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4 protocols using anti fanci

1

Protein Extraction and Western Blotting

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Cells were treated as indicated, washed with cold PBS, and lysed in ice-cold cytoskeletal (CSK) buffer (10 mM PIPES (pH 6.8), 100 mM NaCl, 300 mM sucrose, 3 mM MgCl2, 1 mM EGTA, 1 mM dithiothreitol, 0.1 mM ATP, 1 mM Na3VO4, 10 mM NaF and 0.1% Triton X-100) freshly supplemented with protease and phosphatase inhibitors (Roche). For some experiments cells were fractionated as described previously [49 ]. Protein concentrations were determined and equalized, 5x SDS-PAGE sample buffer was added to each, and they were heated to 95°C for 10 minutes. Denatured proteins were resolved by SDS-PAGE and transferred to nitrocellulose membranes. The following antibodies were utilized: anti-BACH1 (FANCJ) (Sigma, B1310), anti-FANCD2 (Santa Cruz Biotechnology, sc-20022), anti-FANCC (Santa Cruz Biotechnology, sc-18110), anti-FANCI (Bethyl, A301–254A), anti-pChk1(S317) (Cell Signaling, #2344), anti-Beta-Actin (Santa Cruz Biotechnology, sc-47778), anti-Lamin B1 (Abcam, AB16048) and anti-GAPDH (Santa Cruz Biotechnology, sc-32233). Appropriate HRP-conjugated secondary antibodies (Sigma-Aldrich) were used to detect protein bands upon exposure to film (CL-Xposure, Thermo Scientific). Films were scanned and quantitated using Image-J [50 (link)].
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2

Comprehensive Antibody Characterization

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The following primary antibodies were used in this study: anti-Flag (mouse, Sigma F1804), anti-HA [rabbit, Cell Signaling Technology (CST), 3724], anti–COUP-TFII (mouse, R&D Systems, PP-7174-00; rabbit, CST, 6434), anti-TR4 (mouse, R&D Systems, PP-0107B-00), anti-FANCD2 (rabbit, GeneTex, GTX-30142), anti-FANCA (mouse, EMD Millipore, MABC557), anti-FANCI (rabbit, Bethyl Laboratories, A301-254A), anti-MUS81 (mouse, Abcam, ab14387), anti-SLX4 (rabbit, Bethyl Laboratories, A302-270A), anti–p-ATM (Ser1981) (mouse, EMD Millipore, 05-740), anti-PCNA (mouse, Santa Cruz Biotechnology, sc-56), anti-POLD3 (rabbit, Bethyl Laboratories, A301-243A), and anti–β-actin (goat, Santa Cruz Biotechnology, sc-1616). The anti-FAN1 antibody was a gift from J. Huang (Zhejiang University, China). The horseradish peroxidase (HRP)–conjugated secondary antibodies (CST) were used for Western blot, and the fluorophore-conjugated secondary antibodies (Invitrogen) were used for indirect immunofluorescence analyses.
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3

Antibody Detection in DNA Damage Repair

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The following antibodies were used for western blotting and immunofluorescence assays: anti-FANCD2 (Santa Cruz, sc-20022 and Abcam, ab2187), anti-FANCI (Bethyl Laboratories, A300–212), anti-FANCI (38 (link)), anti-Ku86 (Santa-Cruz, sc-5280), anti-CtIP (39 (link)), anti-RAD51 (Santa Cruz sc-8349), anti-GAPDH (Genetex, GTX627408), anti-tubulin (Abcam, ab7291), anti-γ-H2AX (Bethyl Laboratories, A300–081), anti-phospho-p53 (Ser15) (Santa Cruz, sc-11764-R), anti-p21 (Santa Cruz, sc-397) and anti-PCNA (Calbiochem, PC10).
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4

Immunofluorescence Analysis of DNA Damage Proteins

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For immunofluorescence (IF) analyses, cells were seeded in four-well tissue culture slides (BD Biosciences) or on cover slips (Corning) and treated with MMC for 18 h. Cells were fixed in 4% w/v paraformaldehyde in PBS for 15 min on ice, followed by permeabilization for 5 min in 0.3% v/v Triton X-100 in PBS. Fixed cells were incubated with primary antibodies in 5% v/v goat serum, 0.1% v/v NP40, in PBS for 1 h, washed three times with PBS and then incubated with Alexafluor 488-conjugated anti-mouse or anti-rabbit secondary antibodies (Invitrogen) for 45 min. Cells were then counterstained and mounted in vectashield plus 406-diamidine-2-phenylindole dihydrochloride (DAPI) (Vector Laboratories) and visualized using a Zeiss AxioImager.A1 upright epifluorescence microscope with AxioVision LE 4.6 image acquisition software. Primary antibodies used for IF were anti-53BP1 (H300; Santa Cruz Biotechnology), anti-DNA-PKcs pS2056 (ab18192; Abcam), anti-FANCA (ABP6201; Cascade), anti-FANCD2 (NB100–182; Novus Biologicals and sc-20022; Santa Cruz Biotechnology), anti-FANCI (A300-212A; Bethyl Laboratories), anti-FANCM (Meetei and Deans CE56.1 antibodies), anti-FK2 (sc-8017; Santa Cruz Biotechnology), and anti-γH2AX (05–636; Millipore).
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