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29 protocols using ruxolitinib

1

ETP-ALL Cell Proliferation Assay

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50,000 sorted GFP+ Il7r-GCinsL243 and Il7r241-242TC ETP leukemic cells were plated in triplicate in a 96-well plate. The cells were cultured in DMEM with 15% FBS with Il-3, IL-6, and stem cell factor containing either 0.5 µM ruxolitinib (LC laboratories) or DMSO (vehicle control; Thermo Fisher Scientific). Cell viability was measured by incubating the cells with Cell Titer-Blue (Promega) for 4 h and reading the plate on a FlUOstar Omega plate reader (BMG Labtech).
Thymocytes were cultured as above on OP9-DL1 and either 1 µM ruxolitinib (LC Laboratories) or DMSO (vehicle control; Thermo Fisher Scientific) were added and the cells were analyzed for cell surface markers by flow cytometry as indicated. For RNA analysis, the cells were sorted for GFP and GFP+ populations and RNA was extracted using the RNAqueous-micro kit (Ambion). Lmo2 RNA levels were measured using the same qRT-PCR assay as above.
For the in vivo studies, animals were sublethally irradiated and transplanted with 5,000 cells from 2 independent ETP-ALL cell lines, S801.2 and S1520.2. 2 d after transplant, treatment was initiated with ruxolitinib (Chemitek) at a dose of 60 mg/kg twice a day by oral gavage or vehicle (5% methylcellulose; Sigma-Aldrich) twice daily for 27 d. Animals were monitored for signs of illness or hematological abnormalities and the endpoint was survival.
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2

NMuMG Cell Culture Protocol with Ruxolitinib Treatment

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NMuMG and NMuMG-luc cells [19] (link) were cultured in Dulbecco's modified Eagle's medium (DMEM; Fujifilm Wako, Osaka Japan) supplemented with 10% fetal bovine serum (FBS; NICHIREI BIOSCIENCES INC., Tokyo, Japan), 100 U/mL penicillin G (Meiji-Seika Pharma Co., Ltd., Tokyo, Japan), 100 µg/mL streptomycin (Meiji-Seika Pharma Co., Ltd.), 10 µg/mL insulin (Fujifilm Wako), and 4.5% glucose (Fujifilm Wako) at 37°C with 5% CO 2 . Plat-E cells for retroviral packaging were cultured in DMEM supplemented with 10% FBS, 100 U/mL penicillin G, and 100 µg/mL streptomycin at 37°C with 5% CO 2 . The cells were treated with 0.1-1 µM Ruxolitinib (LC Laboratories, MA, USA).
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3

NOG Mice Drug Efficacy Test

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Six-week-old female NOD/SCID/γC-null (NOG) mice were used for drug efficacy tests. Animal care was in accordance with institutional guidelines and approved by the Animal Research Committee, Graduate School of Medicine, Kyoto University (Kyoto, Japan). After confirming tumor engraftment, ruxolitinib (LC Laboratories; cat. #R-6600) or vehicle was given twice daily dose (90 mg/kg) via oral gavage for 50 days.
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4

Interferon Alpha Signaling Modulation

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Universal Type I IFN Alpha (PBL) was used at 5–500 U/mL. Lipofectamine 3000 (Thermo Fisher Scientific) was used to deliver cGAMP (InvivoGen). Z-AAD-CMK (Enzo Life Sciences) was dissolved in water at 10 mM and diluted in medium at a final concentration of 100 μM. Ruxolitinib (LC Laboratories) was dissolved in DMSO at 5 mM and then diluted in medium at a final concentration of 2.5 μM.
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5

Inhibitor-based Signaling Pathway Analysis

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Imatinib was purchased from LC Laboratories. Stock solutions were prepared in sterile water at 10 mmol/L and stored at −20°C. Small molecule inhibitor of DUSP6 (2-benzylidene-3-(cyclohexylamino)-1-lndanone hydrochloride; BCI) and the ABL1 activator DPH were purchased from Sigma-Aldrich. BCI-215 was a gift from Dr. Andreas Vogt. The MEK inhibitor (trametinib), the JAK inhibitor (ruxolitinib) and ponatinib were purchased from LC Laboratories. Pimozide (STAT5 inhibitor) was purchased from TOCRIS. Stock solutions were prepared in DMSO at 10 mmol/L and stored at −20°C. For in vivo experiments, compounds were dissolved in NMP:PEG300 (1:9). Ph-like ALL cells (Fig 2e) were treated with ruxolitinib for 20 hours and then processed for Western blotting.
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6

Ruxolitinib diet for infection study

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Ruxolitinib (R-6688, LC Laboratories) was formulated into Nutra-gel diet (F5769-Kit, Bio-Serv) at a concentration of 1 g/kg. Mice were acclimated to untreated Nutra-gel diet (replaced daily) alongside normal rodent chow for 7 days. Mice were provided with Ruxolitinib diet or Nutra-gel diet ad libitum (replaced daily) for 2 days prior to infection and continued throughout infection study period. In experiments where mice were treated with Amphotericin B during infection, Ruxolitinib diet was added on day 18 post-infection and continued throughout the study period.
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7

Inhibitor Compound Preparation and Storage

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Selumetinib (AZD6244, MEK inhibitor), trametinib (GSK1120212, MEK inhibitor), KX2-391 (Src inhibitor) and tofacitinib (CP-690550, JAK3 inhibitor) were purchased from Selleck Chemicals (Houston, TX, USA). PD98059 (MEK inhibitor) and ruxolitinib (INCB081424, JAK1/2 inhibitor) were purchased from LC Laboratories (Woburn, MA, USA). LY5 (STAT3 inhibitor [67 (link)]) was synthesized by Chenglong Li's Lab (College of Pharmacy, The Ohio State University). The drug compounds were dissolved in sterile dimethyl sulfoxide (DMSO) to make a 20 mM stock solution stored at −20°C.
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8

Adoptive Transfer of Pax5-Jak2 B Cells

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Tumor cells from lymph nodes of moribund Pax5Jak2/+ and Pax5Jak2‐Luc/+ mice as well as B220low and B220+ B cells from the bone marrow of Pax5Jak2/+ mice were sorted by flow cytometry and transferred by intravenous injection (105 cells per mouse) into sublethally irradiated C57BL/6 mice (4.5 Gy). Ruxolitinib (R‐6688; LC Laboratories) was administered twice daily by oral gavage of 45 mg/kg in 0.5% methylcellulose (M0512; Sigma). For bioluminescence imaging, mice were intraperitoneally injected with D‐luciferin (150 mg/kg, Goldbio) and imaged with an IVIS Spectrum Xenogen machine (Caliper Life Sciences).
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9

Isolation and Culture of Muscle Stem Cells

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Isolation, sorting and culture of muscle CD45Ter119CD31CD34+Sca1 satellite cells and CD45Ter119CD31CD34+Sca1+ interstitial cells was carried out as previously described (15 (link)). For pSTAT3 phos-flow analysis, cultured muscle satellite cells, interstitial cells, and the mouse mesenchymal progenitor cell line Kusa4b10 cells (29 (link), 30 (link)) were detached by incubating cell monolayers in PBS plus 4 mM EDTA for 5 min at 37°C. Once in suspension, cells were washed in Dulbecco modified essential medium (DMEM, Gibco, Life Technologies), centrifuged and resuspended in DMEM. Cell aliquots (1 × 106) were then preincubated with or without 1 μM ruxolitinib (LC Laboratories), for 30 min at 37°C and subsequently stimulated by addition of 25 ng/mL recombinant mouse OSM (R&D Systems) for 10 min. Cells were then immediately washed in 10 mL ice cold Tris-buffered saline pH 7.4 containing 1 mM Na3VO4, centrifuged, and cell pellets resuspended for fixation and permeabilization (BD Cytofix, Perm buffer IV, BD Biosciences) for 10 and 30 min respectively, cells were then stained with AlexaFluor647-conjugated mouse anti-pSTAT3 (pY705) monoclonal antibody (BD Biosciences, catalog # 557815) for 30 min on ice, cells were then washed and subsequently run on a LSR Fortessa x20 flow cytometer (BD Biosciences). Files were subsequently analyzed with Flow Jo software version 10.4.
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10

Evaluating Novel Compounds for HIV Eradication

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Bryostatin-1, prostratin, ingenol-3,20-dibenzoate and ingenol-3-hexanoate, also known as ingenol B, were obtained from the Martin Delaney Collaboratory of AIDS Researchers for Eradication (CARE) Pharmacology Core, University of North Carolina, Chapel Hill, NC. The kinase inhibitor library was obtained from the University of Utah Drug Discovery Core Facility. CD3/CD28 antibody-coated magnetic beads (Dynabeads® Human T-Activator CD3/CD28) were purchased from Life Technologies (ThermoFisher Scientific). Ruxolitinib was purchased from LC Laboratories, Woburn MA.
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