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4 protocols using h3k79me1

1

Antibody Characterization and Validation

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Antibodies were purchased from the following companies: anti-H3K27me1, H3K27me3, H3K79me1, H3K79me2, histone H3, SETD2, and tubulin from Abcam; anti-hnRNP A2/B1 from Acris; anti-SRPK1 and SRPK2 from BD Biosciences; anti-AKT, H3K27me2, PP1, phospho-PP1 at Thr320, phospho-AKT at Ser473, and cleaved-CASPASE-3 from Cell Signaling Technology; anti-H3K4me1, H3K4me2, H3K4me3, and H3K36me3 from Millipore; anti-pro CASPASE-3 from GeneTex; anti-hnRNP C1/C2, BAX, BCL-2, and PARP from Santa Cruz Biotechnology; anti-hnRNP A1, SRSF6, and TRA2B from Sigma; and anti-SRSF1 and SRSF3 from Zymed.
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2

Protein Extraction and Western Blotting

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Harvested cells were incubated in RIPA buffer (50 mM Tris–HCl [pH 8.0], 150 mM NaCl, 0.1% SDS, 0.5% SDC, 1% NP-40, 1× PIC and 1 mM EDTA [pH 8.0]) with gentle agitation at 4°C for 1 h. Cell lysates were clarified by centrifugation at 18 000 g for 15 min at 4°C. After SDS-PAGE, western blotting was performed using the following antibodies: SET/TAF-Iβ (sc-133138, 1:1000), MIB1 (sc-393551, 1:1000), p21 (sc-397, 1:1000), GFP (sc-9996, 1:1000), CBX8 (sc-374332, 1:1000) and β-actin (sc-47778, 1:1000) from Santa Cruz Biotechnology (Dallas, TX, USA); H2AK119ub (8240S, 1:5000), H3K4me3 (9751S, 1:5000) and H3K27me3 (9733S, 1:5000) from Cell Signaling Technology (Danvers, MA, USA); FLAG (F3165, 1:10 000) from Sigma-Aldrich; H3K36me1 (07-548, 1:5000), H3K36me3 (07-549, 1:5000), H3K4me2 (07-030, 1:5000), H3K9me2 (07-441, 1:5000), H3K9me3 (17–625, 1:5000), H2BK120ub (17-650, 1:5000), HA (05-904, 1:5000) and H3 (05-499, 1:5000) from Merck (Rahway, NJ, USA); RAD51 (GTX70230, 1:2500) from GeneTex (Irvine, CA, USA); H3K79me1 (ab2886, 1:5000), H3K79me2 (ab3594, 1:5000), H3K79me3 (ab2621, 1:5000) and H3K36me2 (ab9049, 1:5000) from Abcam (Cambridge, UK). β-actin (ACTIN) and histone H3 were used as loading controls.
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3

Antibody Epitope Specificity Evaluation

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Antibody epitope specificities were evaluated by immunofluorescent peptide competition assays and dot blot assays as detailed previously (McManus and Hendzel 2005a (link)). Briefly, the H2Bub1, H3K4me2, and H3K79me2 antibodies were preincubated with a 10-fold molar excess with specific or nonspecific peptides at 4° for 16 hr, and indirect immunofluorescent imaging was performed as described below. Dot blot assays were performed by dispensing 20 ng of each peptide (control or experimental) onto a 0.2-μm PVDF membrane. Peptide aliquots were allowed to dry and antibody specificity was determined using a standard Western blot approach (McManus and Hendzel 2005a (link)). The H2Bub1 peptide was custom synthesized by Biomatik (Cambridge, ON, Canada), while the remaining peptides were purchased from Abcam: H2B (ab5489), H3 (ab7228), H3K4me1 (ab8895), H3K4me2 (ab7766), H3K4me3 (ab8580), H3K79me1 (ab4555), H3K79me2 (ab4556), and H3K79me3 (ab4557).
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4

Quantitative Western Blotting Analysis

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Western blotting was performed, as previously described [26, 33] . MEL cells were collected after washing with ice-cold PBS, and then lysed in RIPA lysis buffer (Solarbio, Beijing, China) containing the protease inhibitor cocktail (Roche, Switzerland). An equal amount of protein for each lysate was subjected to 10% sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) (Bio-Rad, USA), and then transferred to nitrocellulose membranes. Antibodies were against mouse-GAPDH (1:1000, Zhong Shan Jin Qiao, China), MLL (1:500, Santa Cruz Biotechnology, USA), DOT-1L (1:1000, Abcam, USA), H3K4me3 (1:1000, Abcam, USA), H3K79me1 (1:500, Abcam, USA), RNA polymerase II (1:1000, Sigma, USA) and Histone H3 and H4 (1:200, Bioss, China). SDS-PAGE followed by coomassie blue staining was used to quantify the mass of globin concentration, as described [1,5e7] . Quantification was performed with the software Image J.
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