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ESTIMATE algorithm: method that uses gene expression signatures to infer the fraction of stromal and immune cells in tumor samples30 (link);
Curated signatures: upper and lower normal colon crypt compartments51 , epithelial and mesenchymal markers7 (link), WNT52 and MYC downstream target53 , epithelial-mesenchymal transition core genes and TGFβ pathway54 , intestinal stem cells55 , matrix remodeling (REACTOME) and wound-response (GO BP);
Canonical genesets: MAPK and PI3K (GO BP), SRC, JAK-STAT, caspases (BIOCARTA), proteosome (KEGG), Notch, cell cycle, translation and ribosome, integrin beta3, VEGF/VEGFR interactions (REACTOME);
Immune activation: immune response (GO BP), PD1 activation (REACTOME), infiltration with T cytotoxic cells (CD8)56 and T helper cells (TH1) in cancer samples57 ,58 , infiltration with Natural Killer (NK) cells59 and follicular helper T (TFH) cells60 in cancer samples, activation of T helper 17 (TH17) cells61 , regulatory T cells (Treg)62 or myeloid-derived suppressor cells (MDSC)63 ;
Metabolic activation: sugar, amino acid, nucleotide, glucose, pentose, fructose, mannose, starch, sucrose, galactose, glutathione, nitrogen, tyrosine, glycerophospholipid, fatty acid, arachnoid acid, linoleic acid (KEGG), glutamine (GO BP), lysophospholipid (PID).
Example 9
NEBT7EL-pA06238 was grown on LB with 50 μg/ml kanamycin. A 600 ml culture of TBkan50 was inoculated with NEBT7EL-pA06238 and incubated overnight at 37° C. at 200 rpm. The next morning, a 10 L fermentor was prepared with 9.5 L of TB and then inoculated with 500 ml of the overnight culture. The culture was grown at 37° C. The pH was maintained at 6.2 with NaOH and the dO2 was maintained ≥20%. After 2 hours of growth, the temperature was dropped to 25° C. The culture was grown for an additional 1 hour with the OD600 around 7. IPTG was added to a final concentration of 1 mM and CoCl2 was added to 25 μM. Additional CoCl2 was added 1 and 2 hours after induction to bring the final concentration to 300 μM. The cells were grown for 20 hours at which point the fermentor was chilled to 10° C. and the cells were harvested by centrifugation. The cell pellet was stored at −80° C. until use.
The cell pellet from the fermentation was lysed by stirring in buffer with lysozyme and DNAse. Cell debris was removed by centrifugation and the supernatant was filtered through a 0.45 micron filter. Filtered supernatant was incubated with Ni-NTA agarose resin and then enzyme was eluted with imidazole. Purified FC4E pA06238 was immobilized onto 5.25 grams of ECR8204F resin using the standard published protocol from Purolite.
The immobilized enzyme was loaded into a 11×300 mm glass fixed bed reactor and run for approximately 200 h at constant temperature (60° C.) with a constant feed composition of 30 wt % fructose+70 wt % aqueous buffer solution (20 mM KPO4, 50 mM NaCl, 300 uM CoCl2). Feed rate was held constant at 140 uL/min throughout the run. The fixed bed reaction reached a maximal conversion of approximately 30% tagatose and had a half-life of −50 hours (
Example 14
An adult patient with dietary fructose intolerance presents with one or more of symptoms such as abdominal bloating, flatulence, pain, distension, diarrhea and nausea. Treatment with the preparation of the invention is initiated by the clinician at an effective dose, which mitigates fructose-induced symptoms. Assessment of symptoms and testing are periodically performed. The dose of the treatment is adjusted as required by the clinician in attendance to manage symptoms of the dietary fructose-related condition. The subject may be treated with other drugs concurrently and may or may not be under restricted diet. Treatment with the preparation of the present invention is able to mitigate one or more symptoms related to dietary fructose.
EXAMPLE 8
Diet Cookies
Flour (50.0%), margarine (30.0%) fructose (10.0%), maltitol (8.0%), whole milk (1.0%), salt (0.2%), baking powder (0.15%), vanillin (0.1%) and different glucosyl Stevia compositions (0.03%) were kneaded well in dough-mixing machine. The obtained dough was molded and baked in oven at 200° C. for 15 minutes. Glucosyl Stevia compositions were by represented by Samples 1a, 2a, and 3, obtained according to EXAMPLES 3, 4, and 5, respectively; with Sample 4 being a commercial β-amylase treated product (containing only mono- and di-α-1,4-glucosyl-derivatives of steviol glycosides).
The sensory properties were evaluated by 20 panelists. The best results were obtained in samples prepared by high purity short-chain glucosyl Stevia compositions (containing four or less α-1,4-glucosyl residues) derivatives (Samples 1a and 2a). The panelists noted rounded and complete flavor profile and mouthfeel in cookies prepared with Samples 1a and 2a.
Example 11
A mixed sugar solution comprising 200 g tagatose, and 50 g fructose was solvated in 120 g water by gently heating the solution with rotary agitation using a rotary evaporator (Eyela, N-1200BS) to a temperature of 60° C. Isothermal batch crystallization was performed by pulling vacuum of the evaporation flask to a constant pressure of 100 mmHg, then slowly evaporating water from the flask under constant vacuum over a 270 min period. Once 20 ml of condensate had been collected, the experiment was paused briefly, 0.25 g of pure tagatose seed crystals were added to the flask, and then vacuum conditions were restored, and the evaporation was continued. Slow crystallization was observed. The experiment was continued until 80 ml condensate had been collected, after which the flask was quickly disconnected from the rotary evaporator and the slurry of mother liquor and crystals was quickly filtered via a Buchner funnel fitted with a cellulose filter. The collected crystals were washed with 62.5 g of ice-cold water, then dried under vacuum at 60° C. for 2 h. The final tagatose crystals contained 98.51 wt % tagatose and 1.49 wt % fructose, a significant improvement versus the feed mixture.
Example 1
Low volatile bituminous coal samples were obtained from Rosebud Mining Corporation (Pennsylvania, USA). High volatile bituminous coal samples were obtained from Anker Energy (West Virginia, USA). Samples were ground and separated into size fractions using a RO-TAP® sieve shaker (W.S. Tyler, Ohio, USA) and stored in sealed containers until use.
High fructose corn syrup was purchased from Mann Lake, Ltd. (Minnesota, USA). Water content was determined to be 21% by placing a measured sample in a drying oven at 110° C. For some experiments, Karo syrup (a corn syrup that is not considered “high fructose” was used).
Analytical grade graphite powder was purchased from Alfa Aesar (Massachusetts, USA) and sized using a Coulter counter. Median size was 6 μm.
Pam® non-stick cooking spray (Conagra Brands, Ill., USA) was used as a release agent for ceramic containers.