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6 protocols using anti histone h2a

1

Antibody Validation and Co-Immunoprecipitation

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The following commercially available antibodies were used at the indicated concentrations for western blot: anti–β-actin (Sigma, A5441, 1:1,000), anti-WDR77 (Bethyl, A301–562A, 1:1,000), anti-PRMT5 (Bethyl, A300–850A, 1:1,000), anti-ZNF326 (Bethyl, A301–880A, 1:1,000), anti-HNRNPH1 (Bethyl, A300–511A, 1:1,000) Anti-dimethyl-Arginine, symmetric (SYM10) (Millipore, 07–412, 1:1000), Anti-Histone H3 antibody (Abcam, ab1791, 1:1000), Anti-Histone H4 (symmetric di methyl R3) (ab5823, 1:1000), Anti-Histone H2A (symmetric di methyl R3) antibody (Abcam,ab22397, 1:1000).
The following antibodies were used for co-immunoprecipitation: Rabbit Control IgG (Abcam, ab46540), anti-PRMT5 (Bethyl, A300–849A). For ZNF326 and WDR77 the same antibodies were used for western blot and immunoprecipitation.
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2

Comprehensive Antibody Validation Protocol

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All antibodies were used at a dilution of 1:1,000. Actin (clone AC-74), SAFA/hnRNPU (sc32315), NF-YA (sc-10779), normal rabbit (sc-2027) and mouse IgG (sc-2025), HA (sc-57592), H3K9-trimethyl (#9754), H3K4-trimethyl (#9751), H3K27-trimethyl (#9733), H3K36-trimethyl (#4909), H3K79-trimethyl (#4260), H3K56-acetyl (#4243), H3K9-acetyl (#9649), H4K5-acetyl (#9672), H3K18-acetyl (#9675), H3K27-acetyl (#4325), SUZ12 (#3737), Ezh2 (#5246), Ring1A (#2820), RING1B (#5694), Bmi1 (#6964), H2AubK119 (#8284), phospho-specific Rb (#9969) from Cell Signalling; H3K27-trimethyl (#07-449), H3K4-acetyl (#07-328), H3K9-acetyl (#07-352) all from Millipore, H3K27-acetyl (ab4729), H4K8-acetyl (ab15823), Anti-Histone H2A (ab18975) from Abcam; LB1 (Ab-1, Calbiochem), beta-Tubulin (CP-06, Calbiochem), rabbit polyclonal Ki67 (Vectorlabs), CDKN1A (sc-397 and -469), CDKN1A (OP-76, OP-68, Calbiochem), Flag (Sigma, F3165), HP1α (2HP- 2G9-AS, Euromedex). All fluorochrome-tagged secondary antibodies were from Molecular Probes.
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3

ChIP-qPCR Analysis of Histone Modifications

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Wild-type and Jil-1P01579 files were cultured on standard cornmeal-molasses-agar media at 25°C, unless otherwise indicated. The third-instar larvae were collected for ChIP and treated as described previously (Kotova et al, 2011 (link)). ChIP experiments were performed using polyclonal anti-histone H2A (Abcam), anti-GFP (Rabbit, Torrey Pines Biolabs, #TP401, 1:1000), anti-H2Av (Madigan et al, 2002 (link)), anti-Phospho-Ser137-H2Av (Madigan et al, 2002 (link)), anti-Phospho-Ser10-H3 (Upstate and Cell Signaling), anti-PARP-1 (Kotova et al, 2011 (link)) and anti-rabbit IgG (Abcam) as negative control. Quantitative real-time PCR (qPCR) was used to determine the enrichment of immunoprecipitated material relative to the input material using primers specific to sequences at the hsp70 locus. Detailed sequence information about the primers used for ChIP-qPCR is described (Kotova et al, 2010 (link)).
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4

Comprehensive Antibody Characterization Methods

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All the antibodies used in the study were purchased commercially, including Anti-Flag tag (Sigma, catalog F7425), anti-Myc (HuaBio, catalog EM31105), anti-BAP1 (Santa Cruz Biotechnology, catalog sc-28383 for IP and WB; GST, catalog 78105 for ChIP), anti-ASXL1 (Abcam, catalog ab228009; Abcam, catalog ab221455), anti-FOXK1 (Abcam, catalog ab18196), anti-FOXK2 (Abcam, ab5298), anti-HCF-1 (GST, catalog 50708), anti-H2AK119 mono-ubiquitination (Abcam, catalog ab193203), anti-H3K27me3 (Abcam, catalog ab6002), anti-Histone H2A (Abcam, catalog ab18255), anti-Histone H3 (CST, catalog 9715), anti-TXNIP (Abcam, catalog ab188865), anti-HIF-1α (Abcam, catalog ab216842), anti-STAT3 (CST, catalog 12640), anti-p-STAT3 (CST, catalog 9145), anti-JAK2 (Abcam, catalog ab108596), anti-p-JAK2 (Abcam, catalog ab32101), anti-GAL4 (Santa Cruz Biotechnology, catalog sc-510), anti-ACTIN (Genscript, catalog A00702).
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5

Antibody Validation for Western Blotting

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The following primary antibodies were used for Western blotting: anti-GFP (Roche Applied Science, monoclonal and in-house polyclonal antibody raised against GFP(2–238)); anti-ubiquitin FK2 (Enzo) and anti-HA tag (Cell Signaling and Bethyl Laboratories); anti-His tag (Cell Signaling); anti-DCNL1 clone 3D7 (Sigma); anti-β-actin (Cell Signaling); anti-CUL1 (Invitrogen); anti-CUL2 (Invitrogen); anti-CUL4B (Sigma); anti-Elongin-C (BioLegend); anti-RBX1 (ThermoFisher Scientific); anti-CAND1, anti-IκBα, and anti-phospho(S536)–p65 (Cell Signaling); anti-CSN5 (Abcam); anti-Hif1α (R&D Systems); anti-RBX2 (Abcam); anti-CSN3 (Bethyl Lab); anti-CSN7B (Epitomics); anti-CSN8 (Abcam); and anti-histone H2A (Abcam). Polyclonal antibodies against CUL3, CUL4A, CUL5, HHARI, and TRIAD1 have been described previously (28 (link)).
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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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