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8 protocols using anti histone h1

1

Antibody Characterization for Cell Signaling

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Anti-ALK, anti-phospho-Akt at serine (Ser) 473 (pAkt), anti-Akt, anti-Slug, anti-Snail, and anti-cleaved caspase 3 antibodies were purchased from Cell Signaling (Danvers, MA, USA). Anti-Sox11 and anti-β-actin antibodies and doxorubicin were obtained from Sigma-Aldrich Chemicals (St. Louis, MO, USA). Anti-N-myc, anti-Twist1, and anti-Histone H1 antibodies were from Abcam (Cambridge, MA, USA). Anti-NF-κB/p65, anti-p27kip1, and anti-bax antibodies were from BD Biosciences (San Jose, CA, USA). Anti-bcl-2 and anti-p21waf1 antibodies were from Dako (Glostrup, Denmark). Anti-cyclin A antibody was from Novocastra (Newcastle, UK). Recombinant human tumor necrosis factor (TNF)-α, transforming growth factor (TGF)-β1, and hepatocyte growth factor (HGF) were purchased from R&D Systems (Minneapolis, MN, USA).
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2

PKCβII Mitochondrial Kinase Activity Assay

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Pure mitochondria (100 µg) from the CA2-4, DG region of control and ischemic gerbils (I/R 1 h and I/R 96 h) were incubated in lysis buffer (20 mM Tris HCl pH 7.5, 1% Triton, 0.5% NP-40, 0.1 mM CaCl2, 1 mM PMSF, phosphatase and protease inhibitor cocktail (Sigma)) for 30 min at 4 °C and centrifuged (12,000g, 15 min, 4 °C). The supernatants were incubated (2 h, RT) with anti-PKCβII antibody (Abcam) attached to magnetic Dynabeads Protein G (Novex, Life Technologies) to achieve purification of endogenous PKCβII from the mitochondrial fraction. After extensive washing, the beads conjugated to PKCβII were incubated with 200 µM ATP (Cell Signaling) and 0.1 mg/ml Histone H1 (Millipore) for 30 min at 37 °C. The reaction mixture was then transferred to another tube and boiled in 5× SDS protein sample buffer (5 min, 100 °C). Samples were separated by SDS-PAGE and analyzed with anti-phospho-Histone H1 (Upstate) and anti-Histone H1 (Abcam) antibodies.
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3

Quantification of Subcellular Protein Markers

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Protein samples (40–60 µg; extracted as described in the Separation of cytosolic, mitochondrial and nuclear fractions subsection) were separated by 10% SDS-PAGE and transferred to polyvinylidene difluoride membranes, which were incubated at 4°C for 12 h with the following primary antibodies: Polyclonal anti-BNIP3 (cat. no. ab10433; dilution, 1:300; Abcam, Cambridge, MA, USA), monoclonal anti-AIF (cat. no. ab32516; 1:500; Abcam), anti-cytochrome c oxidase IV (cat. no. ab14744; Cox IV; 1:10,000; Abcam), anti-histone H1 (cat. no. ab203337; 1:500; Abcam), and anti-β-actin (cat. no. A1978; 1:2,000; Sigma-Aldrich; Merck KGaA, Darmstadt, Germany). Subsequently, the membranes were incubated with a horseradish peroxidase-conjugated goat anti-rabbit immunoglobulin G secondary antibody (cat. no. ab150028; 1:10,000; Abcam) at 37°C for 2 h. Immunoblotting was detected using an enhanced chemiluminescence kit (Beyotime Institute of Biotechnology, Haimen, China) and images were captured using a FluorChem 8900 imager (Beyotime Institute of Biotechnology). Western blots were semi-quantified using ImageJ v4.02 software (National Institutes of Health, Bethesda, MD, USA).
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4

Protein Extraction and Western Blot Analysis

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The total protein was extracted from 1 × 106 Cos-7 cells. BCA kit was used for protein quantification. 15 μg protein was loaded and run in SDS-PAGE gel. The bands were blocked with 5% skim milk for 1 h at RT. Next the membranes were incubated with the primary antibody diluted in 3% BSA overnight at 4°C. These bands were washed in TBST and incubated with the secondary antibodies for 1 h at RT. Finally, all protein bands were then washed and imaged by chemiluminescence. Grey analysis of bands for agarose gel and western blot were performed by image Lab software. The intensity value was normalized by GAPDH. The primary antibodies were listed as follows: p35/P25: Lot: 2680S, clone number: C64B10, CST; CDK5: Lot: 14145, clone number: D1F7M; CST; Anti-NGF: Lot: ab52918, clone number: EP1320Y, abcam; Anti-Histone H1; #ab4270. The secondary antibodies were listed as follows: Goat anti-mouse IgG secondary antibody: Lot: 3012, Signalway Antibody; Goat anti-Rabbit IgG Secondary Antibody HRP conjugated, Lot: L3012, Signalway Antibody.
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5

Western Blot Analysis of Cell Extracts

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Cytoplasmic and Nnuclear extracts were obtained using the NE-PER Nuclear and Cytoplasmic Extraction Reagents (Pierce Biotechnology, USA) following with the manufacturer's instructions. Total cell lysates were prepared with a detergent lysis buffer. Western blots were carried out as previously reported [36 (link), 37 (link)]. The rabbit anti-ING4 (1:2000, Abcam, USA), anti-MMP-2 (1:1000, Cell Signaling Technology, USA), anti-MMP-9 (1:1000, Cell Signaling Technology, USA), anti-VEGF (1:1000, Abcam, USA), anti-COX-2 (1:5000, Abcam, USA), anti-Sp1 (1:5000, Abcam, USA), anti-histone H3 (1:2000, Abcam, USA), anti-ubiquitin (1:1000, Abcam, USA), anti-cyclinA (1:1000, Cell Signaling Technology, USA), anti-cyclinE (1:1000, Cell Signaling Technology, USA), anti-CDK2 (1:2000, Abcam, USA), anti-p21 (1:1000, Cell Signaling Technology, USA), anti-p27 (1:1000, Cell Signaling Technology, USA), anti-histone H1 (1:2000, Abcam, USA) and anti-p53 (1:1000, Santa Cruz Biotechnology, USA) were used for primary antibody incubation at 4°C overnight. The mouse anti-α-tubulin (1:1000, beyotime institute of biotechnology, China) was used for the protein loading control. Each blot was repeated at least three times. The intensity of the protein bands were analyzed by densitometry after normalization to the corresponding protein controls.
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6

Quantitative Analysis of NET Proteins

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NETs from PMA-stimulated HC and BD neutrophils with equal DNA quantity were digested with 20 U/ml DNaseI (Sigma, USA) for 30 min at 37°C and stopped with 5 mM EDTA. Proteins were precipitated with cold acetone at −20°C overnight and pelleted at 14,000×g for 10 min at 4°C. The pellets were resuspended in lysis buffer containing 1% Triton X-100, 150 mM NaCl, 20 mM HEPES and protease inhibitors (Beyotime, China). Proteins were loaded with SDS loading buffer, denatured at 95°C for 5 min, and stored at −80°C. NETs proteins were loaded onto 4%–20% polyacrylamide gels, and the gels were transferred to PVDF membranes for 1 h at 200 mA. Membranes were blocked with QuickBlock blocking buffer (Beyotime, China) and were incubated with anti-Histone H1, anti-Histone H2A, anti-Histone H2B, anti-Histone H3, anti-Histone H4, anti-NE, anti-S100A8 (rabbit, Abcam, UK) antibody at 4°C overnight. HRP-conjugated goat anti-rabbit antibodies (Abcam, UK) were incubated for 1 h. Blots were developed with chemiluminescence and detected by Tanon 5200 (China). Protein levels were quantified by Image J software and measured with absolute optical density values, given no reference control protein available.
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7

Cell Culture and Antibody Validation

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HeLa S3 and HEK293 cells were grown in Dulbecco's modified essential medium supplemented with 10% fetal calf serum. Antibodies used in this study are as follows: Anti-STAT1α/β (sc-346; Santa Cruz Biotechnology), anti-STAT2 (sc-476; Santa Cruz Biotechnology), anti-IRF9 (sc-10793; Santa Cruz Biotechnology), anti-phospho-(Tyr701) STAT1 (#9171; Cell Signaling Technology), anti-phospho-(Tyr689) STAT2 (#07-224; Upstate Biotechnology), anti-phospho-(Ser727) STAT1 (#06-802; Upstate Biotechnology), anti-Pol II (sc-899; Santa Cruz Biotechnology), anti-β-Actin (A5441; SIGMA), anti-Histone H3 (ab1791; Abcam), anti-acetyl-Histone H3 (06-599; Millipore), anti-Histone H1.2 (ab4086; Abcam), anti-Flag (F3165; SIGMA) and anti-TAF-Iα/β (monoclonal antibody KM1725) (34 (link)) antibodies.
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8

Western Blotting of Histone, FLAG, and Actin

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Cells were lysed by sonication in ice-cold RIPA buffer containing 1x Protease Inhibitor Cocktail (Roche). Proteins were then separated by SDS-PAGE and transferred to 0.2 µm PVDF membranes (Bio-Rad). Membranes were blocked with Superblock T20 (TBS) blocking buffer (Thermo Fisher Scientific) and probed with primary [anti-Histone H1.2 (Abcam, ab181977, 1:2000 dilution); anti-FLAG M2 (Sigma, F1804, 1:1500 dilution), or anti-beta-actin (Sigma, A2228, 1:5000 dilution)] and secondary [(polyclonal goat anti-rabbit (Dako, P0448, 1:10,000 dilution) or polyclonal goat anti-mouse (Dako, P0447, 1:10,000 dilution)] antibodies or HRP-conjugated p53 antibody (DO1 – sc126, Santa Cruz Biotechnology, 1:1000 dilution). Reactive bands were visualized with Immobilon western chemiluminescent HRP substrate (Millipore) in a luminescence imager (LAS4000, Fujifilm).
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