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2 protocols using anti ddx60

1

Comprehensive Cell Lysis and Immunoblotting

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Cells were washed twice with ice-cold phosphate-buffered saline (PBS; Wisent), harvested and lysed in 10mM Tris-HCl, 100mM NaCl, 0.5% Triton X-100, pH7.6 with EDTA-free Protease Inhibitor Cocktail (Roche). Cell lysates were clarified by centrifugation at 13,000 g for 20 min at 4°C and subjected to sodium dodecyl sulfate-polyacrylamide gel (SDS-PAGE). Western blot analysis was performed using mouse anti-PHF5A (Abnova), anti-IRF3 (Santa Cruz), anti-TRAF3 (Santa Cruz), anti-RIG-I (Alexis Biochemicals), anti-ACTIN (Chemicon International), anti-TBK1 (Imgenex and Santa Cruz), anti-IKBKE (Santa Cruz), anti-TUBULIN (ICN), anti-GAPDH (RDI) and rabbit anti-SNRNP200 (Sigma-Aldrich), anti-SF3A1 (Santa Cruz), anti-RELA (Santa Cruz), anti-NHP2L1 (Abcam), anti-DDX3X (Bethyl), anti-DDX60 (Abcam), TRIF (Cell Signaling), anti-ISG56 (Novus Biologicals), anti-MDA5 (Alexis Biochemicals), anti-MAVS (Alexis Biochemicals), anti-IKBKE (eBioscience), STAT1 (ABCAM), STAT1 tyr701 (ABCAM), IFNAR1 (Santa Cruz) and anti-IRF3-P-ser386 (Abcam). HRP-conjugated secondary antibodies were from Bio-Rad. The chemiluminescence reaction was performed using the Western Lighting Chemiluminescence Reagent Plus (PerkinElmer).
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2

Antibody Validation for m6A Studies

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The following antibodies were used in this study: anti-m6A (Synaptic Systems, 202003 for m6A-seq; Abcam, ab208577 for m6A-IP qPCR), anti-YTHDF1 (Proteintech, 66745–1-lg), anti-TRAF6 (Abcam, ab181622), anti-TRAF3 (Proteintech, 18099-1-AP), anti-β-actin (HuaAn, R1207–1), anti-Flag (Sigma-Aldrich, F3165), anti-MYC (Abcam, ab32), anti-DDX60 (Abcam, ab139807), anti-MyD88 (Proteintech, 23230-1-AP), anti-phosphor-p65 (Cell Signaling Technology, 3033), anti-phosphor-IκBα (Cell Signaling Technology, 2859), anti-TRIF (Proteintech, 23288-1-AP), anti-p65 (Proteintech, 10745-1-AP), anti-IκBα (Proteintech, 10268-1-AP), anti-BCLAF1 (Proteintech, 26809-1-AP), anti-THRAP3 (Proteintech, 19744-1-AP), anti-TRAF3 (Proteintech, 18099-1-AP), anti-phospho-IKKα/β (Cell Signaling Technology, 2078), anti-IKKα (HuaAn, ER30911), anti-IKKβ (HuaAn, ER1706-13), anti-p38 (HuaAn, ET1602-26), phospho-p38 (Cell Signaling Technology, 9211), anti-phospho-JNK (HuaAn, RT1488), anti-JNK (HuaAn, RT1550), anti-ERK1/2 (Cell Signaling Technology, 9102), phospho-ERK1/2 (HuaAn, ET1610–13), normal rabbit IgG (Cell Signaling Technology, 2729) and normal mouse IgG (Cell Signaling Technology, 5946).
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