Kdm4a

Cells were lysed in UTB (9 M urea, 75 mM Tris-HCl pH 7.5, 0.15 M β-mercaptoethanol) and briefly sonicated. Primary antibodies used: HIF-1a (BD Transduction Labs., 610959), KDM4A (Abcam, ab24545), CAIX (BioScience, AB1001), Glut1 (Abcam, ab14683), Actin (Santa Cruz, sc-69879), H3K9me3 (Millipore, 07-422), H3K36me3 (Abcam, ab9050), H3 (Cell Signaling, 36385), NFκB p52 (Millipore, 05-361), Sp1 (Millipore, 07-645), E2F-1 (Cell Signaling, 3742S), HIF-2a (Novus Biologicals, NB100-122). Secondary antibodies were IRDye® 680RD Goat anti-Mouse IgG (H+L), IRDye® 680RD Goat anti-Rabbit IgG (H+L), IRDye® 800CW Donkey anti-Mouse IgG (H+L) and IRDye® 800CW Donkey anti-Rabbit IgG (H+L) from LI-COR Biosciences. Odyssey IR imaging technology (LI-COR Biosciences) was used for imaging.

Samples were lysed in RIPA buffer (20 mM Tris, pH 7.5, 2 mM EDTA, 150 mM NaCl, 1% NP40, 1% sodium deoxycholate, 1% sodium dodecyl sulphate) supplemented with protease inhibitors (Roche). Proteins were detected using primary and HRP-conjugated secondary antibodies using the SuperSignal West Pico kit (Pierce) visualized on a G:Box mini (Syngene). The following primary antibodies were used: KDM4A (Abcam), β-actin (Sigma), HIF-1α (BD Bioscience), H3 (CST), H3K4me3 (Active Motif), H3K9me3 (Sigma), H3K27me3 (Active Motif) and NDRG1 (CST). All bands were compared against a molecular weight ladder (NEB) and the antibody data sheet, to confirm product-specific detection. Figures presented show all detected bands.

Recombinant mouse granulocyte–macrophage colony stimulating factor (GM-CSF) was purchased from BioLegend (San Diego, CA, USA). To maintain DCs, RPMI 1640 medium, fetal bovine serum (FBS), and penicillin–streptomycin solution were used, purchased from Biowest (Nouaille, France). E. coli O111:B4 LPS used in the in vitro experiments was purchased from Invivogen (San Diego, CA, USA) and E. coli O127:B8 LPS used for the in vivo experiments was purchased from Sigma-Aldrich (St. Louis, MO, USA). Quinolone antibiotics ciprofloxacin was purchased from Sigma-Aldrich (St. Louis, MO, USA). IOX1 and JIB-04 were purchased from Selleckchem (Houston, TX, USA). An MTT Cell viability kit was purchased from Promega (Madison, WI, USA). For western blotting, Kdm4A, H3K9me3, H3K36me3 and H3 were purchased from Abcam (Cambridge, MA, USA). Protease inhibitor cocktail Luria–Bertani (LB) broth powder and LB agar powder were both purchased from Biobasic (Amherst, NY, USA) and a LAL Endotoxin Detection Kit was purchased from Lonza (Basel, Switzerland)^{30 (link),31 (link)}.