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4 protocols using nb100 304

1

Multiparameter Flow Cytometry and Cell Sorting

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The following monoclonal Abs were used for flow cytometry and cell sorting: anti-CD34 (581, BD Biosciences, 1:5), -CD38 (HIT2, BD Biosciences, 1:5), -CD45RA (HI100, BD Biosciences, 1:20), -CD90 (5E10, BD Biosciences, 1:20), -CD49f (GoH3, Biolegend, 1:5), and -CD45 (HI30, BD Biosciences, 1:20). A mixture of biotin-conjugated anti-CD2, -CD3, -CD11b, -CD14, -CD15, -CD16, -CD19, -CD56, -CD123, and -CD235a (130-092-211, Lineage Cell Depletion Kit human, Miltenyi Biotec Inc., 1:5) was used as the lineage mix. The following Abs were used for immunocytochemistry: anti-human TRF1 (TRF-78, ab10579, Abcam, 1:100), 53BP1 (NB100-304, 1:200), and RPA32 (sc-28709, 1:200).
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2

Immunofluorescence Analysis of Vascular Cells

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ECs and VSMCs were fixed with 4% paraformaldehyde and washed three times. The cells were blocked with a blocking buffer including 2% bovine serum albumin (BSA; Fisher Scientific #BP9706-100) and 0.2% Tween 20 (Sigma-Aldrich) for 1 h at room temperature, and primary antibodies were added to the cells overnight at 4°C. The following day, the cells were washed three times. The cells were incubated with secondary antibodies (anti-rabbit Alexa-488 and anti-rat Alexa-555, Thermofisher) for 1 h at room temperature and then washed with PBS. Slides were mounted with 4′,6-diamidino-2-phenylindole (DAPI). Pictures were taken by using the FluoView FV3000 confocal microscope. Primary antibodies included the following: Smoothelin (Abcam #ab204305), α-smooth muscle actin (Abcam), CD144 (Biosciences #555661), VWF (citeab #A0082), Lamin A (Invitrogen #MA1-06101), γH2A (Millipore #05-636), 53BP1 (Novus #NB100-304), histone H1 (Abcam #ab61177), and HP1α (Cell Signalling #2616s). γH2A.X and 53BP1 were reported for colocalization. Fluorescence intensity for histone H1 and HP1α were normalized with nuclei area.
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3

Prostate Tissue Immunohistochemistry for AR and PSA

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Prostate tissue immunohistochemistry staining for androgen receptor (AR) and prostate-specific antigen (PSA) has been described previously [12 (link)]. Tissue fragments were fixed overnight in 10% formalin and placed in embedding cassettes. After, dehydration in 70% ethanol, formalin-fixed tumors were processed using automated standard procedures and subsequently embedded in paraffin. Four-micrometer tissues sections obtained with Leica microtome were mounted on coated microscope slides. For immunofluorescent staining, sections were deparaffinized using xylene and hydrated with declining concentrations of ethanol. Target antigen retrieval was performed using Vector Antigen Retrieval buffer (pH 6.0), which was heated to 100 °C for 20 min. Cells were permeabilized using phosphate buffered saline (PBS) with 0.2% Triton X-100 for 20 min. Blocking was achieved using PBS with 2.5% horse and goat serum. Primary antibodies [anti-p-ATM (abcam ab36801) 1/300, anti-γ-H2AX (Millipore 3292608) 1/300, anti-53BP1 (Novus Biologicals NB100-304) 1/300, anti-p-DNA-PKcs (abcam ab18192) 1/300] were diluted in blocking buffer and incubated over night at 4 °C cold room. Secondary Fluorescein or Texas Red (1/500) antibodies were used to visualize the primary antibody. Sections were mounted using Prolong Gold antifade reagent with DAPi.
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Western Blot Analysis of DNA Damage Repair Proteins

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Cells were lysed in 2% SDS, 1% NP-40, 50 mM Tris pH 7.5, and 150 mM NaCl. Protein-lysates were equalized based on protein concentration measured using the BCA Protein Assay Reagent (Thermo Fisher Scientific). Protein samples were separated on Novex 4–12% Bis-Tris gradient gels using MOPS SDS running buffer and NuPage LDS sample buffer (all Thermo Fisher Scientific); subsequently, proteins were transferred onto Immobilon‐FL membranes (Merck Millipore). The following primary antibodies were used: Anti-PARP1 (rabbit polyclonal, Cell Signalling Technology #9542, 1:1000), anti-OBFC1 (STN1, mouse monoclonal, Santa Cruz sc-376450, 1:1000), anti-53BP1 (rabbit polyclonal, NOVUS biologicals NB100-304, 1:1000), anti-Mad2L2/REV7 (rabbit monoclonal, Abcam ab180579, 1:1000), anti-Cas9 (mouse monoclonal, 7A9‐3A3 Cell Signaling Technology, 1:1000) and anti-Tubulin (mouse monoclonal, Sigma-Aldrich, T6199 clone DM1A, 1:5000). The secondary antibodies CF680 goat anti‐rabbit IgG and CF770 goat anti‐mouse IgG (Biotium, both at 1:10.000) and the Odyssey CLx infrared imaging scanning system (LI‐COR Biosciences) were used to detect protein expression.
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