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6 protocols using anti h3k14ac

1

Antibody Characterization for Cell Analysis

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The antibodies used in this study included: anti-BRD9 (Active Motif, Carlsbad, CA, USA, #61537), anti-TUFT1 (Abcam, Cambridge, MA, USA, ab184949), anti-E-cadherin (Cell Signaling Technology, Beverly, MA, USA, #3195), anti-N-cadherin (Cell Signaling Technology, #14215), anti-vimentin (Cell Signaling Technology, #5741), anti-H3K27Ac (Abcam, ab4729), anti-H3K14Ac (Abcam, ab52946), anti-H3K9Ac (Abcam, ab4441), anti-P300 (Abcam, ab10485), anti-AKT (Cell Signaling Technology, #4691), anti-phospho-AKT (Ser-473, Cell Signaling Technology, #4060), anti-MYC (Cell Signaling Technology, #9402), and anti-GAPDH (Santa Cruz Biotechnology, Dallas, TX, USA, sc-47724).
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2

Antibodies for ChIP-exo Experiments

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The following antibodies were used in ChIP-exo: anti H3K120ub (Cell Signaling 5546S), anti-H2B (Abcam 1790), nonspecific IgG (Sigma i5006), anti-TBP (Abcam 61411), anti-Pol II (Santa Cruz Biotechnology 8WG16), anti-H3 (Abcam 1791), anti-H3K9ac (Millipore Sigma 07-352), and anti-H3K14ac (Abcam ab52946). Sera against Hsf1, Taf1, and SAGA subunits (Gcn5, Sgf73, and Spt3) were obtained from David Gross (Louisiana State University), Joe Reese (Pennsylvania State University), and Tony Weil (Vanderbilt School of Medicine), respectively.
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3

Histone Posttranslational Modifications Analysis

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Histones were acid extracted from 10T1/2 and CCD-1070Sk cells, resolved by 15% SDS–PAGE, and stained immunochemically with anti-H3 (Abcam), anti-H3S10ph (Santa Cruz Biotechnology,), anti-H3S28ph (Sigma-Aldrich), anti-H3K27ac (Millipore), anti-H3K9ac (Abcam), anti-H3K14ac (Abcam), or H3K4me1 (Abcam) antibodies (Chadee et al., 1999 (link)). The specificity of the antibodies was verified by immunoblot using 2–3 µg of synthetic peptides derived from human histone H3.1 and carrying the following PTMs: H3S10ph (Abcam), H3S28ph (Abcam), H3K27ac (Abcam), H3K9ac (Abcam), H3K9ac/S10ph (Abcam), or H3K27ac/S28ph (EpiCypher, Research Triangle Park, NC). Three biological repeats were performed.
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4

ChIP Assay for Histone Modifications

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An EZ-Magna ChIP™ kit (cat. no. 17-371; Sigma-Aldrich; Merck KGaA) was used for ChIP. Chromatin was immunoprecipitated for 24 h at 4°C using anti-HDAC2 (cat. no. ab124974; 1 µg; Abcam), anti-H3K14ac (cat. no. ab203952; 1 µg; Abcam) and anti-c-Myc (cat. no. 18583S; 1 µg; Cell Signaling Technology, Inc.) antibody. Rabbit IgG immunoprecipitation was used as a negative control. 1/100 of total cell lysate was used as an internal control. qPCR was used to analyze precipitated DNA using specific primers (Table II) and it was performed as described above. The signals were calculated as the percentage of input.
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5

ZMYND8, NRF2, and H3K14ac ChIP-seq

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Cells were cross-linked with 1% formaldehyde and quenched in 125 mM glycine. Chromatin was isolated using a SimpleChIP enzymatic chromatin IP kit (Cell Signaling Technology), sonicated to 200 to 300 bp in length, and subjected to IP with anti-ZMYND8 (Bethyl Laboratories, no. A302-089A, RRID: 1604282), anti-NRF2 (Cell Signaling Technology, no. 12721, RRID: 2715528), or anti-H3K14ac (Abcam, no. ab52946, RRID: 880442) antibody. ChIP DNA libraries were prepared with the NEBNext Ultra II DNA library prep kit for Illumina and sequenced on the Illumina NextSeq 2K. Bioinformatics were performed as described previously (16 (link)).
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6

Chromatin Modification Analysis in Cell Lines

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HCT116, HeLa, HEK293T, A549, H1299, Calu3 and MDA-MB-231 cells were cultured in McCoy’s 5A medium or DMEM supplemented with 10% fetal bovine serum (FBS) and 1% penicillin/streptomycin in a 37°C incubator with a 5% CO2 and humidified atmosphere. The antibodies used in this study include: anti-H1 and anti-pan-H3-ac from Active Motif; anti-H1.4, anti-β-actin and anti-Biotin from Santa Cruz; anti-H1K85ac and anti-H1K63ac from PTM Biolabs; anti-H3K14ac, anti-H3K9ac, anti-H4K16ac, anti-histone H3, anti-histone H4 from Abcam; anti-PCAF, anti-phospho-H2AX (S139), anti-H2A, anti-HP1α, anti-SMC1, anti-SUV39H1, anti-pan-acetyl-lysine, anti-HDAC1, anti-HDAC2, anti-HDAC3 and anti-HDAC8 from Cell Signaling; anti-HP1β and anti-HP1γ from GeneTex; anti-FLAG from Sigma; anti-GST from APPLYGEN; anti-GFP from MBL. Adriamycin, etoposide, camptothecin (CPT), isopropy-β-D-thiogalactoside (IPTG), trichostatin A and nicotinamide were purchased from Sigma; anacardic acid was purchased from Selleck.
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