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8 protocols using cyclophosphamide

1

Chemotherapeutic Agents Administration Protocol

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LND was purchased from Santa Cruz Biotechnology, Inc. (Santa Cruz CA, USA). The drug (LND; 5 mg) was dissolved in 227 μL of tris/glycine buffer (22.0 mg/mL), vortexed until the solution was clear, and administered i.p. at a dose of 100 mg/kg. The buffer consisted of trizma base (1.2 g) and glycine (5.76 g) in 100 mL sterile water (final pH = 8.3). Chlorambucil was purchased from Sigma Aldrich (St. Louis, MO, USA) and was dissolved by solubilization in 70% acid ethanol followed by 10-fold dilution with PBS immediately prior to i.v. administration (20 mg/kg). Cyclophosphamide was purchased from Cayman Chemical Company, Inc. (MI, USA), dissolved in PBS and administered i.v. (40 mg/kg). Bendamustine was purchased from TCI (Tokyo Chemical Industry Co., Ltd., Tokyo, Japan), dissolved in PBS and administered i.v. (25 mg/kg).
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2

Comprehensive Pharmacological Toolkit

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The following drugs were obtained from Cayman Chemical (Ann Arbor, MI, USA): cisplatin (cis-Diamminedichloroplatinum), cyclophosphamide (hydrate), epothilone B, etoposide, 5-fluorouracil, lovastatin (lovastatin hydroxy acid, sodium salt), rapamycin, and tamoxifen. Compounds obtained from Millipore Sigma included: doxorubicin hydrochloride, gemcitabine hydrochloride, and methotrexate.
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3

Antifungal Susceptibility Profiling of C. auris

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C. auris strains were obtained from the BEI Resources (Manassas, VA, USA), and CDC (Atlanta, GA, USA). Media and reagents were provided from the following chemical vendors: crystal violet (Acros Organics, New Jersey, USA), 3-(N-Morpholino) propane sulfonic acid (MOPS) (Fisher Bioreagents, Fairlawn, NJ, USA), phosphate-buffered saline (PBS) (Corning, Manassas, VA, USA), RPMI 1640 (Gibco, Grand, Island, NY, USA), yeast peptone dextrose (YPD) broth (Becton, Dickinson and Company, Franklin Lakes, NJ, USA), and YPD agar (DOT Scientific Inc, Burton, MI, USA). Drugs were obtained commercially as follows: atazanavir and saquinavir (Ambeed, Arlington Heights, IL, USA), chloramphenicol (Sigma-Aldrich, St. Louis, MO, USA), cyclophosphamide (Cayman Chemical, Ann Arbor, MI, USA), posaconazole (Biosynth Carbosynth, San Diego, CA, USA), and ritonavir (TCI America, Portland, OR, USA).
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4

Radiation and Chemotherapy Cytotoxicity

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Viable mast cells were counted by hemacytometer via trypan blue exclusion and plated at 1e6/ml, then exposed to 8.5 or 20 Gy single-dose radiation from a cesium source or chemotherapeutic agents. Busulfan and cyclophosphamide were purchased from Cayman Chemicals (14843 and 13849, Ann Arbor, MI) and resuspended in DMSO. Drugging time and conditions were chosen based on clinical usage where cells were drugged with 800 ng/ml Busulfan and/or 30 ug/ml cyclophosphamide, which corresponded to steady-state serum levels of the drug during clinical utilization (15 (link)). Cells were approximately 98% viable prior to irradiation. Every 24 h, cells were counted and assessed for viability by trypan blue exclusion out to 96 h post-irradiation or 72 h post-drugging.
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5

Vascular Function Assay with NACT Drugs

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Arterial rings from no-NACT patients were incubated with the individual components of NACT: docetaxel, doxorubicin, cyclophosphamide, 4-hydroperoxycyclophosphamide (all from Cayman Chemicals), and vehicle (solvent) as a control. The drug concentrations used were 10 nM or 100 nM. Arteries were incubated in a buffer containing HBSS (Gibco, Thermo Fisher Scientific), 20 mM HEPES (Gibco, Thermo Fisher Scientific), and gentamicin with glutamine in an incubator at 37°C in a humidified atmosphere for 24 hours (52 (link)). After incubation, vascular function was measured, or rings were placed in RNAlater (Ambion) for gene expression and RNA-Seq studies.
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6

Targeted Treatments for Atoh1-Ptch Mutants

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Atoh1-Ptch mutant mice at P15 were randomized to receive vehicle, verteporfin (100 mg/kg) or CD532 (25 mg/kg) administered via intraperitoneal injection. Verteporfin was dissolved in DMSO (100 mg/ml), aliquoted, and stored at −80 °C. Worki ng solution was prepared at 10 mg/ml in PBS freshly before use. Mice were administered at a dose of 100 mg/kg every other day. CD532 was formulated in 5% DMSO and 95% polyethylene glycol 300 (PEG 300) and administered at a dose of 25 mg/kg twice per week. For Cisplatin and cyclophosphamide treatment, Atoh1-Ptch mutant mice at P30 were randomized to receive vehicle, Cisplatin (5 mg/kg) or cyclophosphamide (130 mg/kg). Cisplatin (Cayman Chemical) was diluted in saline at 1 mg/mL and injected i.v. for day 1 and cyclophosphamide (Cayman Chemical) was dissolved in saline at 16.25 mg/mL and injected i.p. for day 2–6. Brain tissues were harvested around 2 weeks after treatment and subjected to immunostaining. For GCV treatment, animals were administrated with GCV (50 mg/kg) by i.p. injection twice daily at the indicated period. Brain tissues were harvested at indicated stages and subjected to immunostaining.
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7

Chemotherapeutic Sensitivity Assay

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tGFP-MVT1 and tGFP-Met1 cells described previously [33 (link)] were cultured in Dulbecco’s modified Eagle’s medium (DMEM) (Gibco) supplemented with 10% fetal bovine serum (FBS), 1% penicillin/streptomycin (P/S) (Gibco), and 3.5 µg/mL puromycin (Sigma). These cell lines express two transgenes (tGFP and puromycin resistance genes), separated by internal ribosome entry site. For cyclophosphamide treatment in vitro, cells were cultured in a 12-well plate in 1 mL of growth medium containing 10 µM of 4-hydroperoxy cyclophosphamide (4-OOH) (Cayman Chemical) for the indicated time before analysis. For CAMP treatment, cells in a 96-well plate were cultured in 100 µL of growth medium containing 1–50 µM of CAMP peptide (Hycult Biotech), as indicated for 24 h before analysis.
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8

Comprehensive Epigenetic Probe Acquisition

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Epigenetic probes described in Table S1 were obtained from the Structural Genomics Consortium (Toronto, Canada). TAK-243 was purchased from Active Biochem (catalog# A-1384), pevonedistat (MLN4924/TAK-924) (catalog #15217), TAK-981 (catalog# 32741), bortezomib (catalog# 10008822), mitoxantrone (catalog# 14842), panobinostat (catalog# 13280), lenalidomide (catalog# 14643), imatinib (catalog# 13139), vincristine (catalog# 11764), cyclophosphamide (catalog# 13849), and cisplatin (catalog# 13119) from Cayman chemicals, zosuquidar (catalog# 5456) and Ko143 (catalog# 3241) from Tocris, GSK-5959 (catalog# HY-18665), inobrodib (catalog# HY-111784), and ivosidenib (catalog# HY-18767) from
MedChemExpress. cisplatin was dissolved in molecular-grade water and all other drugs were dissolved in DMSO.
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