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3 protocols using s 5 adenosyl l homocysteine

1

Comprehensive Metabolite Identification via UPLC-MS

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Debrisoquine sulfate, 4-nitrobenzoic acid (4 (link)–NBA) and UPLC-grade solvents such as acetonitrile, water and isopropanol were purchased from Fisher Scientific (Hanover Park, IL). 4-Guanidinobutyric acid, riboflavin, retinoic acid, (−)-epinephrine, hippuric acid, nicotinic acid, S-(5′-adenosyl)-L-homocysteine, taurine, uric acid, homovanillic acid, acetylcarnitine and carnitine were purchased from Sigma-Aldrich®, (St. Louis, MO). The METLIN (3 (link)) database (La Jolla, CA) was used for tandem MS (MS/MS) validations of 4-aminobutanoate, 3-hydroxybutanoate and quinolinic acid.
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2

Standards for Lipid Profiling Analysis

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The following internal standards were obtained from Avanti Polar Lipids (Alabaster, AL): sphingolipid mix (SM) II, phosphatidylethanolamine PE (14:0/14:0), phosphatidylcholine PC (14:0/14:0), phosphatidic acid PA (14:0/14:0), phosphatidylserine PS (14:0/14:0), phosphatidylinositol PI (17:0/20:4), and lysophosphatidylcholine LPC (17:1). Fatty acid standard FA(17:1) from Nu-Chek Prep (Elysian, MN). UPLC-grade solvents acetonitrile, water, and isopropanol were purchased from Fisher Scientific (Hanover Park, IL). Arachidonic acid, azelaic acid and S-(5′-adenosyl)-L-homocysteine, was purchased from Sigma-Aldrich (St Louis, MO). Adrenic acid was purchased from Santa Cruz (Dallas, Texas). The MSMS spectra from METLIN8 (link) and LipidMaps databases were used as reference spectra for comparison purposes.
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3

Histone Modification Enzyme Assay

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S3 Table in S1 File contains detailed information about the sources of the recombinant enzymes. Peptide substrates were from AnaSpec (Fremont, CA). α-Ketoglutarate (disodium salt dihydrate, 75892), L-ascorbic acid (A0278), ammonium iron (II) sulfate hexahydrate (215406), BSA (A3803), and β-nicotinamide adenine dinucleotide (NAD, N6522) were from Sigma-Aldrich. Tween-20 (10%, 28320) was from Thermo Fisher Scientific. 384 Alpha-plates, acceptor beads (5 mg/mL), alpha streptavidin donor beads (5 mg/mL, 6760002), and 5× Epigenetic buffer (AL008) were from PerkinElmer (Waltham, MA). Chicken core histones were obtained from Millipore (Billerica, MA). HeLa cell nucleosomes were from Reaction Biology Corporation (Malvern, PA). Nucleosome antigen was from Arotec Diagnosis (ATN02, Wellington, New Zealand). Small molecule inhibitors used as positive controls included S2101 (CalBiochem/Millipore; 489477), 2,4-Pyridinedicarboxylic acid (AK Scientific, Union City, CA; 00473), 8-hydroxyquinoline (Sigma-Aldrich; S018), 8-hydroxy-5-quinolinecarboxylic acid (Sigma-Aldrich; SML0057), S-(5′-Adenosyl)-L-homocysteine (Sigma-Aldrich; A9384), Trichostatin A (Sigma-Aldrich; T8552), and EX-527 (Sigma-Aldrich; E7024).
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