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4 protocols using asf1a

1

Chromatin Dynamics in DNA Damage Response

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Antibodies used in this study are 53BP1 (catalog no.: NB100-304; Novus Biologicals), RIF1 (catalog no.: 95558S; Cell Signaling Technology), BRCA1 (catalog no.: sc-6954; Santa Cruz Biotechnology), ASF1A (catalog no.: 2990S; Cell Signaling Technology), ASF1B (catalog no.: 2902S; Cell Signaling Technology), Vinculin (catalog no.: V9131; MilliporeSigma), FLAG (catalog no.: F3165; MilliporeSigma), β-tubulin (catalog no.: T5168; MilliporeSigma), RAD51 (catalog no.: ab63801; Abcam), γH2AX (catalog no.: 05-636l; MilliporeSigma), and RPA2 (catalog no.: 2208S; Cell Signaling Technology).
siRNAs used in this study are control siRNA (catalog no.: 1022076; Qiagen), BRCA1 siRNA (catalog no.: SI02664361; Qiagen), ASF1A siRNA (catalog no.: SI04270182; Qiagen), ASF1B siRNA (catalog no.: SI04278414; Qiagen), ON-TARGETplus Human ASF1A siRNA (catalog no.: L-020222-02-0005; Dharmacon), and ON-TARGETplus Human ASF1B siRNA (catalog no.: L-020553-00-0005; Dharmacon). sgRNAs used in this study for knockdown experiments were ligated to LentiCRISPR V2 (catalog no.: 52961; Addgene) vector. sgRNA sequences are RIF1 sgRNA: GCAGACATTTCCCTCTGAAG; ASF1A sgRNA: CTAATTACTTGTACCTATCG; and ASF1B sgRNA: CTCCTGTCCATGGTAGGTGC.
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2

Immunoblotting Analysis of Cell Signaling Proteins

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Proteins were extracted from cells with RIPA Lysis Buffer (Thermo Fisher Scientific). Samples were run on SDS-PAGE and transferred to the PVDF membrane (Bio-Rad, Hercules, California). The membrane was blocked with 5% non-fat milk for 2 h at room temperature. Primary antibodies of ASF1A (Cell Signaling Technology, Danvers, MA, Cat# 2990), β-actin (Santa Cruz Biotechnology, Santa Cruz, CA, Cat# sc-1615), ZEB1 (Novus Biologicals, USA), β-catenin (Cell Signaling Technology, Cat# 8480), E-cadherin (Cell Signaling Technology, Cat# 3195 s), c-Myc (Santa Cruz Biotechnology, Cat# sc-789) and cyclin D1 (Cell Signaling Technology, Cat# 92G2) were incubated with the membrane at 4 °C overnight. Secondary antibodies were incubated for 1 h at room temperature. Antibody binding was detected using chemiluminescence method (Thermo Fisher Scientific).
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3

Immunohistochemical Analysis of Key Regulators

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Paraffin-embedded slides were deparaffinized and rehydrated, followed by antigen retrieval using citric acid buffer. Endogenous peroxidase was deactivated with hydrogen peroxide. Slides were blocked using 10% goat serum and then incubated with the corresponding primary antibodies overnight at 4 °C. After incubation with secondary antibodies for 30 min at room temperature, 3,3’-diaminobenzidine (DAB) staining (Thermo Fisher Scientific) was used to detect antigen-antibody binding. The primary antibodies used were as follows: ASF1A (1:100, Cell Signaling Technology, Cat#2990), c-Myc (1:50, Abcam, Cat#ab56), and HES1 (1:50, Cell Signaling Technology, Cat#11988).
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4

Immunohistochemical Analysis of ASF1A

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Paraffin embedded slides were deparaffinized and rehydrated followed by antigen-retrieval using citric acid buffer. Endogenous peroxidase was deactivated by H2O2. Slides were blocked using 10% goat serum and incubated with the corresponding primary antibodies overnight at 4 °C. After incubation with secondary antibodies for 45 mins at room temperature, DAB staining (Thermo Fisher Scientific) was used to detect the antigen-antibody binding. The primary antibodies used were: ASF1A (Cell Signaling Technology, Cat# 2990), PCNA (Santa Cruz Biotechnology, Cat# sc-7907), and E-cadherin (Cell Signaling Technology, Cat# 3195s). The slides were examined by two of the co-authors (XL and DX) and mean values of ASF1A positive cells were presented based on the results from two observers. For each slide, a total of 200 cells in two fields were analyzed.
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