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5 protocols using lenalidomide

1

Characterization of Human Myeloma Cell Lines

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Human myeloma cell lines (HMCL) were obtained from ATCC (MM1.S [CRL‐9068], U266B1 [TIB‐196], NCI H929 [CRL‐9068], RPMI 8226 [CCL‐155]) or JCRB (KMS11 [1179]) and were confirmed mycoplasma‐negative and validated by 9‐marker Short Tandem Repeat profiling (IDEXX BioResearch). Other HMCLs were obtained from DSMZ (JJN3, LP‐1), ATCC (MM1.R), or RG Hawley (8226Dox40, KMS34, KMS34CFZ; George Washington University).25 Lysates from kidney cancer cell lines Caki‐2 and RCW were provided by Y. Nakamura. Cells were cultured in RPMI 1640 (Life Technologies, #72400) with 10% fetal calf serum and penicillin/streptomycin under 5% CO2. OTS514 and OTS964 were provided by OncoTherapy Science, Inc. Lenalidomide and verapamil were purchased from Cayman Chemical. For viability assays, 2 × 104 cells/well were cultured in 96‐well plates with increasing concentrations of test drug for 72 hours (minimum 6 wells per dose per cell line). MTT (thiazolyl blue tetrazolium bromide, Acros Organics) was then added and incubated at 37°C for up to 1.5 hours. Cells were lysed overnight, absorbance at 570 nm was read, and IC50 was calculated using the four‐parameter log (inhibition) vs response fit in Prism 7 (GraphPad Software). Multi‐agent curves were evaluated for pharmacological synergy by the Chou‐Talalay method with CalcuSyn Software (ComboSyn, Inc).26
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2

In Vitro Cell Culture of B-Lymphoma

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B-lymphoma cell line DB and SU-DHL-4 were available from American Type Culture Collection (ATCC, Manassas, VA, USA). Cells were cultured in RPMI-1640 medium with 10% heat-inactivated fetal bovine serum (FBS) in a humidified atmosphere of 95% air and 5% CO2 at 37 °C. Specific TGF-β/NODAL/Smad inhibitor SB431542 was from Sigma (St. Louis, MO, USA). Lenalidomide was from Cayman Chemical (Ann Arbor, MI, USA). Nucleic acid synthesis inhibitor Actinomycin was from Abcam (Cambridge, UK).
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Synthesis and Procurement of Pharmacological Agents

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FPFT-2216 and pomalidomide were synthesized by Fujimoto Pharmaceutical Group. Avadomide, iberdomide, siremadlin, idasanutlin, navtemadlin, milademetan, and MG-132 were procured from MedChemExpress; Z-VRPR-FMK and phorbol 12-myristate 13-acetate (PMA) were procured from Adipogen Life Sciences. Lenalidomide and ionomycin were obtained from Cayman Chemical, BAY 11-7082 from FUJIFILM Wako Pure Chemical Corporation, and safimaltib from Selleck Chemicals. Rituxan Intravenous Infusion (rituximab) was obtained from Zenyaku Kogyo. Z-VRPR-FMK was dissolved in PBS, and other reagents were dissolved in DMSO. The final DMSO concentration used for in vitro experiments did not exceed 0.25%.
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Immunomodulatory Agents and Inflammation

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A stock solution of lipopolysaccharide (LPS) from Escherichia coli (#L2654-1MG; Merck KGaA, Darmstadt, Germany) was dissolved in medium (1 mg/mL) and stored at −80 °C. LPS was used at a concentration of 1 ng/mL based on titration experiments using monocytes in the Seahorse assay. Bortezomib (#5043140001; Merck KGaA) was dissolved in medium and used at a final concentration of 25 nM; this concentration can inhibit in vitro constitutive chemokine release by myeloid cells [54 (link)]. Stock solutions of thalidomide 12 µg/mL (#14610), lenalidomide 16 µg/mL (#14643), and pomalidomide 15 µg/mL (#19877; all from Cayman Chemicals, Ann Abor, MI) were prepared in DMSO (D2650-5X5ML, Merck KGaA), aliquoted, and stored at −80 °C. DMSO reached a final concentration of 0.55 mg/mL (corresponding to 0.055%) in the experiments. The molecular weights for the IMiDs are thalidomide (C13H10N2O4) 258, lenalidomide (C13H13N3O3) 259, and pomalidomide (C13H11N3O4) 273 (see Supplementary Figure S4). The IMiDs were used at a final concentration of 5 µg/mL; this concentration corresponds to the systemic levels reached in vivo during thalidomide treatment of myeloma patients [44 (link)] (for molar concentrations, see Supplementary Figure S4).
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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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