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6 protocols using anti phospho atm s1981

1

Western Blot Analysis of DNA Damage Markers

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Western blot analysis was performed as previously described (Cheung et al., 2011 (link)). Primary antibodies used include anti-WRN (Sigma-Aldrich, clone 195C), anti-γH2AX (Ser139) (Millipore, clone JBW301), anti-p53 (Santa Cruz Biotech, sc-126), anti-α-actinin (Santa Cruz Biotech, sc-17829), anti-p16 (Santa Cruz Biotech, sc-468), anti-p21 (Cell Signaling, #2946), anti-phospho-ATM (S1981) (Abcam, clone EP1890Y), anti-53BP1 (Santa Cruz Biotech, sc-22760), and anti-phospho-p53 (Ser15) (Cell Signaling, #9284).
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2

Immunofluorescence Analysis of DNA Damage

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Cells were fixed for 15 min. with 4% paraformaldehyde in PBS and permeabilized with PBST solution (0.5% Triton X‐100 in PBS) for 30 min. After blocking with 5% bovine serum albumin in PBST solution for 1 hr, cells were incubated with the anti‐phospho H2AX (S139) (05‐636; Millipore, Temecula, CA, USA), anti‐53BP1 (sc22760; Santa Cruz Biotechnology), anti‐phospho ATM (S1981) (ab1888; Abcam) antibodies for overnight at 4°C respectively. Antigen was detected with the secondary antibodies conjugated to FITC (F0382; Sigma‐Aldrich) and TRITC (T5393; Sigma‐Aldrich). Cells were coverslipped using VECTASHIELD mounting media plus DAPI (H‐1200; Vector Laboratories, Burlingame, CA, USA). Images were acquired with a confocal microscope (Leica TCS SPE; Leica Microsystems GmbH, Wetzlar, Germany). Percentages of γH2AX foci positive cells were counted in five random high power fields.
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3

Western Blotting Analysis of Protein Targets

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For western blotting, 18 µg of protein was loaded onto a 4–15% sodium dodecyl-sulfate polyacrylamide gel for electrophoretic separation (Cat. No. 4,561,085, Bio-Rad, Hercules, CA, USA). The primary antibodies used in this study are as follows: anti-ATM (1:2000; Cat. No. ab32420, Abcam, Cambridge, UK); anti-phospho S1981-ATM (1:50 000; Cat. No. ab81292, Abcam); anti-HIF1α (1:1000; Cat. No. ab51608, Abcam); anti-phospho-HIF1α (1:1000; Cat. No. AF0062, Funakoshi, Tokyo, Japan); anti-Met (1:1000; Cat. No. 3127, Cell Signaling Technology Danvers, MA, USA); anti-Netin1 (1:1000; Cat. No. ab126729, Abcam); Anti-Apoptosis Sampler Kit (anti-BCL-2: 1:1000; anti-BAD: 1:1000; Cat. No. E051004, Funakoshi). Anti-β-actin antibody (1:10 000; Cat. No. 66009-1, Proteintech, Tokyo, Japan) was used as a standardized internal reference to compare the target protein expression levels. Finally, immunoreactive bands were detected using the ChemiDoc Imaging System (Bio-Rad) and analyzed using ImageJ software (NIH, Bethesda MD, USA).
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4

Quantitative Western Blot Analysis

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For SDS-PAGE/Western blot analysis, the protein lysates were prepared by lysis with Tris-HCl buffer, NP-40 (1 %), PMSF (1 mM) and inhibitor cocktail (Roche, Switzerland). Protein samples were separated by 4-20% SDS-PAGE (BioRad, Berkeley, California, USA) and transferred onto PVDF membrane. Protein detection was performed with polyclonal antibodies: anti-thymidylate synthase (Abcam, 1:200), anti-ATM (Abcam, 1:2000), anti-phospho (S1981) ATM (Abcam, 1:1000), anti-DNA Ligase IV (Abcam, 1:500), anti-PARP (Cell Signaling, 1:1000), anti-cleaved PARP (Cell Signaling, 1:1000), anti-Caspase-3 (Cell Signaling, 1:1000), anti-cleaved Caspase-3 (Cell Signaling, 1:1000). The secondary anti-rabbit IgG coupled to HRP (Cell Signaling, 1:1000) was visualized with enhanced chemiluminescence (ECL+, GE Healthcare, UK). Equal protein loading was controlled using GAPDH specific antibody (Ambion, Life Technologies, Carlsbad, California, USA) and secondary goat anti-mouse IgG linked to HRP (Abcam). The experiments were carried out three times in triplicates.
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5

Immunoblotting of DNA Repair Proteins

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Immunoblotting was performed as previously described (24 (link)). The following antibodies were used in this study: anti-DNA-PKcs phospho-T4102 (made in this study as described above), anti-DNA-PKcs phospho-S2056 (Abcam, ab124918), anti-ATM phospho-S1981 (Abcam, ab81292), anti-CHK2 phospho-T68 (Cell Signaling, 2197), anti-LIG4 (Cell Signaling, 14649), anti-Ku80 (Santa Cruz, sc-17789), anti-Ku70 (Santa Cruz, sc-515736), anti-XRCC4 (Santa Cruz, sc-271087), anti-XLF (Santa Cruz, sc-166488), anti-GFP (Santa Cruz, sc-8334), anti-KAP1 (Bethyl Laboratories A300-274A), anti-KAP1 phospho-S824 (Bethyl Laboratories, A300-767A), anti-tubulin (Sigma-Aldrich, T5168), anti-FLAG M2 (Sigma-Aldrich, F1804), anti-phospho-H2AX (S139) (EMD Millipore, 05-636), and anti-Histone H3 antibody (Biolegend, 819411). Mouse monoclonal antibodies against DNA-PKcs (Clone # 25-4) were produced in house. Secondary antibodies used include anti-mouse IgG (HRP-linked) (Cell Signaling, 7076) and anti-rabbit IgG (HRP-linked) (Cell Signaling, 7074). Image J (Version 1.53e) was used to quantify the intensities of protein bands in the immunoblots.
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6

DNA Damage Response Protein Analysis

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The antibodies used in this study were: mouse and rabbit anti-NFBD1 (Abcam, London, UK); anti-ATM (phospho S1981) (Abcam); anti-DNA PKcs (phospho T2609) (Abcam); anti-phospho-H2AX (Ser139) (Cell Signaling Technology, Danvers, MA, USA); anti-phospho-histone H3 (Ser10) (Cell Signalling Technology); rabbit anti-Rad51 (Santa Cruz Biotechnology, Dallas, TX, USA). Total protein extracts from cells were prepared using RIPA buffer (Beyotime Institute of Biotechnology, Nantong, China). Protein concentrations were determined using the BCA protein assay systems (Beyotime Institute of Biotechnology, Nantong, China). Proteins were fractionated in SDS–polyacrylamide gels. Proteins were transferred to polyvinylidene fluoride (Millipore, Billerica, MA, USA), and western blotting were performed by using the appropriate antibody. Antibody/antigen complexes were detected using ECL (Western Bright Sirius; Advansta, Inc., Menlo Park, CA, USA) and images were acquired using an enhanced chemifluorescence detection system (Amersham Biosciences, Piscataway, NJ, USA) under the room temperature.
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