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17 protocols using qvd oph

1

DNA Damage Assessment in Apoptotic Cells

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Cells cultured on glass coverslips were treated with 5-FdU in the presence or absence of 10 μM caspase inhibitor Q-VD-OPH (BioVision Inc). Cells were fixed in 3.7% formaldehyde for 10 minutes, blocked with PBS containing 10% FBS and 0.1% Triton X-100 for 20 minutes, washed with PBS three times, and incubated with primary anti-γH2AX antibody (Millipore, dilution: 1:150) in PBS containing 0.1% Triton X-100 at 4°C overnight. The cells were then washed with PBS three times, incubated with secondary antibodies (Alexa Fluor 594, Life Technologies; dilution: 1:400) in PBS containing 0.1% Triton X-100 for 1 h, and washed with PBS three times. The slides were mounted with antifade solution with DAPI (Cell Signaling) and visualized on a Leica laser microscope.
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2

Antibodies and Reagents for ATF6 Study

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Rabbit polyclonal anti-ATF6 antibodies raised against amino acids 6–307 of ATF6 were described previously [7 (link)]. Rabbit polyclonal antibodies against FLAG, CstF-64, and GFP were from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Rabbit polyclonal antibodies against PARP (#9542) and eIF4G were from Cell Signaling Technologies (Beverly, MA, USA). Monoclonal antibodies against EV-A71 3Cpro and 3D were generously provided by Dr. Shin-Ru Shih of Chang Gung University, Taiwan [5 (link), 24 (link)]. Monoclonal antibodies against HA (clone 3F10) and His tag were from Roche (Indianapolis, IN, USA) and Serotec (Oxford, UK), respectively. Antibody against GAPDH was from Abnova (Taoyuan, Taiwan). The sequence of small interfering RNA for ATF6 (siATF6) was 5′-UAC ACU UGU AGC UCA CUC CCU GAG U-3′, and that of siXBP1 was 5′-CUC AGA CUA CGU GCA CCU CUG CAG CA-3′. The caspase inhibitors Z-VAD-FMK (Cat. # 1140-1) and Q-VD-OPH (Cat. # 1170-1) were from BioVision.
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3

Induction and Inhibition of Cell Death

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The bovine dialyzable leukocyte extract, IMMUNEPOTENT CRP© (I-CRP), was produced as described previously [6 (link), 11 ], and was dissolved in media. One unit of I-CRP is defined as the product obtained from 1 × 108 leukocytes [11 , 12 ]. Etoposide and QVD.opH (BioVision) were dissolved in DMSO. N-acetyl-L-cysteine (NAC) and H2O2 were dissolved in water. For cell death induction, cells were seeded and incubated with the indicated concentration of I-CRP, Etoposide, or H2O2 at the indicated times. For cell death inhibition, QVD.opH or NAC were added 30 min before I-CRP, Etoposide, or H2O2 treatment. All stock solutions were wrapped in foil and stored at −20 °C. All reagents were from SIGMA-ALDRICH, unless otherwise stated.
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4

Apoptosis in Bone Marrow Cells

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MxTKO and MxCntrl mice were injected once with pI-pC and twice with QVD-OPh (irreversible broad-spectrum caspase inhibitor, 25 mg/kg body weight, from Biovision) on days 0 and 3. On day 6, mice were sacrificed and bone marrow sections were stained with hematoxylin and eosin or TUNEL. In addition, TUNEL staining was quantified by FACS.
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5

Exploring I-CRP-induced Leukemic Cell Death

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We used different pharmacological inhibitors to determine the cell death mechanism of I-CRP in leukemic cells. QVD-OPh (QVD, 10 μM) as a general caspase inhibitor; Z-DEVD (1 μM) as caspase-3 inhibitor; Z-IETD (1 μM) as caspase-8 inhibitor; and Z-LEHD (1 μM) as caspase-9 inhibitor were acquired from BioVision (CA, USA). N-acetyl-cysteine (NAC, 5 mM) was used as an ROS inhibitor. The inhibitors were added 30 minutes before CC50 I-CRP treatment. All stock solutions were wrapped in foil and stored at −20°C.
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6

MTT Assay for Cell Viability Assessment

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MTT reduction assay was performed as previously described (Damgaard et al, 2013) with cells treated with recombinant human TNF (100 ng/ml; Life Technologies), ultrapure LPS from E. coli K12 (100 ng/ml; Invivogen), poly(I:C) (1 μg/ml; Invivogen), staurosporine (1 μM; Sigma), cycloheximide (CHX; 50 μg/ml; Santa Cruz Biotechnology), or a combination of recombinant human TNF and CHX with or without the caspase inhibitor Q‐VD‐OPh (10 μM; BioVision, Milpitas, CA) or the RIPK1 kinase inhibitor necrostatin‐1 (Nec‐1) (10 μM; Cayman Chemical, Ann Arbor, MI) as indicated. For further details, see Appendix Supplementary Methods.
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7

Optimizing IMiD and Bortezomib Treatments

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All drugs were diluted from stock solutions into full tissue culture medium (RPMI+10% FBS). Bortezomib (Thermo Fisher) was reconstituted in DMSO at 10 mM stock solution and used at a final working concentration of 50 nM. QVD-OPh (Abcam) 10 mM stock solution was diluted to a final working concentration of 10 μM. All IMiD drugs were obtained from MedChemExpress: Thalidomide (MedChem Cat#HY-14658), Pomalidomide (MedChem Cat#HY-10984), Lenalidomide (MedChem Cat#HY-A0003), and Iberdomide/CC220 (MedChem Cat#HY-101291) were made into single-use aliquots at 10 mM in DMSO, stored at −80°C, and diluted. An equivalent proportion of Dimethyl Sulfoxide (DMSO) was added to all control samples.
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8

Fibroblast Lines and Drug Treatments

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Patient fibroblast lines obtained from the NINDS depository: ND40066, ND36091, ND34769 and from Coriell Institute for Medical Research were as followed: GM05294 and GM02052. Patient fibroblasts and MEF cells were maintained in DMEM high glucose with 10% FBS, 2mM L-Glutamine, 10mM HEPES, 0.1mM non-essential amino acids, and 1mM sodium pyruvate. Cells were routinely tested for mycoplasma contamination. Cells for growth curve experiments were used at matching passage numbers. Pharmacological drugs used in to treat either cell lines or primary cells are as follows: 10 μg/ml oligomycin (EMD Millipore) and 5 μg/ml antimycin A (Sigma), 10 μM etoposide, 1μM BX-795, 100ng/mL nocodazole, 2.5mM thymidine (Sigma), 0.5nM A/C heterodimer (rapalog) (Takara), and 10 μM QVD-OPh (Abcam).
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9

Evaluating BRAF-Targeted Therapies in Melanoma

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Two BRAF-mutated cell lines, A-375 [73 (link)] and Mel-HO [74 (link)], as well as two BRAF-WT melanoma cell lines, MEWO [75 (link)] and SK-MEL-23 [76 (link)], were cultured at 37 °C, 5% CO2 in DMEM (4.5 g/L glucose; Invitrogen, Karlsruhe, Germany), supplemented with 10% fetal calf serum and antibiotics. For control, three different cultures of normal human fibroblasts were used (ATCC, Manassas, VA, USA), which were cultured in RPMI 1640 growth medium + 10% FCS.
Cells were treated with the selective BRAF (V600E) inhibitor vemurafenib/PLX4032 (Selleck Chemicals, Houston, TX, USA), the ERK1/2 inhibitor SCH772984 (Cay19166; Cayman Chemical, Hamburg, Germany), and the Mcl-1 inhibitor S63845 (HY-100741; MedChemExpress, Cologne, Germany), while control cells received the solvent DMSO. For caspase inhibition, the pan-caspase inhibitor QVD-Oph (Abcam, Cambridge, UK; 5 μM) was applied at 1 h before cells were treated with other agents. Most analyses were performed in 24-well plates, and 5 × 104 cells were seeded per well.
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10

Caspase Activation Assay for SIM-A9 and 4T1 Cells

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SIM-A9 and 4T1 cultures were prepared by seeding 5x104 cells/well in 24-well dishes (CORNING), then incubated with EPI or CTX alone or pre-treated for 30 min with 10 mM QVD-Oph (Abcam) (pan caspase inhibitor). Cells were then detached and stained using a General Caspase Activation Kit (TF2-VAD-FMK) (Abcam) following the manufacturer's instructions. Caspase activity was determined by flow cytometry and analyzed using FlowJo Software.
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