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258 protocols using dimethyl sulfoxide (dmso)

1

Rapamycin's Impact on Cell Growth

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The effect of rapamycin on cell proliferation was evaluated via growth curve assays. Strains were pre-grown overnight in YPD at 30°C and after repeated washing they were diluted to OD600 = 0.01 in YPD with and without supplementation of 5 nM rapamycin (Sigma-Aldrich and Merck KGaA, Darmstadt, Germany) solved in DMSO (Carl Roth GmbH & Co. KG, Karlsruhe, Germany) or an adequate amount of DMSO as control. Cultures were incubated at 30°C in a Magellan TECAN plate reader (Tecan I-Control Infinite® 200 Pro, Tecan Austria GmbH, Grödig, Austria) with the extinction in the wells at 600 nm determined over 48 h every 15 to 30 min after 30 s orbital shaking. Generation times as the time for one doubling of cell count was calculated in phases of exponential growth (Hall et al., 2014 (link)). Additionally, the initial time points and the extinction in the wells at 600 nm at the stationary phase were measured.
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2

Combinatorial Immuno-Oncology Therapy

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In 200 µL Matrigel (Corning, #354277)/PBS (1:1) 5×105 CM cells were suspended and subcutaneously injected in 12-week-old C57BL/6 female mice. CBX (20 mg/kg, Sigma-Aldrich, #C4790), anti-PD-1 (10 mg/kg, clone RMP1-14, BioXcell, #BE0146) or isotype control IgG2a (10 mg/kg, clone 2A3, BioXcell, #BE0090) was intraperitoneally injected at days −1, 0, 2, 4, 6, 8 and 10 depending on the experimental setting. 10j (Merck KGaA, #385581) was subcutaneously injected at days −1, 0, 1 and 2 with a concentration of 10 µM/5% DMSO (Carl Roth, #4720.1) and at days 3, 4, 5, 6 and 7 with a concentration of 5 µM/2.5% DMSO. Five per cent DMSO in water was subcutaneously injected from day −1 to day 7 as a vehicle control. Animals were sacrificed on indicated time points. Tumor volumes were calculated using a caliper with the formula: tumor volume=width×length×height.
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3

Flavone Stock Solution Preparation

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Each non-oxidized flavone stock solution was prepared by dissolving the flavones (Indofine Chemical Company, Inc., Hillsborough, NJ, USA) in dimethylsulfoxide (DMSO, Carl Roth, Karlsruhe, Germany) to a final concentration of 10 mM. The oxidation solution of each flavone was prepared by diluting 10 mM flavone stock solution with 10 mM sodium phosphate buffer (pH 8.0) and DMSO to yield a final flavone concentration of 0.2 mM in 9 mM sodium phosphate buffer solution containing 10% DMSO. The 10% DMSO buffer solution was used to increase the solubility of flavones.
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4

Baf Exposure and Imaging Assay

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Animals were either injected with 50 μM Baf (LC Laboratories, B-1080) or DMSO (Carl Roth, A994.1) and imaged 3 h later or incubated in an M9 solution with 25 μM of Baf or DMSO for 6 h.
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5

Multi-Extract Preparation for Biological Assays

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200 g of dried powder of pharmaceutical-grade E. globulus leaves (Bristol Botanicals, Bristol, UK), 200 g of dried powder of food-grade A. indica leaves (Vitafoodz, Waren, Germany) and 200 g of dried powder of pharmaceutical grade G. glabra roots (Bristol Botanicals) were extracted using either 600 mL 70% aqueous ethanol (Carl Roth, Karlsruhe, Germany) or 600 mL acetone (Carl Roth) for 24 h under continuous stirring. Insolvable parts were taken off using a 0.22 µm Stericup vacuum filtration system (Merck Millipore, Billerica, MA, USA). The extractant was then removed under reduced pressure at 40 °C using a rotary evaporator (Rotavapor R-210, Büchi, Essen, Germany). The soluble fraction was weighed and dissolved in DMSO (Carl Roth), achieving a stock concentration of 204.8 g/L. Aliquots were stored at −80 °C and diluted in DMSO to a final concentration of 20.48 g/L prior to use. Dried R. palmatum root extract (2.048 g, Paninkret, Pinneberg, Germany) was solved according to the instructions of the manufacturer in 100 mL 50% aqueous ethanol (Carl Roth), achieving a stock concentration of 20.48 g/L. The stock solution was stored at 4 °C. 2.048 g rhein (Sigma Aldrich, Darmstadt, Germany) was dissolved in 100 mL 0.1 M NaOH(aq.) (Carl Roth), achieving a stock concentration of 20.48 g/L. The stock solution was stored at room temperature protected from daylight.
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6

Transcriptomic Analysis of Mammary Tumors

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Gene expression was analyzed in KB1P and KP mouse mammary tumors. Illumina TruSeq mRNA libraries were generated and sequenced with 50-65 base single reads on a HiSeq 2500 using v4 chemistry (Illumina Inc., San Diego). The resulting reads were trimmed using Cutadapt (version 1.15) to remove any (ATR inhibitor, Cat#S7102), venetoclax (BCL2 inhibitor, Cat#S8048). NSC663284 (Cdc25 inhibitor, Cat#383907-43-5) was purchased from Cayman Chemical, PF3644022 (MK2 inhibitor, Cat#B5549) from ApexBio, ZLD1039 (EZH2 inhibitor, Cat#AOB9716) from AOBIOUS. All compounds were dissolved in DMSO (Carl Roth, Cat#A994.2) at a concentration of 10 mM. Equal amounts of DMSO added to the cell culture medium served as vehicle control.
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7

HPLC-MS Carbamazepine Quantification Protocol

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HPLC solvents methanol hypergrade LC–MS (Chromasolv), water hypergrade LC–MS (Chromasolv), acetonitrile LC–MS grade (Chromasolv) and formic acid (98%, eluent additive for LC–MS), carbamazepine for analysis, carbamazepine13C6 (13C present in one benzene ring), sodium chloride, and magnesium sulfate were purchased from Sigma-Aldrich (Steinheim, Germany). PSA bulk sorbent and C18 bulk sorbent were from Agilent Technologies (Waldbronn, Germany). Carbamazepine (chemical purity > 99%) for exposure tests, dimethyl sulfoxide (DMSO, purity: 99.5%), and the micro-homogenizer PP were delivered by Carl Roth (Karlsruhe, Deutschland). PTFE syringe filters 0.45 μm, 3 mm, were supplied by Macherey–Nagel (Düren, Germany).
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8

Procurement of Analytical Reagents

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LC-MS grade formic acid was purchased from Sigma Aldrich Co., St. Louis, MO, USA. LC-MS grade acetonitrile, water, and other (analytical grade) solvents were obtained from VWR International GmbH, Darmstadt, Germany. Dimethyl sulfoxide was purchased from, Carl Roth GmbH, Karlsruhe, Germany.
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9

Analytical TLC of Chemical Compounds

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Analytical TLCs were performed on silica gel plates (Merck, Kieselgel 60F254, 0.25 and 0.5 mm, Merck, Darmstadt, Germany). The spots were visualized by exposure to UV light and/or iodine vapours and/or by spraying with 10% H2SO4 in MeOH and with 5% phosphomolybdic acid in EtOH, followed by heating at 110 °C for 10 min. Sigma Aldrich Co. (St. Louis, MO, USA, supplied all reagents and solvents. LC-MS grade acetonitrile, water, and other (analytical grade) solvents were obtained from VWR International GmbH, Darmstadt, Germany. Dimethyl sulfoxide was purchased from, Carl Roth GmbH, Karlsruhe, Germany.
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10

Synthesis of Functionalized Gold Nanoparticles

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2-(4,5-dimethylthiazol-2-yl)-3,5-diphenyl-2H-tetrazol-3-ium bromide (MTT) was obtained from Thermo Fisher Scientific. Dimethyl sulfoxide (DMSO, ≥99.5%) was obtained from Carl Roth. Propargyl bromide, 4-mercaptophenol, potassium carbonate, 2-chloro-N,N-dimethylethylamine hydrochloride, methyl iodide, tert-butyl bromoacetate, trifluoroacetic acid, 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide, 1-hydroxybenzotriazole, N-methylmorpholine, acetyl chloride, tetraethylene glycol, and p-toluenesulfonylchloride were obtained from TCI chemicals. 1,4-bis-boc-1,4,7-triazaheptane was obtained from Iris biotech. All reagents were used as delivered without further purification.
Ultrapure water was prepared with a Purelab ultra instrument from ELGA and used for all syntheses involving nanoparticles. All chemicals were used without further purification. Prior to all syntheses involving gold nanoparticles, the glassware was cleaned once with boiling aqua regia and twice with boiling ultrapure water.
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