12.950 76.726
Dep 'ession 84 29.036 13.839 7.297 71 .123
Diff ( 1 -2) 0.696 13.937
Scallop Con rol 51 53.504 22.302 15.624 107.71 ELiSA Score
Food Diagnosis N Mean SD Min Max
Dep ression 84 48.185 31.160 12.400 183.38
Diff 1 -2) 5.320 28.159
Sesame Con rol 51 91.740 91.167 6.639 400.00
Dep ression 84 74.492 86.939 3.652 400.00
Diff 1 -2) 17.248 88.552
Shrimp Con rol 51 31.906 31.340 5.364 151.14
Dep ression 84 19.220 28.356 0.908 174.30
Diff 1 -2) 12.685 29.513
Sole Con rol 51 5.010 3.858 0.229 29.089
Dep ression 84 5.160 3.607 0.568 32.149
Diff 1 -2) _ -0.151 3.703 _ _
Soybean Con rol 51 14.277 10.254 4.153 51 .573
Depression 84 20.340 45.681 1.412 330.35
Diff 1 -2) -6.063 36.631
Spinach Con rol 51 20.914 15.580 3.294 66.869
Dep ression 84 19.305 19.975 3.530 1 12.21
Diff 1 -2) 1.609 18.446
Squashes Con rol 51 5.697 2.997 2.054 13.836
Dep ression 84 7.591 7.642 1.461 61 .130
Diff 1 -2) -1.895 6.31 1
Strawberry Con rol 51 4.585 4.756 0.107 27.904
Dep ression 84 5.668 8.1 19 0.288 71 .144
Diff 1 -2) -1.083 7.046
String_Bean Con rol 51 34.495 21.1 14 12.544 94.207
Dep ression 84 33.201 17.652 6.617 91 .525
Diff 1 -2) _ 1.294 19.028 _ _
Sunflower_Sd Con rol 51 7.402 4.308 1.487 21 .171
Dep ression 84 8.016 5.975 1.420 42.615
Diff 1 -2) _ -0.614 5.409 _ _
Sweet_Pot_ Con rol 51 13.319 8.694 4.463 53.650
Dep ression 84 17.751 42.527 3.013 387.79
Diff 1 -2) -4.432 34.016
Swiss__Ch__ Con rol 51 37.893 78.801 1.486 400.00
Dep "ession 84 32.905 56.882 1.422 369.23 ELiSA Score
Food Diagnosis N Mean SD Min Max
Diff ( 1 -2) _ 4.988 65.982 _ _
Tea Con rol 51 19.459 7.609 8.932 38.009
Dep 'ession 84 23.868 1 1.404 7.392 60.568
Diff < 1 -2) -4.409 10.145
Tobacco Con rol 51 28.550 13.486 7.878 65.658
Dep "ession 84 40.993 33.443 6.961 266.42
Diff ( 1 -2) -12.443 27.683
Tomato Con rol 51 7.412 5.926 1.915 30.764
Dep "ession 84 1 1.842 14.852 1.052 121.09
Diff ( 1 -2) -4.430 12.283
Trout Con rol 51 15.254 16.016 3.000 93.127
Dep "ession 84 15.204 32.133 2.467 297.84
Diff { 1 -2) _ 0.050 27.217 _ _
Tuna Con rol 51 8.129 6.362 3.048 33.878
Dep "ession 84 7.920 7.040 1.504 42.894
Diff ( 1 -2) _ 0.209 6.793 _ _
Turkey Con rol 51 1 1.859 5.301 4.489 28.920
Dep "ession 84 14.418 17.255 1.403 130.49
Diff ( 1 -2) _ -2.559 14.013 _ _
Walnut_Blk Con rol 51 19.796 13.830 5.668 79.531
Dep "ession 84 22.704 21.647 4.188 147.49
Diff ( 1 -2) _ -2.908 19.088 _ _
Wheat Con rol 51 14.031 16.566 3.201 1 16.33
Dep "ession 84 20.865 46.543 1.987 400.00
Diff ( 1 -2) -6.834 38.145
Yeast_Baker Con rol 51 6.905 4.321 2.226 24.959
Depression 84 1 1.196 14.140 1.002 90.740
Diff ( 1 -2) -4.292 1 1.480
Yeast_Brewer Con rol 51 9.946 8.059 1.486 37.536
Dep 'ession 84 16.898 21.682 2.220 133.32
Diff ( 1 -2) _ -6.952 17.827 _ _
Yogurt Con rol 51 19.256 34.792 0.100 223.20
Dep "ession 84 14.529 14.602 1.285 58.971
Diff ( 1 -2) 4.727 24.252 ELiSA Score
Food Diagnosis N Mean SD Min Max
Almond Con rol 81 4.956 2.457 1.604 14.845
Dep 'ession 30 19.240 48.521 2.209 261.78
Diff ( 1 -2) _ -14.284 25.1 16 _ _
Amer Cheese Con rol 81 33.623 47.729 1.71 1 234.20
Dep "ession 30 70.293 104.273 0.100 388.88
Diff ( 1 -2) _ -36.670 67.563 _ _
Apple Con rol 81 4.768 4.226 0.994 30.1 13
Dep "ession 30 10.226 17.862 1.473 91 .492
Diff ( 1 -2) -5.457 9.899
Avocado Con rol 81 2.949 2.085 0.201 15.507
Dep "ession 30 4.977 6.902 0.670 29.430
Diff ( 1 -2) -2.028 3.983
Banana Con rol 81 4.016 5.530 0.805 48.427
Depression 30 7.836 9.483 1.531 40.890
Diff ( 1 -2) -3.820 6.810
Barley Con rol 81 9.009 35.683 1.081 324.19
Dep 'ession 30 15.659 45.746 1.435 254.23
Diff ( 1 -2) -6.650 38.617
Beef Con rol 81 10.821 19.739 2.369 162.33
Dep "ession 30 19.620 24.830 3.199 123.25
Diff ( 1 -2) -8.799 21.213
Blueberry Con rol 81 3.790 2.257 0.883 12.559
Dep "ession 30 5.614 5.070 1.031 26.070
Diff ( 1 -2) _ -1.824 3.253 _ _
Broccoli Con rol 81 7.175 5.132 2.098 30.727
Depression 30 18.338 44.970 2.251 250.15
Diff { 1 -2) -1 1.163 23.609
Buck_Wheat Con rol 81 5.548 3.014 1.667 23.702
Dep 'ession 30 9.870 9.819 2.762 54.212
Diff < 1 -2) -4.323 5.685
Butter Con rol 81 16.652 19.179 1.546 93.145
Dep 'ession 30 39.899 44.616 3.213 189.16
Diff ( 1 -2) -23.246 28.277
Cabbage Con rol 81 5.952 10.81 1 0.985 94.740 ELiSA Score
Food Diagnosis N Mean SD Min Max
Depression 30 20.647 62.792 1.244 347.26
Diff (1 -2) -14.695 33.687
Cane_Sugar Control 81 23.047 28.025 3.898 170.78
Depression 30 30.241 26.558 5.441 131.80
Diff (1 -2) -7.194 27.642
Cantaloupe Control 81 5.879 4.368 1.965 29.569
Depression 30 19.244 52.306 2.967 288.31
Diff (1 -2) -13.366 27.238
Carrot Control 81 4.016 3.787 1.177 27.684
Depression 30 8.228 10.884 1.148 46.973
Diff (1 -2) _ -4.212 6.484 _ _
Cashew Control 81 9.724 1 1.603 1.020 59.196
Depression 30 1 1.345 20.757 1.148 1 14.69
Diff (1 -2) -1.621 14.609
Cauliflower Control 81 4.865 3.698 1.514 24.163
Depression 30 17.389 53.615 1.531 296.98
Diff (1 -2) -12.524 27.836
Celery Control 81 8.967 5.476 2.947 34.787
Depression 30 20.042 50.509 3.677 284.26
Diff (1 -2) -1 1.075 26.472
Cheddar__Ch__ Control 81 26.696 45.931 1.690 283.73
Depression 30 73.052 1 17.039 3.478 400.00
Diff (1 -2) -46.355 72.061
Chicken Control 81 16.054 12.550 2.942 76.881
Depression 30 18.502 12.193 4.671 47.618
Diff (1 -2) _ -2.449 12.456 _ _
Chili__Pepper Control 81 7.835 5.613 1.569 38.045
Depression 30 1 1.129 16.881 1.856 96.246
Diff (1 -2) _ -3.295 9.947 _ _
Chocolate Control 81 16.623 1 1.019 3.007 59.473
Depression 30 22.913 15.578 4.307 70.958
Diff (1 -2) -6.289 12.397
Cinnamon Control 81 9.850 7.037 1.640 40.477
Depression 30 12.445 8.317 1.133 30.988 ELiSA Score
Food Diagnosis N Mean SD Min Max
Diff ( 1 -2) _ -2.595 7.399 _ _
Clam Con rol 81 33.566 20.277 3.189 98.482
Dep 'ession 30 36.898 54.757 9.750 318.14
Diff ( 1 -2) -3.332 33.159
Codfish Con rol 81 25.075 33.650 6.487 277.17
Dep "ession 30 45.890 73.290 7.959 400.00
Diff ( 1 -2) -20.815 47.541
Coffee Con rol 81 30.318 43.408 4.323 356.95
Dep "ession 30 53.598 98.346 5.268 400.00
Diff ( 1 -2) -23.280 62.898
Cola_Ni!t Con rol 81 15.243 8.049 4.084 38.816
Dep "ession 30 16.580 9.872 4.987 50.994
Diff { 1 -2) _ -1.337 8.572 _ _
Corn Con rol 81 9.923 12.544 2.358 95.512
Dep "ession 30 29.487 48.938 2.297 185.58
Diff ( 1 -2) _ -19.564 27.435 _ _
Cottage_Ch_ Con rol 81 76.631 102.973 1.207 400.00
Dep "ession 30 140.923 154.222 5.851 400.00
Diff ( 1 -2) _ -64.292 1 18.787 _ _
CowJViilk Con rol 81 60.822 83.166 1.767 400.00
Dep "ession 30 131.551 144.182 4.282 400.00
Diff ( 1 -2) _ -70.728 102.991 _ _
Crab Con rol 81 32.448 37.288 4.765 299.1 1
Dep "ession 30 36.378 35.136 7.680 194.02
Diff ( 1 -2) -3.930 36.728
Cucumber Con rol 81 8.752 8.584 1.877 61 .859
Depression 30 28.024 60.943 2.830 320.56
Diff ( 1 -2) -19.272 32.284
Egg Con rol 81 62.505 92.408 3.785 400.00
Dep 'ession 30 85.498 1 16.862 3.215 400.00
Diff ( 1 -2) _ -22.994 99.503 _ _
Eggplant Con rol 81 5.045 5.910 1.367 48.789
Dep "ession 30 10.459 16.348 1.603 70.249
Diff ( 1 -2) -5.414 9.836 ELiSA Score
Food Diagnosis N Mean SD Min Max
Garlic Control 81 1 1.918 9.606 3.041 52.161
Depression 30 14.955 16.035 2.834 88.234
Diff (1 -2) _ -3.037 1 1.668 _ _
Goat_Miik Control 81 1 1.176 16.325 0.503 96.689
Depression 30 35.670 59.210 1.879 210.41
Diff (1 -2) _ -24.493 33.591 _ _
Grape Control 81 15.645 5.750 8.058 47.251
Depression 30 21.674 38.577 4.906 221.13
Diff (1 -2) -6.029 20.499
Grapefruit Control 81 4.255 3.962 0.807 32.913
Depression 30 1 1.231 30.159 0.957 163.43
Diff (1 -2) -6.976 15.922
Green__Pea Control 81 7.021 6.334 1.020 35. 95
Depression 30 9.031 6.837 1.818 30.562
Diff (1 -2) -2.010 6.471
Green_Pepper Control 81 4.715 3.713 1.656 32.327
Depression 30 14.672 46.012 0.957 256.35
Diff (1 -2) -9.956 23.945
Halibut Control 81 14.289 15.877 4.414 135.74
Depression 30 19.259 22.743 4.874 96.737
Diff (1 -2) -4.970 17.962
Honey Control 81 10.351 5.1 1 1 2.733 29.823
Depression 30 14.751 10.807 3.490 51 .631
Diff (1 -2) _ -4.400 7.089 _ _
Lemon Control 81 3.050 2.460 0.201 20.655
Depression 30 4.648 6.262 0.377 26.648
Diff (1 -2) -1.598 3.857
Lettuce Control 81 12.814 7.663 3.734 39.966
Depression 30 27.973 42.368 4.151 21 1.92
Diff (1 -2) -15.159 22.818
Lima_Bean Control 81 6.294 5.248 1.546 35.107
Depression 30 8.145 7.785 0.928 36.538
Diff (1 -2) -1.851 6.028
Lobster Control 81 9.455 6.640 1.31 1 41 .983 ELiSA Score
Food Diagnosis N Mean SD Min Max
Depression 30 8.91 1 6.106 2.808 26.300
Diff (1 -2) 0.544 6.502
Malt Control 81 15.173 8.267 2.551 51 .285
Depression 30 20.386 1 1.297 6.461 53.1 1 1
Diff (1 -2) -5.213 9.171
Millet Control 81 4.065 4.304 1.435 40.360
Depression 30 4.712 2.347 1.340 9.527
Diff (1 -2) -0.647 3.881
Mushroom Control 81 27.235 27.375 2.824 1 18.76
Depression 30 32.179 33.673 4.434 131.33
Diff (1 -2) _ -4.944 29.184 _ _
Mustard Control 81 6.992 4.301 1.947 30.771
Depression 30 16.454 41.250 2.547 233.06
Diff (1 -2) -9.462 21.593
Oat Control 81 18.201 20.144 1.176 88.428
Depression 30 32.643 54.940 0.567 294.01
Diff (1 -2) -14.442 33.180
Olive Control 81 17.589 31.696 3.554 281.30
Depression 30 41.626 68.210 4.194 274.07
Diff (1 -2) -24.037 44.443
Onion Control 81 13.450 23.822 2.271 210.93
Depression 30 39.203 83.172 1.698 400.00
Diff (1 -2) -25.753 47.508
Orange Control 81 26.423 37.325 2.824 314.77
Depression 30 59.267 67.356 5.328 279.36
Diff (1 -2) _ -32.843 47.218 _ _
Oyster Control 81 49.594 42.026 7.658 250.39
Depression 30 101.583 81.794 9.637 278.65
Diff (1 -2) _ -51.989 55.464 _ _
Parsley Control 81 17.745 7.652 5.298 59.623
Depression 30 32.472 53.175 9.491 303.98
Diff (1 -2) -14.727 28.201
Peach Control 81 10.414 10.155 1.913 53.125
Depression 30 17.293 21.222 1.415 80.424 ELiSA Score
Sex Food Diagnosis N Mean SD Min Max
Diff (1 -2) _ -6.880 13.983 _ _
Peanut Control 81 5.730 9.913 1.223 89.273
Depression 30 12.104 22.293 1.340 102.94
Diff (1 -2) -6.374 14.295
Pineapple Control 81 12.433 44.326 1.660 400.00
Depression 30 22.446 42. 74 0.943 21 1.16
Diff (1 -2) -10.013 43.764
Pinto__Bean Control 81 9.370 6.088 1.998 33.952
Depression 30 26.024 65.400 3.067 359.76
Diff (1 -2) -16.653 34.135
Pork Control 81 16.675 14.641 4.198 89.423
Depression 30 15.489 8.675 4.774 38.269
Diff (1 -2) _ 1.186 13.317 _ _
Potato Control 81 12.243 8.339 4.922 75.768
Depression 30 25.142 68.240 2.830 383.04
Diff (1 -2) _ -12.899 35.916 _ _
Rice Control 81 24.230 16.518 4.815 79.625
Depression 30 39.755 72.482 5.189 400.00
Diff (1 -2) _ -15.525 39.975 _ _
Rye Control 81 5.122 3.376 1.569 23.489
Depression 30 9.176 9.594 1.341 46.668
Diff (1 -2) _ -4.055 5.732 _ _
Safflower Control 81 7.553 4.020 2.452 27.492
Depression 30 10.295 8.332 2.169 35.466
Diff (1 -2) -2.742 5.507
Salmon Control 81 16.307 15.972 0.100 136.52
Depression 30 17.538 32.725 4.563 188.91
Diff (1 -2) -1.231 21.730
Sardine Control 81 33.099 14.613 7.838 87.492
Depression 30 34.1 14 16.377 10.600 91 .647
Diff (1 -2) _ -1.015 15.103 _ _
Scallop Control 81 50.308 23.097 1 1.061 1 16.33
Depression 30 49.327 18.669 26.003 105.18
Diff (1 -2) 0.980 22.006 ELiSA Score
Food Diagnosis N Mean SD Min Max
Sesame Control 81 73.449 87.622 3.433 400.00
Depression 30 87.565 1 19.362 6.227 400.00
Diff (1 -2) _ -14.1 16 97.085 _ _
Shrimp Control 81 34.185 40.052 2.925 272.28
Depression 30 23.914 41.579 4.681 236.84
Diff (1 -2) _ 10.271 40.464 _ _
Sole Control 81 5.290 2.521 2.243 20.373
Depression 30 5.586 2.457 2.166 10.613
Diff (1 -2) -0.296 2.504
Soybean Control 81 16.814 12.312 3.479 81 .383
Depression 30 43.489 82.869 5.580 400.00
Diff (1 -2) -26.676 44.026
Spinach Control 81 14.620 6.503 5.378 40.130
Depression 30 33.807 70.886 6.133 400.00
Diff (1 -2) -19.188 36.985
Squashes Control 81 7.200 4.790 2.259 24.675
Depression 30 21.468 64.320 1.981 357.62
Diff (1 -2) -14.268 33.430
Strawberry Control 81 5.073 4.417 1.002 29.163
Depression 30 25.236 73.898 1.341 400.00
Diff (1 -2) -20.163 38.305
String_Bean Control 81 37.257 22.322 7.894 146.17
Depression 30 43.417 25.642 12.241 129.91
Diff (1 -2) _ -6.160 23.252 _ _
Sunflower_Sd Control 81 8.566 5.303 2.451 31 .256
Depression 30 18.573 40.806 2.888 231.71
Diff (1 -2) -10.007 21.533
Sweet_Pot_ Control 81 17.536 13.698 4.101 74.660
Depression 30 28.901 43.655 2.735 230.69
Diff (1 -2) -1 1.365 25.392
Swiss_Ch_ Control 81 35.608 58.963 2.010 299.50
Depression 30 88.439 135.669 3.237 400.00
Diff (1 -2) -52.831 86.306
Tea Control 81 23.966 9.868 7.617 46.395 ELiSA Score
Sex Food Diagnosis N Mean SD Min Max
Depression 30 31.665 19.407 8.589 101.02
Diff (1 -2) -7.699 13.102
Tobacco Control 81 36.231 21.642 8.831 125.93
Depression 30 61.161 58.497 1 1.649 312.01
Diff (1 -2) -24.930 35.414
Tomato Control 81 9.199 6.995 2.319 40.933
Depression 30 42.152 95.827 1.509 400.00
Diff (1 -2) -32.953 49.790
Trout Control 81 14.686 9.992 3.220 83.963
Depression 30 19.945 42.469 2.207 242.68
Diff (1 -2) _ -5.259 23.519 _ _
Tuna Control 81 8.305 6.513 2.1 10 39.025
Depression 30 8.443 7.910 1.428 36.792
Diff (1 -2) -0.138 6.912
Turkey Control 81 14.012 1 1.1 16 4.079 65.177
Depression 30 13.494 8.545 5.336 39.414
Diff (1 -2) 0.518 10.494
Wainut_Blk Control 81 20.821 10.402 5.682 58.466
Depression 30 35.105 71.023 7.028 400.00
Diff (1 -2) -14.284 37.702
Wheat Control 81 13.359 10.034 3.237 71 .930
Depression 30 38.088 73.346 4.815 352.91
Diff (1 -2) -24.729 38.796
Yeast_Baker Control 81 12.471 20.370 2.073 123.35
Depression 30 18.870 30.129 1.132 127.47
Diff (1 -2) _ -6.399 23.368 _ _
Yeast_Brewer Control 81 15.903 21.143 2.642 130.89
Depression 30 29.020 52.876 1.603 246.75
Diff (1 -2) _ -13.1 17 32.741 _ _
Yogurt Control 81 15.651 16.295 3.004 73.200
Depression 30 42.777 72.527 4.245 327.88
Diff (1 -2) _ -27.126 39.930 _ _
Table 3 Upper Quantiles of ELISA Signal Scores among Controi Subjects as Candidates for Test Outpoints in Determining "Positive" or "Negative"
Top 26 Foods Ranked by Descending order of Discriminatory Ability using Permutation Test
Depression Subjects vs. Controls
Outpoint
90th 95th
Food Ranking Food Sex 1 percentile percentile
1 Almond FEMALE 6.387 7.229
MALE 8.201 10.364
2 Tomato FEMALE 12.707 20.229
MALE 16.458 23.901
3 Tobacco FEMALE 46.676 52.120
MALE 66. 08 81 .270
4 Carrot FEMALE 5.028 6.030
MALE 6.547 9.472
5 Orange FEMALE 58.970 90.702
MALE 47.782 67.581
6 Cucumber FEMALE 12.530 18.094
MALE 16.1 17 22.938
7 Broccoli FEMALE 9.078 12.242
MALE 13.227 17.923
8 Lettuce FEMALE 17.214 21 .301
MALE 23.159 30.500
9 Malt FEMALE 24.428 26.838
MALE 26.135 30.793
10 Cantaloupe FEMALE 7.816 9.816
MALE 10.244 14.900
1 1 Corn FEMALE 13.133 19.396
MALE 16.893 27.942
12 Wheat FEMALE 22.473 39.657
MALE 23.851 30.952
13 Honey FEMALE 12.418 14.289
MALE 17.319 20.797
14 Chocolate FEMALE 22.428 24.874
MALE 31.758 37.652
15 Oat FEMALE 22.737 27.403 Outpoint 90th 95th
Food Ranking Food Sex / ercenti!e percentile
MALE 52,310 63.866
16 Avocado FEMALE 3.604 4.378
MALE 4.620 6.230
17 Rye FEMALE 6.138 8.899
MALE 8.345 1 1 .849
18 Strawberry FEMALE 8.038 14.219
MALE 9.266 13.944
19 Cauliflower FEMALE 7.651 9.029
MALE 7.718 12.080
20 Safflower FEMALE 10.386 16.047
MALE 1 1.748 14.739
21 Tea FEMALE 29.842 33.214
MALE 37.508 42.162
22 Banana FEMALE 5.442 9.272
MALE 6.610 10.019
23 Squashes FEMALE 10.270 1 1 .945
MALE 13.571 18.431
24 Green_Pepper FEMALE 6.908 8.215
MALE 7.040 9.133
25 Butter FEMALE 40.015 66.921
MALE 44.018 61 .716
26 Buck_Wheat FEMALE 9.667 13.975
MALE 8.502 10.282
Table 4 OE-P tSSi POPUL 'JiON NON DEPRESSION POPULATION
# of Positive # of Positive Results Based on Results Based on
Sample ID 90th Percentile Sample ID 90th Percentile
171081AAB0001 0 BRH1244994 2
171081AAB0002 0 BRH1244995 0
171081AAB0003 4 BRH1244996 1
171081AAB0004 0 BRH1244997 0
171081AAB0005 5 BRH1244998 3
171081AAB0006 1 BRH1244999 0
171081AAB0008 3 BRH1245000 1
171081AAB0009 5 BRH1245001 0
171081AAB0010 0 BRH1245002 1
171081AAB0011 3 BRH1245004 0
171081AAB0012 5 BRH1245007 0
171081AAB0014 18 BRH1245008 0
171081AAB0015 1 BRH1245009 3
171081AAB0016 5 BRH1245010 4
171081AAB0017 11 BRH1245011 4
171081AAB0018 7 BRH1245014 0
171081AAB0019 1 BRH1245015 0
171081AAB0020 1 BRH1245018 1
171081AAB0022 7 BRH1245019 0
171081AAB0023 1 BRH1245022 11
171081AAB0025 0 BRH1245023 1
171081AAB0027 18 BRH1245024 2
171081AAB0028 8 BRH1245026 4
171081AAB0029 11 BRH1245029 0
171081AAB0030 2 BRH1245030 0
171081AAB0032 7 BRH1245031 3
171081AAB0033 19 BRH1245032 1
171081AAB0037 4 BRH1245033 0
171081AAB0039 1 BRH1245035 0
171081AAB0040 8 BRH1245037 0
171081AAB0043 0 BRH1245038 0
171081AAB0044 13 BRH1245039 11
171081AAB0045 0 BRH1245040 2
171081AAB0046 0 BRH1245041 2
171081AAB0047 7 BRH1267328 12
171081AAB0049 18 BRH1267329 1
171146AAB0002 0 BRH1267330 0
171146AAB0003 4 BRH1267332 0 OE-P tSSi ΡϋΡυΐΛΐ ϋΝ NON DEPRESSION POPULATION
# of Positive # of Positive Results Based on Results Based on
Sample ID 90th Percentile Sample ID 90th Percentile
171146AAB0004 2 BRH1267333 0
171146AAB0005 1 BRH1267334 12
171146AAB0006 1 BRH1267335 3
171146AAB0007 0 BRH1267337 0
171146AAB0008 6 BRH1267338 0
171146AAB0009 7 BRH1267339 1
171146AAB0010 1 BRH1267340 6
171146AAB0011 14 BRH1267341 0
171146AAB0013 1 BRH1267343 3
171146AAB0014 3 BRH1267345 0
171146AAB0015 4 BRH1267346 0
171146AAB0016 0 BRH1267347 0
171146AAB0017 3 BRH1267349 0
171146AAB0018 5 BRH1244900 0
171146AAB0019 11 BRH1244901 6
171146AAB0020 2 BRH1244902 0
171146AAB0021 7 BRH1244903 0
171146AAB0022 11 BRH1244904 1
171146AAB0023 7 BRH1244905 0
171146AAB0025 3 BRH1244906 11
171146AAB0026 1 BRH1244907 0
171146AAB0027 2 BRH1244908 1
171146AAB0028 12 BRH1244909 0
171146AAB0029 0 BRH1244910 3
171146AAB0030 0 BRH1244911 2
171146AAB0031 1 BRH1244912 1
171146AAB0032 4 BRH1244913 0
171146AAB0033 0 BRH1244914 7
171146AAB0036 7 BRH1244915 1
BRH1339646 0 BRH1244916 14
BRH1339647 2 BRH1244917 11
BRH1339648 1 BRH1244918 0
BRH1339649 0 BRH1244920 2
BRH1339650 0 BRH1244921 0
BRH1339655 6 BRH1244922 14
BRH1339657 1 BRH1244923 1
BRH1339658 2 BRH1244924 0
BRH1339659 0 BRH1244925 1
BRH1339660 0 BRH1244926 10 OE-P tSSi ΡϋΡυΐΛΐ ϋΝ NON DEPRESSION POPULATION
# of Positive # of Positive Results Based on Results Based on
Sample ID 90th Percentile Sample ID 90th Percentile
BRH1339662 0 BRH1244928 1
BRH1339664 6 BRH1244929 3
BRH1339666 0 BRH1244931 0
BRH1339667 0 BRH1244932 2
BRH1339668 4 BRH1244933 4
BRH1339669 20 BRH1244934 2
BRH1339670 1 BRH1244938 4
171081AAB0007 17 BRH1244939 0
171081AAB0013 2 BRH1244940 0
171081AAB0021 9 BRH1244941 0
171081AAB0024 7 BRH1244942 4
171081AAB0026 11 BRH1244943 1
171081AAB0031 18 BRH1244944 10
171081AAB0034 14 BRH1244945 1
171081AAB0035 2 BRH1244946 5
171081AAB0036 0 BRH1244947 0
171081AAB0038 7 BRH1244948 0
171081AAB0041 0 BRH1244949 1
171081AAB0042 2 BRH1244950 0
171081AAB0048 0 BRH1244951 0
171081AAB0050 1 BRH1244952 0
171146AAB0012 0 BRH1244953 1
171146AAB0024 0 BRH1244954 0
171146AAB0034 16 BRH1244956 18
171146AAB0035 7 BRH1244959 1
171146AAB0037 6 BRH1244960 0
171146AAB0038 1 BRH1244961 0
171146AAB0039 0 BRH1244962 0
171146AAB0040 2 BRH1244963 0
BRH1339651 7 BRH1244964 5
BRH1339652 0 BRH1244965 0
BRH1339653 0 BRH1244967 0
BRH1339654 14 BRH1244969 0
BRH1339656 1 BRH1244970 1
BRH1339661 2 BRH1244971 1
BRH1339663 1 BRH1244972 0
BRH1339665 0 BRH1244973 2
BRH1244974 0
No of 114 BRH1244975 0
Figure imgf000053_0001
No of
Observations 132
Average umber 2.0
Median Number 0
# of Patients w/ 0
Pos Results 68
% Subjects w/ 0
pos results 51.5
Table 5A OE-P tSSi POPUL 'JiON NON DEPRESSION POPULATION
# of Positive # of Positive Results Based on Results Based on
Sample ID 95th Percentile Sample ID 95th Percentile
171081AAB0001 0 BRH1244994 0
171081AAB0002 0 BRH1244995 0
171081AAB0003 1 BRH1244996 0
171081AAB0004 0 BRH1244997 0
171081AAB0005 1 BRH1244998 2
171081AAB0006 1 BRH1244999 0
171081AAB0008 2 BRH1245000 1
171081AAB0009 4 BRH1245001 0
171081AAB0010 0 BRH1245002 0
171081AAB0011 3 BRH1245004 0
171081AAB0012 1 BRH1245007 0
171081AAB0014 15 BRH1245008 0
171081AAB0015 1 BRH1245009 1
171081AAB0016 4 BRH1245010 2
171081AAB0017 5 BRH1245011 2
171081AAB0018 3 BRH1245014 0
171081AAB0019 1 BRH1245015 0
171081AAB0020 1 BRH1245018 1
171081AAB0022 3 BRH1245019 0
171081AAB0023 0 BRH1245022 5
171081AAB0025 0 BRH1245023 1
171081AAB0027 12 BRH1245024 1
171081AAB0028 6 BRH1245026 3
171081AAB0029 6 BRH1245029 0
171081AAB0030 0 BRH1245030 0
171081AAB0032 5 BRH1245031 0
171081AAB0033 17 BRH1245032 0
171081AAB0037 1 BRH1245033 0
171081AAB0039 0 BRH1245035 0
171081AAB0040 7 BRH1245037 0
171081AAB0043 0 BRH1245038 0
171081AAB0044 11 BRH1245039 7
171081AAB0045 0 BRH1245040 1
171081AAB0046 0 BRH1245041 0
171081AAB0047 6 BRH1267328 8
171081AAB0049 9 BRH1267329 0
171146AAB0002 0 BRH1267330 0
171146AAB0003 1 BRH1267332 0 OE-P tSSi ΡϋΡυΐΛΐ ϋΝ NON DEPRESSION POPULATION
# of Positive # of Positive Results Based on Results Based on
Sample ID 95th Percentile Sample ID 95th Percentile
171146AAB0004 2 BRH1267333 0
171146AAB0005 0 BRH1267334 8
171146AAB0006 0 BRH1267335 2
171146AAB0007 0 BRH1267337 0
171146AAB0008 3 BRH1267338 0
171146AAB0009 5 BRH1267339 0
171146AAB0010 0 BRH1267340 4
171146AAB0011 9 BRH1267341 0
171146AAB0013 0 BRH1267343 2
171146AAB0014 1 BRH1267345 0
171146AAB0015 0 BRH1267346 0
171146AAB0016 0 BRH1267347 0
171146AAB0017 1 BRH1267349 0
171146AAB0018 2 BRH1244900 0
171146AAB0019 8 BRH1244901 3
171146AAB0020 1 BRH1244902 0
171146AAB0021 4 BRH1244903 0
171146AAB0022 8 BRH1244904 0
171146AAB0023 6 BRH1244905 0
171146AAB0025 2 BRH1244906 7
171146AAB0026 1 BRH1244907 0
171146AAB0027 1 BRH1244908 1
171146AAB0028 9 BRH1244909 0
171146AAB0029 0 BRH1244910 1
171146AAB0030 0 BRH1244911 1
171146AAB0031 0 BRH1244912 0
171146AAB0032 4 BRH1244913 0
171146AAB0033 0 BRH1244914 3
171146AAB0036 2 BRH1244915 0
BRH1339646 0 BRH1244916 9
BRH1339647 1 BRH1244917 4
BRH1339648 0 BRH1244918 0
BRH1339649 0 BRH1244920 1
BRH1339650 0 BRH1244921 0
BRH1339655 4 BRH1244922 11
BRH1339657 1 BRH1244923 0
BRH1339658 1 BRH1244924 0
BRH1339659 0 BRH1244925 1
BRH1339660 0 BRH1244926 9 OE-P tSSi ΡϋΡυΐΛΐ ϋΝ NON DEPRESSION POPULATION
# of Positive # of Positive Results Based on Results Based on
Sample ID 95th Percentile Sample ID 95th Percentile
BRH1339662 0 BRH1244928 0
BRH1339664 6 BRH1244929 1
BRH1339666 0 BRH1244931 0
BRH1339667 0 BRH1244932 0
BRH1339668 2 BRH1244933 3
BRH1339669 20 BRH1244934 1
BRH1339670 0 BRH1244938 1
171081AAB0007 17 BRH1244939 0
171081AAB0013 2 BRH1244940 0
171081AAB0021 4 BRH1244941 0
171081AAB0024 6 BRH1244942 3
171081AAB0026 10 BRH1244943 1
171081AAB0031 17 BRH1244944 3
171081AAB0034 13 BRH1244945 1
171081AAB0035 0 BRH1244946 3
171081AAB0036 0 BRH1244947 0
171081AAB0038 2 BRH1244948 0
171081AAB0041 0 BRH1244949 0
171081AAB0042 2 BRH1244950 0
171081AAB0048 0 BRH1244951 0
171081AAB0050 1 BRH1244952 0
171146AAB0012 0 BRH1244953 1
171146AAB0024 0 BRH1244954 0
171146AAB0034 12 BRH1244956 13
171146AAB0035 2 BRH1244959 0
171146AAB0037 2 BRH1244960 0
171146AAB0038 1 BRH1244961 0
171146AAB0039 0 BRH1244962 0
171146AAB0040 2 BRH1244963 0
BRH1339651 5 BRH1244964 3
BRH1339652 0 BRH1244965 0
BRH1339653 0 BRH1244967 0
BRH1339654 12 BRH1244969 0
BRH1339656 0 BRH1244970 0
BRH1339661 1 BRH1244971 0
BRH1339663 0 BRH1244972 0
BRH1339665 0 BRH1244973 0
BRH1244974 0
No of 114 BRH1244975 0
Figure imgf000057_0001
No of
Observations 132
Average umber 1.1
Median Number 0
# of Patients w/ 0
Pos Results 88
% Subjects w/ 0
pos results 66.7
Table 5B Sum roar¾f statistics
Qepre5Siari_§Ot?3_pefcenti!«
Figure imgf000058_0001
D'Agcslino-Pefffsoa tes:
Figure imgf000058_0002
Table 6 A
Summary statistics
Os p:res s ie«_95th_ peree nil e
Figure imgf000059_0001
Table 6B
Summary statistics
Figure imgf000060_0001
Table 7Α
Figure imgf000061_0001
Table 7B
Summary statistics
Va s as: Depression S0¾ pefcentite
Oi&pression 30th p&rcentiie 1 \ j Back-transformed sfier logarithmic tansformatfo®.
Figure imgf000062_0001
Table 8A
Summary statistics
08 rsss:!Ofi__9:Sth__pe:ce:n:tile__1 j j Depression 55th percenlii 1 i 8ack-tr»a sformed after logarithmic transformation.
Figure imgf000063_0001
Table 8B
Summary statistics
on_Depress½> >3_90th_pe: "ceatilie 1
1111111111111111111111111111 CR-Dspf8SSi0f 3 30th p&fc
Back-transfsrmed after logarithmic trsfjsformation.
Figure imgf000064_0001
Table 9 A
Summary statistics
Variable oi __D 8 pr e ss:ios_3:5 ft p er e n le__ 1
Mon-Depressies SSth perc««tt!e_1
Back-transformed after logafShmic traasfofmaior?
Figure imgf000065_0001
Table 9B
inde endent sam les t-tesi
Figure imgf000066_0001
T-test f assuming equal ariance si
Figure imgf000066_0002
Table 10A
independent samples t-test
Figure imgf000067_0001
1 F-isBt f c " fe^iia vafis F == 0 IBS '
T-test {ass uming equal variances J
Figure imgf000067_0002
Table lOB
Mann- Whitney test {independent samples)
Depression SOt ^percentile
Depressian 9£ft sifcsntiii
Sample 2
Variable on Dspre ssion
N on -Depression S¾l perce tile
j Sample 1 Sam le 2
Sample sirs 1111111111 114 132 ΰΰΰΰϋ ϋ ΰΰΰϋ
H g ; t 3 ο 2ih&00O ' 18 &00O
Indian 1111111111 oS
0000 !o4 OC OO * € 0000 ίο θΰδΰ if srquar'le ra gs 0 iiooto' ? ¥o " OQQOO to 2.S00O
Mann-Whitney test f independent samples}
Average :a n of fa st go u ρ Mann- Hiney U
Test statistic Z (csfr&cteti fir ties;
Tsfo-tailed probability
Table 11 A
Mann-Whitney test {independent samplesj
Figure imgf000069_0001
ann -¥ Whitney test ( independent s amples}
Figure imgf000069_0002
Table I I B
Figure imgf000070_0001
Table 12 A
R OC « ve
Figure imgf000071_0001
" Diagnosis '1_D:epi"essson_0_MoB_Depfessiof"_ = 0
Area under the ROC curve {ADC}
Figure imgf000071_0002
Yosjden index
G.2719
55% Confidence nter si *
>0
Ssssfeity
Spscilkiy SSJ67
" BCs SooisSrsp corifiiisrics rteivai (1009 Sers ails; raadom narrSer seed: 978).
Table 12B
Performance Metrics in Predicting Depression Status from Number of Positive Foods Using 90th Percentile of ELISA Signal to determine Positive
No. of Positive Negative Overall Positive Foods Predictive Predictive Percent Sex as Cutoff Sensitivity Specificity Value Value Agreement
FEMALE 1 0.83 0.39 0.69 0.59 0.66
2 0.70 0.56 0.72 0.53 0.65
3 0.58 0.67 0.74 0.50 0.62
4 0.51 0.72 0.75 0.47 0.59
5 0.45 0.76 0.76 0.46 0.57
6 0.41 0.81 0.78 0.45 0.56
7 0.35 0.85 0.79 0.44 0.54
8 0.30 0.87 0.79 0.43 0.52
9 0.25 0.89 0.79 0.42 0.49
10 0.22 0.90 0.79 0.42 0.48
1 1 0.20 0.91 0.79 0.41 0.47
12 0.18 0.91 0.78 0.41 0.46
13 0.15 0.93 0.77 0.40 0.45
14 0.12 0.94 0.77 0.40 0.43
15 0.10 0.95 0.80 0.39 0.43
16 0.09 0.97 0.80 0.39 0.42
17 0.08 0.97 0.83 0.39 0.42
18 0.07 0.97 0.88 0.39 0.42
19 0.07 1 .00 1.00 0.39 0.41
20 0.06 1 .00 1.00 0.39 0.41
21 0.06 1 .00 1.00 0.39 0.41
22 0.05 1 .00 1.00 0.39 0.41
23 0.04 1 .00 1.00 0.39 0.40
24 0.02 1 .00 1.00 0.39 0.40
25 0.02 1 .00 1.00 0.38 0.39
26 0.00 1 .00 1.00 0.38 0.38
Table 13A Performance Metrics in Predicting Depression Status from Number of Positive Foods Using 90th Percentile of ELISA Signal to determine Positive
No. of Positive Negative Overall Positive Foods Predictive Predictive Percent Sex as Cutoff Sensitivity Specificity Value Value Agreement
MALE 1 0.86 0.38 0.34 0.88 0.51
2 0.74 0.57 0.39 0.86 0.62
3 0.60 0.69 0.42 0.83 0.67
4 0.48 0.76 0.42 0.80 0.68
5 0.42 0.81 0.46 0.79 0.71
6 0.40 0.86 0.50 0.79 0.73
7 0.38 0.88 0.54 0.79 0.74
8 0.35 0.89 0.55 0.79 0.75
9 0.33 0.90 0.55 0.78 0.75
10 0.30 0.91 0.56 0.78 0.75
1 1 0.27 0.92 0.57 0.78 0.75
12 0.25 0.93 0.57 0.77 0.75
13 0.24 0.94 0.57 0.77 0.75
14 0.21 0.94 0.57 0.76 0.74
15 0.19 0.94 0.57 0.76 0.74
16 0.17 0.95 0.57 0.76 0.74
17 0.14 0.96 0.50 0.75 0.74
18 0.13 0.96 0.50 0.75 0.74
19 0.1 1 0.96 0.60 0.75 0.74
20 0.1 1 0.98 0.67 0.75 0.74
21 0.10 0.98 0.67 0.75 0.74
22 0.10 0.98 0.75 0.75 0.75
23 0.06 1.00 1.00 0.74 0.75
24 0.05 1.00 1.00 0.74 0.74
25 0.00 1.00 1.00 0.73 0.73
26 0.00 1.00 1.00 0.73 0.73
Table 13B Performance Metrics in Predicting Depression Status from Number of Positive Foods Using 95th Percentile of ELISA Signal to determine Positive
No. of Positive Negative Overall Positive Foods Predictive Predictive Percent Sex as Cutoff Sensitivity Specificity Vaiue Value Agreement
FEMALE 1 0.71 0.55 0.72 0.53 0.65
2 0.54 0.70 0.74 0.48 0.60
3 0.44 0.77 0.76 0.46 0.57
4 0.36 0.82 0.77 0.44 0.54
5 0.30 0.86 0.78 0.43 0.51
6 0.25 0.90 0.81 0.43 0.50
7 0.21 0.91 0.80 0.42 0.48
8 0.18 0.93 0.80 0.41 0.47
9 0.15 0.94 0.80 0.40 0.45
10 0.12 0.95 0.80 0.40 0.44
1 1 0.09 0.97 0.80 0.39 0.43
12 0.08 0.97 0.83 0.39 0.42
13 0.06 0.97 0.86 0.39 0.41
14 0.06 1.00 1.00 0.39 0.41
15 0.05 1.00 1.00 0.39 0.41
16 0.05 1.00 1.00 0.39 0.41
17 0.04 1.00 1.00 0.39 0.41
18 0.04 1.00 1.00 0.39 0.40
19 0.04 1.00 1.00 0.39 0.40
20 0.02 1.00 1.00 0.39 0.40
21 0.02 1.00 1.00 0.38 0.39
22 0.02 1.00 1.00 0.38 0.39
23 0.02 1.00 1.00 0.38 0.39
24 0.00 1.00 1.00 0.38 0.38
25 0.00 1.00 1.00 0.38 0.38
26 0.00 1.00 0.38 0.38
Table 14A Performance Metrics in Predicting Depression Status from Number of Positive Foods Using 95th Percentile of ELISA Signal to determine Positive
No. of Positive Negative Overall Positive Foods Predictive Predictive Percent Sex as Cutoff Sensitivity Specificity Value Value Agreement
MALE 1 0.75 0.54 0.38 0.85 0.59
2 0.59 0.75 0.46 0.83 0.70
3 0.48 0.83 0.50 0.81 0.74
4 0.36 0.88 0.53 0.79 0.74
5 0.33 0.90 0.55 0.78 0.75
6 0.30 0.92 0.56 0.78 0.75
7 0.27 0.92 0.57 0.77 0.75
8 0.24 0.94 0.57 0.77 0.75
9 0.22 0.94 0.60 0.77 0.75
10 0.20 0.96 0.60 0.76 0.75
1 1 0.18 0.96 0.60 0.76 0.75
12 0.17 0.96 0.67 0.76 0.75
13 0.16 0.98 0.67 0.76 0.75
14 0.14 0.98 0.67 0.75 0.75
15 0.12 0.98 0.67 0.75 0.75
16 0.10 0.98 0.75 0.75 0.75
17 0.09 1.00 1.00 0.75 0.75
18 0.09 1.00 1.00 0.75 0.75
19 0.07 1.00 1.00 0.75 0.75
20 0.06 1.00 1.00 0.74 0.75
21 0.06 1.00 1.00 0.74 0.75
22 0.06 1.00 1.00 0.74 0.75
23 0.05 1.00 1.00 0.74 0.74
24 0.00 1.00 1.00 0.73 0.73
25 0.00 1.00 1.00 0.73 0.73
26 0.00 1.00 0.73 0.73
Table 14B

Claims

CLAIMS What is claimed is:
1. A test kit for testing food intolerance in patients diagnosed with or suspected to have
Depression, comprising:
one or more distinct food preparations, wherein each distinct food preparation of the one or more distinct food preparations is independently coupled to an individually addressable solid carrier;
wherein each distinct food preparation of the one or more distinct food preparations has an average discriminator}' p-value of < 0,07 as determined by raw p- value, or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value, wherein the average discriminatory p-value is determined by a process comprising comparing assay values of a first patient test cohort that is diagnosed with or suspected of having Depression with assay values of a second patient test cohort that is not diagnosed with or suspected of having Depression.
2. The test kit of clai m 1 wherein the one or more distinct food preparations includes at least two food preparations prepared from food items of Table 1 or selected from foods 1 -26 of Table 2.
3. The test kit of claim 1 wherein the one or more distinct food preparations includes at least four food preparations prepared from food items of Table 1 or selected from foods 1 -26 of Table 2.
4. The test kit of claim 1 wherein the one or more distinct food preparations includes at least eight food preparations prepared from food items of Table 1 or selected from foods 1 -26 of Table 2.
5. The test kit of claim 1 wherein the one or more distinct food preparations includes at least 12 food preparations prepared from food items of T able 1 or selected from foods 1 -26 of Table 2.
6. The test kit of claim 1 wherein the one or more distinct food preparations has an average discriminatory p-value of < 0.05 as determined by raw p-value or an average discriminatory p-value of < 0.08 as determined by FDR multiplicity adjusted p-value.
7. The test kit of any one of claims 1 -5 wherein the one or more distinct food preparations has an average discriminatory p-value of < 0.05 as determined by raw p-value or an average discriminatory p-value of < 0.08 as determined by FDR multiplicity adjusted p-value.
8. The test kit of claim 1 wherein the one or more distinct food preparations has an average discriminatory p-value of < 0.025 as determined by raw p-value or an average discriminatory p-value of < 0.07 as determined by FDR multiplicity adjusted p-value.
9. The test kit of any one of claims 1 -5 wherein the one or more distinct food preparations has an average discriminatory p-value of < 0.025 as determined by raw p-value or an average discriminatory p-value of < 0.07 as determined by F DR multiplicity adjusted p-value.
10. The test kit of claim 1 wherein FDR multiplicity adjusted p-value is adjusted for at least one of age and gender.
1 1. The test kit of any one of claims 1 -8 wherein FDR multiplicity adjusted p-value is adjusted for at least one of age and gender.
12. The test kit of claim 1 wherein FDR multiplicity adjusted p-value is adjusted for age and gender.
13. The test kit of any one of claims 1 -8 wherein FDR multiplicity adjusted p-value is adjusted for age and gender.
14. Th e test kit of claim I wherein at least 50% of th e one or more distinct food preparations, when adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value.
15. The test kit of any one of claims 1-13 wherein at least 50% of the one or more distinct food preparations, when adjusted for a single gender, has an average discriminatory p-value of <
0.07 as determined by raw p-value or an average discriminatory p- value of < 0. 10 as determined by FDR multiplicity adjusted p-value.
16. The test kit of claim 1 wherein at least 70% of the one or more distinct food preparations, when adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0. 10 as determined by FDR multiplicity adjusted p-value.
17. The test kit of any one of the claims 1-13 wherein at least 70% of the one or more distinct food preparations, when adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value.
1 8. The test kit of claim 1 wherein all of the one or more distinct food preparations, when
adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value.
19. The test kit of any one of the claims 1 - 1 7 wherein all of the one or more distinct food
preparations, when adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0. 10 as determined by FDR multiplicity adjusted p-value.
20. The test kit of claim 1 wherein the one or more distinct food preparations is crude filtered aqueous extracts.
21. The test kit of any one of the claims 1 - 19 wherein the one or more distinct food preparations is crude filtered aqueous extracts.
22. The test kit of claim 1 wherein the one or more distinct food preparations is processed
aqueous extracts.
23. The test kit of any one of the claims 1 -2 1 wherein the one or more distinct food preparations is processed aqueous extracts.
24. The test kit of claim 1 wherein the solid carrier is a well of a multiwall plate, a bead, an electrical, a chemical sensor, a microchip or an adsorptive film.
25. The test kit of any one of the claims 1-23 wherein the solid carrier is a well of a multiwall plate, a bead, an electrical, a chemical sensor, a microchip or an adsorptive film.
26. A method of testing food intolerance in patients diagnosed with or suspected to have
Depression using a food preparation of a plurality of distinct food preparations, comprising: contacting the food preparation with a bodily fluid of a patient that is diagnosed with or suspected to have Depression, and wherein the bodily fluid is associated with a gender identification;
wherein the step of contacting is performed under conditions that allow IgG from the bodily fluid to bind to at least one component of the food preparation;
measuring IgG bound to the at least one component of the food preparation to obtain a signal;
comparing the signal to a gender-stratified reference value for the food preparation using the gender identification to obtain a result; and
updating or generating a report using the result.
27. The method of claim 26 wherein the bodily fluid of the patient is whole blood, plasma, serum, saliva, or a fecal suspension.
28. The method of claim 26 wherein the step of contacting a food preparation is performed with a plurality of distinct food preparations.
29. The method of claim 26 or claim 27 wherein the step of contacting a food preparation is performed with a plurality of distinct food preparations.
30. The method of claim 28 wherein the plurality of distinct food preparations is prepared from food items of Table 1 or selected from foods 1 -26 of Table 2.
3 1 . The method of any of the claims 28-29. wherein the plurality of distinct food preparations is prepared from food items of Table 1 or selected from foods 1 -26 of Table 2.
32. The method of claim 28, wherein the plurality of distinct food preparations has an average discriminatory p- value of < 0.07 as determined by raw p-value or an average discriminatory p- value of < 0. 1 0 as determined by FDR multiplicity adjusted p-value.
33. The method of any of the claims 28-29. wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0. 10 as determined by FDR multiplicity adjusted p-value.
34. The method of claim 28. wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.05 as determined by raw p-value or an average discriminatory p-value of < 0.08 as determined by FDR multiplicity adjusted p-value.
35. The method of any of the claims 28-29. wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.05 as determined by raw p-value or an average discriminatory p-value of < 0.08 as determined by F DR multiplicity adjusted p-value.
36. The method of claim 28, wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.025 as determined by raw p-value or an average discriminatory p-value of < 0.07 as determined by FDR multiplicity adjusted p-value.
37. The method of any of the claims 28-29. wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.025 as determined by raw p-value or an average discriminatory p-value of < 0.07 as determined by F DR multiplicity adjusted p-value.
38. The method of claim 28, wherein all of the plurality of distinct food preparations has an
average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0. 10 as determined by FDR multiplicity adjusted p-value.
39. The method of any of the claims 28-29, wherein all of the plurality of distinct food
preparations has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by F DR multiplicity adjusted p- value.
40. The method of claim 26, wherein the food preparation is immobilized on a solid surface, optionally in an addressable manner.
41 . The method of any of the claims 26-39, wherein the food preparation is immobilized on a solid surface, optionally in an addressable manner.
42. The method of claim 26. wherein the step of measuring IgG bound to the at least one
component of the food preparation is performed via an immunoassay test.
43. The method of any of the claims 26-41 . wherein the step of measuring IgG bound to the at least one component of the food preparation is performed via immunoassay test.
44. The method of claim 26, wherein the gender-stratified reference value for the food
preparation is an at least a 90 percentile value.
45. The method of any of the claims 26-43. wherein the gender-stratified reference value for the food preparation is an at least a 90ta percentile value.
46. A method of generating a test for food intolerance in patients diagnosed with or suspected to have Depression, comprising:
obtaining test results for a plurality of distinct food preparations, wherein the test results are based on bodily fluids of patients diagnosed with or suspected to have Depression and bodily fluids of a control group not diagnosed with or not suspected to have Depression;
stratifying the test results by gender for each of the distinct food preparations; and assigning for a predetermined percentile rank a different cutoff value for male and female patients for each of the distinct food preparations.
47. The method of claim 46. wherein the test result is an EL ISA result.
48. The method of claim 46. wherein the plurality of distinct food preparations includes at least two food preparations prepared from food items of Table 1 or selected foods 1 -26 of Table 2.
49. The method of claim 46 or claim 47, wherein the plurality of distinct food preparations
includes at least two food preparations prepared from food items of Table 1 or selected from foods 1 -26 of Table 2.
50. The method of claim 46, wherein the plurality of distinct food preparations includes at least six food preparations prepared from food items of Table 1 or selected from a group consisting of foods 1-26 of Table 2.
51. The method of any of claim 46 or claim 47, wherein the plurality of distinct food
preparations includes at least six food preparations prepared from food items of Table 1 or selected from foods 1-26 of Table 2.
52. The method of claim 46, wherein the plurality of distinct food preparations includes a food preparation prepared from food items of Table 1 or selected from foods 1-26 of Table 2.
53. The method of any of claim 46 or 47, wherein the plurality of distinct food preparations includes a food preparation prepared from food items of Table 1 or selected from foods 1 -26 of Table 2.
54. The method of claim 46, wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.07 as determined by raw p-vaiue or an average discriminator}7 p-value of < 0.10 as determined by FDR multiplicity adjusted p-value.
55. The method of any of claims 46-53, wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value.
56. The method of claim 46, wherein the plurality of different food preparations has an average discriminatory p-value of < 0.05 as determined by raw p-value or an average discriminator}7 p-value of < 0.08 as determined by FDR multiplicity adjusted p-value.
57. The method of any of claims 46-53, wherein the plurality of different food preparations has an average discriminator}' p-value of < 0.05 as determined by raw p-value or an average discriminatory p-value of < 0.08 as determined by FDR multiplicity adjusted p-value.
58. The method of claim 46, wherein the plurality of different food preparations has an average discriminatory p-value of < 0.025 as determined by raw p-value or an average discriminatory p-value of < 0.07 as determined by FDR multiplicity adjusted p-value.
59. The method of any of claims 46-53, wherein the plurality of different food preparations has an average discriminatory p-value of < 0.025 as determined by raw p-value or an average discriminatory p-value of < 0.07 as determined by FDR multiplicity adjusted p-value.
60. The method of claim 46, wherein the bodily fluid of the patient is whole blood, plasma, serum, saliva, or a fecal suspension.
61 . The method of any of claims 46-59. wherein the bodily fluid of the patient is whole blood, plasma, serum, saliva, or a fecal suspension.
62. The method of claim 46, wherein the predetermined percentile rank is an at least 90th
percentile rank.
63. The method of any of claims 46-61 , wherein the predetermined percentile rank is an at least 90ta percentile rank.
64. The method of claim 46, wherein the cutoff value for male and female patients has a
difference of at least 10% (abs).
65. The method of any of claims 46-63, wherein the cutoff value for male and female patients has a difference of at least 10% (abs).
66. The method of claim 26 or 46, further comprising a step of normalizing the result to the patient's total IgG.
67. The method of any of claims 26-65, further comprising a step of normalizing the result to the patient's total IgG.
68. The method of claim 26 or 46, further comprising a step of normalizing the result to the global mean of the patient's food specific IgG results.
69. The method of any of claims 26-65. further comprising a step of normalizing the result to the global mean of the patient's food specific IgG results.
70. The method of claim 26 or 46. further comprising a step of identifying a subset of patients, wherein the subset of patients' sensitivities to the distinct food preparations underlies Depression by raw p-value or an average discriminatory p-value of < 0.01.
71. The method of any of claims 26-65, further comprising a step of identifying a subset of patients, wherein the subset of patients' sensitivities to the distinct food preparations underlies Depression by raw p-value or an average discriminatory p-value of < 0.01.
72. The method of claim 26 or 46. further comprising a step of determining numbers of the distinct food preparations, wherein the numbers of the distinct food preparations can be used to confirm Depression by raw p-value or an average discriminatory p-value of < 0.01.
73. The method of any of claims 26-65, further comprising a step of determining numbers of the distinct food preparations, wherein the numbers of the distinct food preparations can be used to confirm Depression by raw p-value or an average discriminatory p-value of < 0.01.
74. Use of a plurality of distinct food preparations coupled to individually addressable respective solid carriers in a diagnosis of Depression, wherein the plurality of distinct food preparations have an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0. 10 as determined by FDR multiplicity adjusted p-value.
75. Use of claim 74, wherein the plurality of food preparations includes at least two food
preparations prepared from food items of Table 1 or selected from foods 1-26 of Table 2.
76. Use of claim 74, wherein the plurality of food preparations includes at least four food
preparations prepared from food items of Table 1 or selected from foods 1-26 of Table 2.
77. Use of claim 74, wherein the plurality of food preparations includes at least eight food
preparations prepared from food items of Table 1 or selected from foods 1 -26 of Table 2.
78. Use of claim 74, wherein the plurality of food preparations includes at least 12 food
preparations prepared from food items of Table 1 or selected from foods 1 -26 of Table 2.
79. Use of claim 74. wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.05 as determined by raw p-value or an average discriminatory p-value of < 0.08 as determined by FDR multiplicity adjusted p-value.
80. Use of any one of claims 74-78. wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.05 as determined by raw p-value or an average discriminatory p-value of < 0.08 as determined by FDR multiplicity adjusted p-value.
8 1 . Use of claim of claim 74. wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.025 as determined by raw p-value or an average discriminatory p-value of < 0.07 as determined by F DR multiplicity adjusted p-value.
82. Use of any one of claims 74-78. wherein the plurality of distinct food preparations has an average discriminatory p-value of < 0.025 as determined by raw p-value or an average discriminatory p-value of < 0.07 as determined by F DR multiplicity adjusted p-value.
83. Use of claim 74. wherein F DR multipl icity adjusted p-value is adjusted for at least one of age and gender.
84. Use of any one of claims 74-82. wherein FDR multiplicity adjusted p-value is adjusted for at least one of age and gender.
85. Use of claim 74. wherein F DR multipl icity adjusted p-value is adjusted for age and gender.
86. Use of any one of claims 74-82. wherein FDR multiplicity adjusted p-value is adjusted for age and gender.
87. Use of claim 74, wherein at least 50% of the plurality of distinct food preparations, when adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value.
88. Use of any one of claims 74-86, wherein at least 50% of the plurality of distinct food
preparations, when adjusted for a single gender, has an average discriminatory p-value of <
0.07 as determined by raw p-value or an average discriminatory p- value of < 0. 10 as determined by FDR multiplicity adjusted p-value.
89. Use of claim 74. wherein at least 70% of the plurality of distinct food preparations, when adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p-value.
90. Use of any one of the claims 74-86, wherein at least 70% of the plurality of distinct food preparations, when adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0. 10 as determined by FDR multiplicity adjusted p-value.
91 . Use of claim 74. wherein all of the plurality of distinct food preparations, when adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0.10 as determined by FDR multiplicity adjusted p- value.
92. Use of any one of the claims 74-86. wherein all of the plurality of distinct food preparations, when adjusted for a single gender, has an average discriminatory p-value of < 0.07 as determined by raw p-value or an average discriminatory p-value of < 0. 10 as determined by F DR multiplicity adjusted p-value.
93. Use of claim 74. wherein the plurality of distinct food preparations is crude filtered aqueous extracts.
94. Use of any one of the claims 74-92. wherein the plurality of distinct food preparations is crude filtered aqueous extracts.
95. Use of claim 74. wherein the plural ity of distinct food preparations is processed aqueous extracts.
96. Use of any one of the claims 74-94. wherein the plurality of distinct food preparations is processed aqueous extracts.
97. Use of claim 74. wherein the solid carrier is a well of a multiwall plate, a bead, an electrical sensor, a chemical sensor, a microchip, or an adsorptive film.
98. Use of any one of the claims 74-96, wherein the solid carrier is a w ell of a multiwall plate, a bead, an electrical sensor, a chemical sensor, a microchip, or an adsorptive film.
99. Use of any one of claims 74-96. wherein the average discriminatory p-value is determined by a process comprising comparing assay values of a first patient test cohort that is diagnosed with or suspected of having Depression headaches with assay values of a second patient test cohort that is not diagnosed with or suspected of having Depression headaches.
100. The method of claim 46, wherein the test result is an ELIS A result derived from a process that includes separately contacting each distinct food preparation with the bodily fluid of each patient.
PCT/US2017/041166 2016-07-08 2017-07-07 Compositions, devices, and methods of depression sensitivity testing WO2018009845A1 (en)

Priority Applications (7)

Application Number Priority Date Filing Date Title
EP17825010.6A EP3497447B1 (en) 2016-07-08 2017-07-07 Compositions, devices, and methods of depression sensitivity testing
CN201780042639.8A CN109804247A (en) 2016-07-08 2017-07-07 Composition, equipment and the method for depression sensitivity test
MX2019000143A MX2019000143A (en) 2016-07-08 2017-07-07 Compositions, devices, and methods of depression sensitivity testing.
AU2017293937A AU2017293937A1 (en) 2016-07-08 2017-07-07 Compositions, devices, and methods of depression sensitivity testing
JP2019500576A JP6943479B2 (en) 2016-07-08 2017-07-07 Compositions, devices and methods for depression susceptibility testing
CA3069308A CA3069308A1 (en) 2016-07-08 2017-07-07 Compositions, devices, and methods of depression sensitivity testing
US16/242,519 US20190242904A1 (en) 2016-07-08 2019-01-08 Compositions, devices, and methods of depression sensitivity testing

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US201662539909P 2016-07-08 2016-07-08
US62/539,909 2016-07-08

Related Child Applications (1)

Application Number Title Priority Date Filing Date
US16/242,519 Continuation US20190242904A1 (en) 2016-07-08 2019-01-08 Compositions, devices, and methods of depression sensitivity testing

Publications (1)

Publication Number Publication Date
WO2018009845A1 true WO2018009845A1 (en) 2018-01-11

Family

ID=60912303

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2017/041166 WO2018009845A1 (en) 2016-07-08 2017-07-07 Compositions, devices, and methods of depression sensitivity testing

Country Status (4)

Country Link
AU (1) AU2017293937A1 (en)
CA (1) CA3069308A1 (en)
MX (1) MX2019000143A (en)
WO (1) WO2018009845A1 (en)

Citations (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6858398B2 (en) * 2001-08-14 2005-02-22 Immunosciences Lab., Inc. Saliva test for detection of food allergy and intolerance
US20090253154A1 (en) * 2008-04-02 2009-10-08 Immunosciences Lab., Inc. Blood and saliva test for detection of delayed food allergy and intolerance against modified foods
US7601509B2 (en) 2004-07-15 2009-10-13 Power Laura W Biotype diets system: predicting food allergies by blood type
US20100227340A1 (en) * 2007-09-10 2010-09-09 Immunohealth International, Llc Method of analysis, detection and correction of food intolerance in humans
US20110276344A1 (en) * 2009-01-15 2011-11-10 Paul Eirian Williams Method for diagnosing food allergy
WO2016077808A1 (en) * 2014-11-14 2016-05-19 Biomerica, Inc. Compositions, devices, and methods of ibs sensitivity testing

Patent Citations (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6858398B2 (en) * 2001-08-14 2005-02-22 Immunosciences Lab., Inc. Saliva test for detection of food allergy and intolerance
US7601509B2 (en) 2004-07-15 2009-10-13 Power Laura W Biotype diets system: predicting food allergies by blood type
US20100227340A1 (en) * 2007-09-10 2010-09-09 Immunohealth International, Llc Method of analysis, detection and correction of food intolerance in humans
US20090253154A1 (en) * 2008-04-02 2009-10-08 Immunosciences Lab., Inc. Blood and saliva test for detection of delayed food allergy and intolerance against modified foods
US20110276344A1 (en) * 2009-01-15 2011-11-10 Paul Eirian Williams Method for diagnosing food allergy
WO2016077808A1 (en) * 2014-11-14 2016-05-19 Biomerica, Inc. Compositions, devices, and methods of ibs sensitivity testing

Non-Patent Citations (5)

* Cited by examiner, † Cited by third party
Title
ALTERNATIVE MEDICINE REVIEW, vol. 9, no. 2, 2004, pages 198 - 207
CARR, A., THE NEW ZEALAND MEDICAL JOURNAL, vol. 125, no. 1366, 2012
KARAKULA-JUCHNOWICZ, H. ET AL., EUROPEAN PSYCHIATRY, vol. 33, 2016
PARKER, G. ET AL., AUSTRALIAN AND NEW ZEALAND JOURNAL OF PSYCHIATRY, vol. 36, no. 2, 2002
See also references of EP3497447A4 *

Also Published As

Publication number Publication date
AU2017293937A1 (en) 2019-01-24
MX2019000143A (en) 2019-08-16
CA3069308A1 (en) 2018-01-11

Similar Documents

Publication Publication Date Title
US10788498B2 (en) IBS sensitivity testing
US20180364252A1 (en) Compositions, devices, and methods of psoriasis food sensitivity testing
EP3497447A1 (en) Compositions, devices, and methods of depression sensitivity testing
US20190170768A1 (en) Compositions, devices, and methods of crohn&#39;s disease sensitivity testing
US20190170767A1 (en) Compositions, devices, and methods of ulcerative colitis sensitivity testing
US20190145972A1 (en) Compositions, devices, and methods of fibromyalgia sensitivity testing
US20190120835A1 (en) Compositions, devices, and methods of functional dyspepsia sensitivity testing
AU2023200262A1 (en) Compositions, devices, and methods of attention deficit disorder/ attention deficit hyperactivity disorder (add/adhd) sensitivity testing
US20190004039A1 (en) Compositions, devices, and methods of migraine headache food sensitivity testing
WO2018009845A1 (en) Compositions, devices, and methods of depression sensitivity testing

Legal Events

Date Code Title Description
121 Ep: the epo has been informed by wipo that ep was designated in this application

Ref document number: 17825010

Country of ref document: EP

Kind code of ref document: A1

ENP Entry into the national phase

Ref document number: 2019500576

Country of ref document: JP

Kind code of ref document: A

NENP Non-entry into the national phase

Ref country code: DE

ENP Entry into the national phase

Ref document number: 2017293937

Country of ref document: AU

Date of ref document: 20170707

Kind code of ref document: A

ENP Entry into the national phase

Ref document number: 2017825010

Country of ref document: EP

Effective date: 20190208

ENP Entry into the national phase

Ref document number: 3069308

Country of ref document: CA