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135 protocols using rs2000

1

DNA-PKcs Knockout MEF and NPC Cells

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DNA-PKcs−/− and WT MEF cells were kindly provided by Professor Gloria C. Li from Memorial Sloan-Kettering Cancer Center, USA (3 (link),24 (link),25 (link)). SUNE-1 cell line, derived from a patient with undifferentiated NPC (26 (link),27 (link)), was a gift from Professor Tiebang Kang at Sun Yat-sen University Cancer Center. WT, DNA-PKcs−/− MEF cells and human NPC SUNE-1 cells were maintained in RPMI-1640 supplemented with 10% fetal bovine serum (FBS), penicillin, and streptomycin at 37°C in 5% CO2.
The DNA-PK inhibitor NU7441 (Tocris Bioscience, Bristol, UK) was dissolved in dimethylsulfoxide (DMSO) as a 5 mmol/l stock solution and stored at −20°C. All drugs were added to cells with a final DMSO concentration of 0.5%. Cells were exposed to X-rays generated by a Rad Source RS2000 irradiator (Rad Source Technologies, Buford, GA, USA) operating at 25 mA with a 0.3 mm Al filter and effective photon energy of 160 kV. The dose rate at an irradiation distance of 48.6 cm was 1.31 Gy/min.
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2

Hematopoietic Recovery after Radiation

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The mice treated with or without Saracatinib were irradiated sub-lethally (4.5Gy) using an X-ray based RAD SOURCE RS-2000 biological Irradiator (Rad Source Technologies, Alpharetta, GA). The extent of hematopoietic injury and the follow up recovery from radiation injury was monitored by PB analysis, at one-week interval, for 8 weeks. The PB samples were collected by tail clipping, in EDTA coated microcuvettes (Sarstedt) and analyzed on a scil Vet ABC animal blood counter (Horiba ABX, Montpellier, France). Peripheral blood levels of RBCs, hematocrit, hemoglobin, mean corpuscular volume (MCV), mean corpuscular hemoglobin (MCH), total WBCs, monocytes, granulocytes, platelets, eosinophils and lymphocytes were measured. Eight weeks after radiation, the mice were sacrificed and the frequency of LSK cells and HSCs was examined by flow cytometry.
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3

Genetic Profiling of DNA Repair Mutants

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DNA-PKcs−/−, Ku70−/−, and wild-type mice on 129 genetic backgrounds were bred as previously reported [46 (link), 47 (link)]. Mouse embryonic fibroblast (MEF) cells from DNA-PKcs−/−, Ku70−/−, and wild-type animals were isolated from 13.5-day-old mouse embryos, respectively. The genotype of the embryos was determined by PCR, which distinguished the endogenous from the targeted DNA-PKcs allele or Ku70 allele.
NU7441 (Tocris Bioscience), a DNA-PK inhibitor was dissolved in dimethylsulfoxide (DMSO) for 5 mmol/L stocks and stored at −20°C. All drugs were added to cells to a final DMSO concentration of 0.5%. Cells were exposed to X-rays generated by a RAD SOURCE RS2000 irradiator (Rad Source Technologies, Inc.) operating at 25 mA, with a 0.3-mm Al filter and effective photon energy of 160 kV. The dose rate at an irradiation distance of 48.6 cm was 1.31 Gy/min.
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4

DNA-PK Inhibition and X-ray Exposure

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The DNA-PK inhibitor NU7441 (Tocris Bioscience, Bristol, UK) was dissolved in dimethyl sulfoxide (DMSO) as a 5 mmol/l stock solution and stored at −20°C. A casein kinase 2 (CK2) inhibitor, CX4945, was purchased from Selleck Chemicals (Houston, TX, USA). Cells were exposed to X-rays generated by a Rad Source RS2000 irradiator (Rad Source Technologies, Inc., Buford, GA, USA) operating at 25 mA with a 0.3 mm Al filter and effective photon energy of 160 kV. The dose rate at an irradiation distance of 48.6 cm was 1.31 Gy/min.
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5

Clonogenic Survival Assay for Radiation Response

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Clonogenic survival assay was performed as described previously.27 (link),28 Briefly, control shRNA- and shARFRP1-treated MCF-7 and MDA-MB-231 cells were plated in triplicate in six-well plates at a concentration of 300 cells per well for 0 and 1.5 Gy treatment, and 600 cells per well for 3 and 5 Gy treatment. X-rays were delivered using a Rad Source RS-2000 cabinet irradiator (Rad Source Technologies, Buford, GA) followed by a 10-day incubation. Cell colonies were fixed and stained in an aqueous solution containing 6.0% glutaraldehyde and 0.5% crystal violet. The plates were then rinsed with water and dried at room temperature in air. Those colonies with at least 50 cells were counted. The survival fraction (SF) was calculated using the following equation:
SF=(Ncolonies,IRNseeded,IR)/(Ncolonies,controlNseeded,control)
where Ncolonies,IR and Ncolonies,control are the numbers of colonies formed from IR-treated and control untreated cells, respectively, and Nseeded,IR and Nseeded,control are the numbers of cells seeded for IR treatment and without IR treatment, respectively.
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6

X-Ray Exposure on Cells

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Cells were exposed to 10 Gy (normoxia)/25 Gy (hypoxia) X-ray (160 kV, 1.16 Gy/min) by a linear accelerator (RadSource, RS2000) at room temperature.
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7

ROS Generation of Nanoscintillators under X-ray

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Following our previous report,[22b (link)] 1,3-diphenylisobenzofuran (DPBF) was used to confirm the ROS generation of nanoscintillators under X-ray. 1 mM DPBF was dissolved in 1 mL of ethanol and mixed with 1 mL of the aqueous solution of different concentrations of nanoparticles. The mixture of DPBF and nanoparticles was irradiated with different intensity X-rays using an X-ray irradiator (RS-2000, RadSource Technologies, Inc., Suwanee, GA, USA). Radiation intensity was 0–6 Gy, and the irradiation intensity was controlled by adjusting the X-ray exposure time. The change of absorbance of DPBF (at 412 nm) in solution after X-ray irradiation was measured by a UV/Vis spectrometer (Cytation3, BioTek, USA).
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8

Radiation Dose-Response Protocol

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Cells were irradiated in an X-ray irradiator (RS2000; Rad Source Technologies, Alpharetta, GA, USA) at room temperature with an absorption rate of 1.284 Gy/min. A dose of 5 Gy was administered. Animals received total body irradiation at a dose of 6 Gy.
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9

X-ray Irradiation of Cells and Tumors

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Cells and animals were irradiated with indicated radiation doses using a 160 KVp source RS-2000 (Rad Source Technologies, Inc) X-ray irradiator at 25 mAmp, and at a dose rate of 1.24 Gy/minute. The biological irradiator used for both in vitro and in vivo experiments has a 0.3 mm copper filter. A customized shield exposing only the flank tumors was used to irradiate mice.
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10

Tumor-Specific T Cell Expansion Protocol

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Tumor-specific T cells were generated from tumor specimens with a well-established two-step method, as described previously (17 (link), 18 (link)). During the initial outgrowth [pre–rapid expansion protocol (REP)], single-cell suspensions of digested primary breast tumor tissue generated as aforementioned (see “Primary cell isolation from tumor tissue”) were cultured in RPMI-1640 medium supplemented with 10% FBS and 6000 IU/mL of IL2 (Novartis) to allow TIL outgrowth for 14 to 21 days. In some experiments, CD161+ CTLs were isolated via FACS and edited by Cas9 protein with control or CD161 gRNA (see “CRISPR-mediated gene knockout”). In the second step, cells were further expanded using a standard small-scale REP with irradiated allogeneic feeder cells (40 Gy, 200:1), CD3 antibody (Miltenyi Biotec, #130-093-387, clone OKT3, 30 ng/mL), and 6,000 IU/mL of IL2. Periphery blood lymphocytes from healthy donors were irradiated (Rad Source, Rs2000) and served as feeder cells. One cycle of REP (14 days) resulted in massive T-cell expansion.
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