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10 protocols using hplc grade isopropanol

1

Metabolite Extraction and Quantification Workflow

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Methyl tertiary-butyl ether (MTBE) used for lipid and metabolite extraction was purchased from Sigma-Aldrich. LC-MS grade water, LC-MS grade acetonitrile (ACN), and HPLC grade isopropanol (IPA) were purchased from Fisher Chemical. HPLC grade methanol (MeOH) was purchased from Pharmco-Aaper. Mobile phase buffer LC-MS grade formic acid and formic acetate were purchased from Sigma-Aldrich. Fully carbon labeled 13C6 glucose for isotopic labeling was purchased from Cambridge Isotope Laboratories. High glucose DMEM and glucose-free Dulbecco’s modified eagle medium (DMEM) were purchased from Gibco. For the drug treatments, 6-aminonicotinamide, 2-deoxyglucose, compound 968 and rapamycin were purchased from Sigma-Aldrich. A Cadenza CD-C18 column (150 × 2 mm) was purchased from Imtakt, and an XBridge Amide HILIC column (3.5 µm, 4.6 × 100 mm) was purchased from Waters.
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2

Lipid Standards Characterization Protocol

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Pentadecanoic acid (C15:0), palmitic acid (C16:0), palmitoleic acid (C16:1), heptadecanoic acid (C17:0), stearic acid (C18:0), oleic acid (C18:1), linoleicacid (C18:2), linolenic acid (C18:3), nonadecanoic acid (C19:0), arachidonic acid (C20:4), heneicosanoic acid (C21:0), docosahexaenoic acid (C22:6), L-α-phosphatidylinositol sodium salt (PI, PI(16:0/18:2)), 9-aminoacridine (9-AA), 1,8-bis(dimethylamino)naphthalene (DMAN), and N-(1-naphthyl) ethylenediamine dihydrochloride (NEDC) were purchased from Sigma-Aldrich Chemicals (St. Louis, MO, USA). 1,2-di-(9Z-octadecenoyl)-sn-glycero-3-phosphate (sodium salt) (PA(18:1(9Z)/18:1(9Z))), 1,2-di-(9E-octadecenoyl)-sn-glycero-3-phosphocholine (PC(18:1(9E)/18:1(9E))), 1,2-di-(9E-octadecenoyl)-sn-glycero-3-phosphoethanolamine (PE(18:1(9E)/18:1(9E))) and 1,2-dipalmitoyl-sn-glycero-3-phospho-(1′-rac-glycerol) (sodium salt) (PG(16:0/16:0)) were purchased from Avanti Polar lipids (Alabaster, AL, USA). GO was from Nanjing JCNANO Technology Co., Ltd (Nanjing, China). HPLC-grade isopropanol and hexane were from Fisher Scientific (Pittsburg, PA, USA). Ultrapure water was purified by a Milli-Q system (Millipore, MA, USA).
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3

Measuring Adeno-Associated Virus Particles

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In preparation of the MP measurements, stock solutions of AAVs (ranging from 0.5 × 1013 to 5 × 1013 Vp/mL) were pre-diluted in PBS (Gibco) to about 0.5 × 1010 to 2 × 1011 Vp/mL. Clean microscope coverslips (24 mm × 50 mm; Paul Marienfeld GmbH) were acquired by serial rinsing with Milli-Q water and HPLC-grade isopropanol (Fisher Scientific Ltd.). CultureWell gaskets (Grace Biolabs) were placed as container wells for the AAV dilutions. Coverslips were mounted on a Samux mass photometer (Refeyn Ltd.) and 12 μL of PBS buffer was used to set the focus. For each measurement, 3 μL of AAV solution was applied and mixed in the well. Movies were recorded for 60 or 120 s at 100 fps. Contrast-to-mass conversion was done by measuring a thyroglobulin multimer mix (Sigma, T9145). Three contrast rates were aligned with masses of 335, 670, and 1,340 kDa in a calibration curve. MP data were processed using DiscoverMP (Refeyn Ltd.), following export of the data mass histograms, and Gaussian fits were acquired using SciPy and in-house Python scripts.45 (link)
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4

Lipid Extraction and Analysis in RAW 264.7 Macrophages

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High-performance LC (HPLC) grade iso-propanol (IPA), acetonitrile (ACN), methanol (MeOH), and water were purchased from Fisher Scientific. Methyl tert-butyl ether (MTBE), formic acid (HCOOH), ammonium formate, and 2-acetylpyridine (2-acpy) were purchased from Sigma Aldrich. Lipid standards were purchased from Avanti Polar Lipids. AMP+ MaxSpec Kit was purchased from Cayman Chemical.
RAW 264.7 macrophages (American Type Culture Collection (ATCC); Manassas, VA, USA) were cultured in Roswell Park Memorial Institute (RPMI) 1640 Medium with 10% fetal bovine serum and 1% Penicillin-Streptomycin solution and collected by centrifugation. The cell pellets were washed, frozen in liquid nitrogen, and stored at −80°C. For direct inhibition of enzyme activity, RAW 264.7 macrophages were treated for 72 h with 60 μM FADS2 inhibitor (SC26196, purchased from Sigma-Aldrich) and 2.5 μM SCD1 inhibitor (CAY10566, purchased from Sigma-Aldrich), while the control group was treated with DMSO.
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5

Purification of Organic Compounds

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All compounds were obtained from commercial sources (Sigma-Aldrich, Gillingham, UK)
and in the highest available purity. Distilled water and HPLC grade isopropanol (Fisher Scientific, Loughborough UK) were used throughout.
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6

Hand Wipe Sampling for Occupational Exposure

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On the second day of sequential sampling, pre-shift and post-shift hand wipe samples were collected from worker’s hands. Two 3”× 3” sterile gauze pads (Dynarex, Orangeburg, NY) were placed in 120 mL amber glass jars (Fisher Scientific, Pittsburgh, PA). Each jar included 6 mL of 99% HPLC grade isopropanol (Fisher Scientific) using an automatic pipette. The jars were then tightly sealed, and stored at approximately 5°C for up to seven days. Samples were collected in a break room or conference room before and after the work shift. During sample collection participants were instructed to grab one of the gauze pads and wipe both sides of their bare hands (the area from the bend of the wrist to the fingertips) for 30 seconds. Then they were instructed to grab the other wipe and repeat the process. Both gauze pads were placed into the same jar, sealed, and stored at refrigerated temperatures until analyzed. At the end of the day, workers were asked how many times they washed their hands that work day and glove use was observed and recorded.
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7

Hand Wipe Sampling for Triphenyl Phosphate

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Workers provided pre-shift and post-shift hand wipe samples on the second day of sampling. Sample jars were prepared less than a week before sampling. Two 3”x 3” sterile gauze pads (Dynarex, Orangeburg, NY) were placed in 120 mL amber glass jars (Fisher Scientific, Pittsburgh, PA). In each jar, we pipetted 6 mL of 99% HPLC grade isopropanol (Fisher Scientific). The jars were then tightly sealed and stored at approximately 5°C. Hand wipe samples were collected in a break room before and after the work shift. For sample collection, an industrial hygienist instructed participants to remove gloves, grab one of the gauze pads and wipe both bare hands for 30 seconds. Then they were instructed to grab the other wipe and repeat the process. Both gauze pads were placed back into the jar, sealed, and refrigerated (< 4C) until analyzed. For the post shift hand wipes, workers were asked if they washed their hands since providing the pre shift hand wipe sample. The hand wipe samples were analyzed for TPhP.
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8

Cardiolipin Lipid Extraction and Analysis

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All CL standards, as well as the E. coli CL extract, were purchased from Avanti Polar Lipids (Alabaster, Alabama), and used without further purification. The general composition of CL molecules is illustrated in Scheme S1, with the structures and molecular weights of all CL standards highlighted in Table S1. The numbering of carbons in fatty acids is displayed in Scheme S2. A detailed description of the nomenclature and shorthand notation for lipids is also provided in Supporting Information. HPLC-grade methanol and acetonitrile were purchased from EMD Millipore (Billerica, MA). HPLC-grade isopropanol and LC/MS-grade formic acid were purchased from Thermo Fisher Scientific (Waltham, MA). Chloroform was purchased from Sigma-Aldrich (St. Louis, MO). A total lipid extract was prepared from a human papillary thyroid carcinoma, procured through the Cooperative Human Tissue Network, utilizing the Bligh and Dyer total lipid extraction method.46 (link) Samples were diluted in 50:50 Chloroform-methanol to 10 μM for CL standards and 10 ng/μL for the biological extracts.
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9

Procurement of MS-grade Solvents

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MS-grade methanol, MS-grade acetonitrile and HPLC-grade isopropanol were purchased from ThermoFisher (Thermo Fisher Scientific Co., Waltham, Massachusetts, USA). HPLC-grade formic acid, HPLC-grade ammonium formate and MTBE were purchased from Sigma-Aldrich (Sigma Chemical Co., St. Louis, Missouri, USA).
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10

Simultaneous Quantification of Anticancer Agents

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All analytes including Cap (Lot: J0713AS), 5'-DFCR (Lot: J1112AS), 5'-DFUR (Lot: J0713A), 2'-DFUR (Lot: J0620A), 5-FU (Lot: A0930AS), fludarabine (Fdb) (Lot: M0501AS) and 5-chlorouracil (5-ClU) (Lot: J1204A) but excepting FUH2 (Lot: 5-PTR-167-1) were purchased from Meilun Biotech Co., Ltd (Dalian City, China). FUH2 was supplied by Toronto Research Chemicals (Toronto, Canada). HPLC-grade acetonitrile was obtained from Merck (Merck Company, Darmstadt, Germany). HPLC-grade formic acid, dimethyl sulfoxide (DMSO), and ammonium acetate were purchased from Tedia Company Inc (Tedia, Fairfield, OH, USA). Ultrapurified water (0.22 µm filter membrane) was self-made in laboratory on a Milli-Q Reagent Water System (Millipore, MA) and was used throughout. HPLC-grade isopropanol and ethyl acetate were bought from Thermo fisher (Thermo Fisher Scientific, Waltham, MA) and Caledon laboratories (Caledon Laboratories Ltd, Georgetown, Canada). Human blank plasma was donated by Shanghai Red Cross Blood Center (Shanghai, China).
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