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17 protocols using anti pcna sc 56

1

Antibody Characterization for Cell Cycle

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Anti-CDT1 (A300-786A), CDT2 (A300-947A), MCM2 (A300-191A) and MCM3 (A300-192A) antibodies were purchased from Bethyl Laboratories Inc. Anti-Histone H3 antibody (ab1791) was from Abcam, and anti-Flag antibody (F1804-200UG) was from Sigma-aldrich. Anti-GAPDH (60004-1-Ig), HA (66006-2-Ig), p21 (10355-1-AP) and SET8 (14063-1-AP) antibodies were purchased from Proteintech. Anti-PCNA (sc-56) and MCM7 (sc-9966) antibodies were purchased from Santa Cruz Biotechnologies. Anti-DDB2 (PA5-79143 and PA5-63568) antibodies were from Invitrogen. Homemade polyclonal antibodies of CDT2 and CUL 1 were gifts from Dr. Hui Zhang (Department of Chemistry and Biochemistry, University of Nevada, Las Vegas, Nevada 89154, USA).
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2

Cryosectioning and Immunohistochemistry Protocol

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Bones were further fixed with 10% neutral buffered formalin 24–48 hours at room temperature and partially decalcified in 14% EDTA for 3 days with daily change of solution. The bones were then infiltrated with 30% sucrose overnight at 4 °C for cryoprotection and embedded in optimal cutting temperature (Tissue-Tek). Sections of 10-μm thickness were prepared with a Leica cryostat equipped with Cryojane (Leica, IL). The sections were kept at −20 °C until use. The antibodies used in this study are as follows: phosphor-smad (13820, Cell Signal, 1:100), rabbit anti-TK (1:100), anti-PCNA (sc-56; Santa Cruz Biotechnology Inc.; 1:100). The secondary antibodies include goat anti-rabbit Alexa Fluor 594 (ThermoFisher Scientific, 1:200). Slides were mounted with antifade mounting medium with DAPI (Vector Laboratories), and images were acquired with a confocal microscope (Nikon C-1 confocal system).
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3

Histopathological and Immunological Analysis of Tumor Tissues

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Tumor tissues were stained with H&E as per standard protocols and analyzed under a light microscope (Olympus). For all staining protocols, the tissue sections were deparaffinized, rehydrated, and washed in 1% PBS–Tween 20. For IHC, the sections were soaked into 3% hydrogen peroxide to block endogenous peroxidases, blocked with 5% goat serum, and incubated with the primary antibodies overnight at 4°C. The sections were then incubated with streptavidin-HRP for 1 hour, stained with diaminobenzidine substrate, and counterstained with hematoxylin. For IF, the slides were stained with primary antibodies overnight at 4°C, incubated with fluorescently labeled secondary antibody for 1 hour the next day, and then counterstained with DAPI for 5 min. The TUNEL assay was performed according to the manufacturer’s protocol using a TMR (red) TUNEL Cell Apoptosis or FITC TUNEL Cell Apoptosis Detection Kit (G1501-50, G1502-50; Servicebio Technology, Wuhan, China). Images were acquired by fluorescence microscopy (Olympus). The antibodies used here included anti-PCNA (sc-56; Santa Cruz, CA, USA), anti-CD4 (sc-13573; Santa Cruz), anti-CD8 (sc-18913; Santa Cruz), anti-granzyme B (sc-8022; Santa Cruz), and anti-IFN-γ (15365-1-AP; Proteintech, USA). The secondary antibodies used in IF were purchased from Thermo Fisher Scientific (A11037, A21135, and A21209).
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4

Immunohistochemical Analysis of PAR2-Induced Mammary Gland Tissue

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Tissue samples derived from PAR2 induced mammary glands were fixed with 4% formaldehyde in PBS, embedded in paraffin, and sectioned (5-μm sections). After deparaffinization and rehydration, the sections were stained with H&E or subjected to immunohistochemistry. For this, the slides were incubated 3% H2O2 prior to antigen retrieval. Antigen unmasking was carried out heating (20 min) in a microwave oven in 10mM Tris buffer containing 1mM EDTA. After blocking slides were incubated with the following primary antibodies: anti β-catenin (C-2206, Sigma-Aldrich St Louis MO, USA), anti PCNA (sc-56, Santa Cruz Biotechnology, USA dilution 1:200) anti DVL1 (sc7397, Santa Cruz Biotechnology, Dallas Texas, USA; goat polyclonal IgG) or anti CD31 (Dako, Clone JC70A, Carpinteria, CA). Color was developed using the 3,3′-diaminobenzidine (DAB) (Thermo Scientific, Walham, MA, USA) or the Zymed AEC substrate kit (Zymed Laboratories So, San-Francisco, CA, USA), followed by counter staining with Mayer's haematoxylin. Controls without addition of primary antibodies showed low or no background staining in all cases.
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5

Kidney Tissue Protein Extraction and Analysis

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Kidney tissues were lysed with radioimmunoprecipitation assay (RIPA) buffer containing 1% NP-40, 0.1% SDS, 100 μg/ml PMSF, 1% protease inhibitor cocktail, and 1% phosphatase I and II inhibitor cocktail (Sigma) in PBS on ice. The supernatants were collected after centrifugation at 13,000×g at 4°C for 15 min. Protein expression was analyzed by Western blot analysis, as previously described 40 (link). The primary antibodies used were as follows: anti-Wls (MABS87, EMD Millipore, Billerica, MA), anti-Wnt1 (ab15251), anti-Wnt3a (SAB2108434 , Sigma), anti-active β-catenin (05-665, Millipore), anti-β-catenin (#610154; BD Transduction Laboratories, San Jose, CA), anti-MMP-7 (GTX104658, GeneTex), anti-PAI-1 (sc-5297), anti-mannose receptor (Abcam), anti-arginase 1 (Abcam), anti-CD86 (R&D system), anti-TNF-α (ab1793), anti-MCP-1 (PA5-34505, Thermo Scientific), anti-Vimentin (#2586; Cell Signaling Technology), anti-PCNA (sc-56) (Santa Cruz Biotechnology, Santa Cruz, CA), anti-fibronectin (F3648), anti-α-SMA (A2547), anti-collagen I (BA0325; Boster, Wuhan, China), anti-α-tubulin (T9026) (Sigma, St. Louis, MO), and anti-actin (MAB1501; EMD Millipore, Billerica, MA).
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6

Immunohistochemical and Immunofluorescent Analysis of Rac1, Stem Cell, and Cell Cycle Markers

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Immunohistochemistry and immunofluorescence were performed as previously described (14 ). Antibodies used for immunohistochemistry were anti-Rac1 (BD 610650, BD Transduction Laboratories™), anti-phospho-Rac1 (#44-214G, Life technology), anti-phospho-JNK (#4668, Cell Signaling), anti-Sox2 (#14962, Cell Signaling), anti-PCNA (sc-56, Santa Cruz Biotechnology), and anti-cleaved caspase-3 (#9661, Cell Signaling). To quantify immunohistochemical staining, images were digitally scanned with Panoramic Flash 250 (3DHistech, Budapest, Hungary) using 20×/0.8NA objective. Stained tissues were counted in five microscopic fields. The analysis was performed in Imaris 7.6 (Bitplane). Phospho-Rac1 stain was predominantly cytosol. Phospho-Rac1 scores (0–300) were calculated by multiplying the staining intensity (0, 1, 2, or 3) by the staining extent (0%– 100%).
For immunofluorescence, antibodies used were anti-Rac1 (BD 610650, BD Transduction Laboratories™), anti-CD44 (#5640, Cell Signaling), anti-Sox2 (#3579, Cell Signaling), anti-Oct-4 (#83932, Cell Signaling), anti-Nanog (#8822, Cell Signaling), anti-c-Myc (sc-40, Santa Cruz Biotechnology), anti-N-cadherin (BD 610920, BD Transduction Laboratories™), and anti-Slug (#9585, Cell Signaling).
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7

Antibody Sources for Cellular Analyses

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The antibodies were purchased from Millipore (anti-Tet1, anti-H3K27me3, anti-H3K4me3), Abcam (anti-ssDNA, anti-Tet2), Roche (anti-HA-12CA5), Cell Signaling (anti-EZH2) Sigma-Aldrich (anti-β-actin), SantaCruz (anti-PCNA-sc56; anti-cMYC sc-764; anti-mOCT3/4 sc-5279; anti-N-MYC sc56729; anti-E2F1;anti-Stat3 sc-482; anti-hNANOG sc-33759; anti-hOCT3/4 sc-9081, anti-p16 sc-1661, anti-p21 sc-397), Bethyl (anti-mNanog) and Active Motif (anti-5mC, anti-5hmC).
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8

Antibody-based Protein Detection Assay

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Anti-PCSK9 (SC-55206), anti-GSDMD (L0815), and anti-PCNA (sc-56) were purchased from Santa Cruz Biotechnology. Anti-γH2AX (80312), anti-p-IRF3 (37829S), anti-IL-1β (12242S), and anti-p-TBK1 (38066) antibodies were purchased from Cell Signaling Technology. The anti-GAPDH (M20005) antibody was purchased from Abmart. The anti-cGAS (A8335) antibody and 488-conjugated Goat Anti-Mouse IgG (H + L) (AS037) were purchased from ABclonal. Goat anti-Mouse IgG (H + L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 546 (A11003) was purchased from Invitrogen The Hieff Trans Liposomal Transfection Reagent (40802ES02) and Dispase Ⅱ (40104E) were purchased from YEASEN (Shanghai, China). Anti-IFN-β (YT5964) was purchased from Immunoway. CD11b-PE (B253922) and Anti-F4/80-PE (123110) were purchased from Biolegend. SBC-110736 (T4524), H-151 (T5674), and C176 (T5154) were obtained from TargetMol. The Immunohistochemical (IHC) analysis kit (3,3ʹ-diaminobenzidine) was purchased from Proteintech.
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9

Immunofluorescence and Immunoblot Analysis of Skin Samples

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Immunofluorescence was performed using paraffin-embedded formalin-fixed sections (Rorke et al., 2010 (link)). Anti-loricrin (PRB-145P), anti-K14 (PRB-155P), anti-K10 (PRB-159P) and anti-Filaggrin (PRB-417P) were form Covance (Emeryville, CA). Anti-FLAG (M2) and anti-β-actin (A-5441) were from Sigma (St. Louis, MO), and anti-PCNA (sc-56) was from Santa Cruz (Dallas, TX). Anti-involucrin was prepared in our laboratory. Primary antibody binding was detected using Cy3-conjugated goat anti-rat IgG (A10522) or Alexafluor 488-conjugated goat anti-rabbit IgG (A11034) from Invitrogen (Waltham, MA).
Immunoblot extracts were prepared from flash frozen/powdered skin (epidermis + dermis) by dissolving in lysis buffer containing 0.625 M Tris-HCl, pH 7.5, 10% glycerol, 5% SDS, 5% β-mercaptoethanol. Equal amounts of protein were electrophoresed on 12% denaturing polyacrylamide gels.
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10

Mitochondrial Targeting of Lig1 Protein

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Rabbit anti-FUS (Cat# A300-302A) and anti-Lig1 (A301-136A) antibodies were procured from Bethyl Laboratories, Inc. Mouse anti-FLAG antibody (A8592) was obtained from Sigma-Aldrich, and mouse anti-Lig3 antibody (Cat# ab587) was purchased from Abcam. Mouse anti-Tom20 (SC-17764), anti-HSP60 (SC-13115) and anti-PCNA (SC-56) antibodies were procured from Santa Cruz Biotechnology. Fluorescent secondary antibodies, Alexa Fluor 488 anti-mouse (Cat# A28175), and Texas Red anti-rabbit antibody (Cat# T-2767) were obtained from Life Technologies. The antibodies were diluted at 1:1000 for western blotting, 1:500 for immunofluorescence and 1:100 for PLA.
The human Lig1 coding sequence was re-cloned into pCDNA3.1 plasmid as an N-terminal FLAG and COX8 gene mitochondrial targeting sequence containing construct (FLAG-MTS-Lig1) 53 (link).
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