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7 protocols using parp 1 2

1

Comprehensive Antibody Immunoblotting Assay

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The following antibodies were used: beta‐actin (1:10,000, mouse), BIRC8 (mouse, Abnova # H00112401‐B01), cIAP1/2, cleaved caspase‐3‐5A1E (1:300, rabbit, Cell Signaling #9664), CUL1 (1:500, mouse, Invitrogen #32‐2400), cyclin A (1:1,000, mouse, Santa Cruz #sc‐751), cyclin B1 (1:1,000, mouse, Cell Signaling #4138), cyclin E (1:1,000, mouse, kind gift of M. Pagano), FLAG (1:1,000, rabbit, Sigma #F7425), FLAG‐M2 (1:1,000, mouse, Sigma #F3165), HA‐16B12 (1:2,000, mouse, Covance #MMS‐101P), human MCL1 (1:500, rabbit, BD Pharmingen #554103), murine MCL1 (1:1,000, rabbit, A&D Serotec AHP1249), ML‐IAP (mouse, Santa Cruz #sc‐71592), NIAP (rabbit, Abcam #ab25968), PARP1/2 (1:1,000, rabbit, Santa Cruz #sc‐7150), pHH3 (S10) (1:300, rabbit, Cell Signaling #9701), PLK1 (1:500, rabbit, Invitrogen #33‐1700), survivin (1:3,000, rabbit, R&D Systems #AF886), USP7 (rabbit, Bethyl Lab. #A300‐033A), USP9X (1:4,000, rabbit, Bethyl Laboratories #A301‐351A), USP10 (rabbit, Bethyl Lab. #A300‐900A), USP24 (Proteintech Europe, #13126‐1‐AP), USP28 (rabbit, Bethyl Lab. #A300‐898A), V5 (1:1,000, rabbit, Sigma #V8137), XIAP (1:1,000, mouse, BD Biosciences #610716), XIAP (1:1,000, rabbit, Cell Signaling #2042), and XIAP (1:1,000, R&D Systems #AF8221).
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2

Immunoblot Analysis of Cell Signaling Proteins

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The antibodies used in this study were anti-p-ATF2 (T71) (Cell Signaling Technology); p-EGFR (Y1068) (Cell Signaling Technology); p-ERK (T202/Y204) (Cell Signaling Technology); α-tubulin (Calbiochem); β-catenin (BD Biosciences and Santa Cruz Biotechnology); caspase-3 (Santa Cruz Biotechnology); EGFR (Cell Signaling Technology); ERK1 (Santa Cruz Biotechnology); PARP-1/2 (Santa Cruz Biotechnology); PCNA (Santa Cruz Biotechnology); anti-Ki67 (Abcam); anti-Pan-Ras (Millipore); anti-rabbit AlexaFluor 488 (Life Technologies). Erlotinib (Tarceva®) was purchased from Cayman. KYA1797K was described in our previous study14 (link). Cycloheximide was purchased from Sigma-Aldrich.
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3

Genetic Mouse Model Cell Lines for Ovarian Cancer Research

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The K-ras/PTEN cell line were established by us from ovarian tumors generated using a genetic mouse model.17 (link) The SKOV3ip1 and HeyA8 cell lines were provided by Dr. Gordon Mills (MD Anderson Cancer Center, Houston, TX). The IOSE 397 cell line was kindly shared by Dr. Nelly Auersperg (University of British Columbia, Canada). The IGROV1 and Ovcar-5 cell lines were purchased from American Type Culture Collection (ATCC). The Kuramochi cell line was purchased from the Japanese Collection of Research Bioresources Cell Bank. Cell lines were validated by short tandem repeat (STR) DNA fingerprinting using the AMPF’STR Identifier kit (Applied Biosystems) and compared with ATCC and University of Texas MD Anderson Cancer Center fingerprints. Metformin obtained from Sigma-Aldrich (St Louis, MO). The Cdk4, cyclin D1, AMPK, EGFR, ErbB4, PDGFRα, FABP4 and FASN antibodies were from Cell Signaling Technologies (Beverly, MA) and the cyclin D1 antibody used for immunohistochemistry was from Novus Biologicals (Littleton, CO). The LKB1 and ACC antibodies were from Millipore (Billerica, MA), PARP 1/2 was from Santa Cruz Biotechnology (Santa Cruz, CA), FASN was from ATLAS (Stockholm, Sweden), phosphorylated RON was from R&D Systems (Minneapolis, MN), and RON was from Epitomics (Burlingame, CA).
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4

Comprehensive Protein Expression Analysis

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Cells and homogenised tumour tissue were lysed, and total protein (30 μg) resolved by SDS-PAGE and transferred to PVDF membranes, which were probed with following antibodies: EpCAM, erbB2 (both from Sigma-Aldrich), caspase-9, caspase-8, cleaved caspase-3, VDAC, COX IV, SDHA (all from Cell Signaling), CD44, HSP60, actin (all from Abcam), CD133, PARP-1/2 (both from Santa Cruz), and SDHC (Novus Biologicals). ECL western blotting substrate (Thermo Scientific) and ChemiDoc™ XRS+ System (BioRad) were used to visualise and evaluate the blots.
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5

Investigating AR and PARP1/2 Recruitment

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ChIP assays were performed as described in (22 (link)) utilising AR (N-20), AR (C-19) and PARP1/2 (Santa Cruz Biotechnology) and AR (Cell Signalling) antibodies. Quantitative PCR of resultant immunoprecipitated DNA was performed using primers to cis-regulatory elements of AR target genes (see Supplementary Table S3 for sequences). For ChIP experiments investigating recruitment of AR and PARP1/2 to target genes in response to PARP blockade, CWR22Rv1-AR-EK and CWR22Rv1 cells grown in steroid-depleted media were treated with and without 1 μM talazoparib for 4 and 8 h prior to chromatin preparation. For experiments assessing impact of FL-AR and AR-V-targeting siRNAs on AR isoform chromatin enrichment, CWR22Rv1 and CWR22Rv1-AR-EK cells grown in steroid-depleted media were transiently transfected with specific AR siRNAs for 48 hours before ChIP analysis. ChIP data is presented as the mean of at least two independent experiments (±SD). Primers for quantitative cis-regulatory element enrichment is shown in Supplementary Table S5.
Immunoprecipitation was conducted as described in (27 (link)) using 5 × 106 CWR22Rv1-AR-EK or CWR22Rv1 cells incorporating either the AR 441 or AR C19 antibodies.
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6

Apoptosis Signaling Pathway Assay

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Smad7, PARP-1/2, and β-actin from Santa Cruz Biotechnology (Santa Cruz, CA), cleaved caspase-3, LC3B, ATG5, phospho-ERK and phospho-p38 from Cell Signaling Technology (Beverly, MA), and cleaved LC3B from ABGENT (San Diego, CA). All other chemicals and reagents were purchased from Sigma-Aldrich (St. Louis, MO) unless otherwise specified.
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7

Apoptosis Induction by MPT0G030

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MPT0G030 (Figure 1A) was designed and synthesized by Professor Jing-Ping Liou's Lab. (School of Pharmacy, College of Pharmacy, Taipei Medical University). RPMI-1640 medium and fetal bovine serum (FBS) were purchased from Invitrogen (Carlsbad, CA, USA). Penicillin-Streptomycin Amphotericin B Solution was obtained from Biological Industries (Beit-Haemek, Israel). Antibodies against various proteins were purchased from following sources: PKCδ and phosphor-PKCδ (Cell Signaling, Beverly, MA, USA); caspase-3 (Imgenex Corporation, San Diego, CA, USA); PARP-1/2 (Santa Cruz Biotechnology, Santa Cruz, CA, USA); actin (Millipore, Bedford, MA, USA); goat anti-rabbit IgG-HRP, goat anti-mouse IgG-HRP (Santa Cruz Biotechnology, Santa Cruz, CA, USA); goat anti-rabbit IgG-FITC (Sigma-Aldrich, St Louis, MO, USA); VECTASHIELD Mounting Medium with DAPI (Vector Laboratories, Burlingame, CA, USA); Propidium iodide, Thiazolyl Blue Tetrazolium Bromide (Sigma-Aldrich, St Louis, MO, USA).
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