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21 protocols using ezh2 antibody

1

ChIP Assays for Epigenetic Modifications

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The ChIP assays were performed according to the Protocol for the fast chromatin immunoprecipitation (ChIP) method [42 (link)]. EZH2 antibody was purchased from Abcam. H3 trimethyl Lys 27 antibody was from Millipore. Gene specific primers for LIMK2b are listed in Additional file 5: Table S5. Results were normalized using the internal control IgG. Precipitated chromatin DNA was recovered and analyzed by qPCR.
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2

RNA Immunoprecipitation using EZH2 Antibody

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The Magna RIP RNA‐Binding Protein Immunoprecipitation Kit (Millipore) was used to conduct RNA immunoprecipitation (RIP) assays in accordance with the manufacturer's protocol. The EZH2 antibody for this experiment was purchased from Abcam.
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3

EZH2 Expression in PAR4-RKO Tumor Tissue

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Paraffin-embedded slides derived from PAR4-RKO tumor tissue compared with small tumor tissue derived from parental RKO cells were used for IHC. After deparaffinization and rehydration, the slides were incubated with 3% H2O2 prior to antigen retrieval. Antigen unmasking was carried out by heating (20 min) in a microwave oven with 1× antigen retrieval citrate buffer (Cat# ab93678, Abcam). After blocking with CAS-Block (Cat# 008120, Invitrogen, MA, USA), the slides were incubated with EZH2 antibody (Cat# ab191080; Abcam, Cambridge, UK). Next, following washing, the slides were incubated with peroxidase-conjugated antibody (Abcam, Cambridge, UK). Color was developed using the DAB substrate kit (Cat# 34002, Thermo Scientific, Waltham, MA, USA), followed by counter staining with Mayer’s hematoxylin (Cat# 3801582E, Leica, Wetzlar, Germany). Controls using only secondary antibodies (with no primary antibodies) showed low to background staining in all cases.
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4

Western Blot Analysis of EZH2 Protein

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Transfected cells were harvested 48 h after transfection. Then the protein was extracted and electrophoresed. 10% SDS-PAGE was used to segregate the protein, then incubated together with specific antibodies, and lastly densitometry (Bio-Rad) was used to quantify the electrophoretic bands. The EZH2 antibody (1:1000) were acquired from Abcam (Cat#: ab191250), and the GAPDH served as control (CST, Cat#: 5174).
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5

ChIP-qPCR Assay for Histone Modifications

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Chromatin immunoprecipitation assay (ChIP) assays were performed using an EZ-CHIP KIT (Millipore). EZH2 antibody was obtained from Abcam. H3 trimethyl Lys 27 antibody was from Millipore. The ChIP primer sequences are listed in Supplementary Table 1. Quantification of immunoprecipitated DNA was performed using qPCR with SYBR Green Mix (TaKaRa). ChIP data were calculated as a percentage relative to the input DNA by the equation of 2(Input Ct - Target Ct) × 0.1 × 100.
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6

Chromatin Immunoprecipitation (ChIP) Protocol

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ChIP assays were performed using an EZ-CHIP KIT according to the manufacturer's instructions (Millipore, USA). EZH2 antibody was obtained from Abcam. H3 trimethyl Lys 27 antibody was from Millipore. The ChIP primer sequences are listed in Supplementary Table S1. Quantification of immunoprecipitated DNA was performed using qPCR with SYBR Green Mix (Takara). ChIP data is presented as a percentage relative to the input DNA using the equation 2[Input Ct- Target Ct] ×0.1 × 100 [19 (link)].
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7

ChIP Assay with EZH2 and H3K27me3

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ChIP assays were performed using EZ-CHIP KIT according to the manufacturer’s instruction (Millipore, USA). EZH2 antibody was obtained from Abcam. H3 trimethyl Lys 27 antibody was from Millipore. The ChIP primer sequences were listed in Additional file 4: Table S1. Quantification of immunoprecipitated DNA was performed using qPCR with SYBR Green Mix (Takara). ChIP data was calculated as a percentage relative to the input DNA by the equation 2[Input Ct − Target Ct] × 0.1 × 100.
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8

Western Blot Analysis of FOXF1-AS1 Targets

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The stable transfected CALU1-FOXF1-AS1 and H1975- FOXF1-AS1 and control cells were prepared for western blot as previously described [25 (link)]. The antibody used included E-cadherin, Vimentin antibody (Cell signaling, USA), GAPDH, FOXF1 and EZH2 antibody produced in rabbit (Abcam).Each of the ratio was determined to the values obtained for GAPDH.
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9

EZH2 RNA-Binding Protein Immunoprecipitation

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The RIP experiments were performed using a Magna RIP™ RNA-Binding Protein Immunoprecipitation Kit (Millipore), according to the manufacturer's instructions. The EZH2 antibody was obtained from Abcam. The co-precipitated RNAs were detected by reverse-transcription PCR. The total RNAs were the input controls.
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10

ChIP-seq Protocol for Epigenetic Analysis

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ChIP assay was performed as described previously.11 (link) ChIP was carried out by the ChIP Assay Kit (Millipore, USA). In brief, 107 AC16 cells were cross-linked with 37% formaldehyde and 1.5 M glycine. Nuclei were obtained after lysis and centrifugation. The nuclear components were extracted with nuclei lysis buffer and then obtained the DNA fragment by ultrasonic breaker (Scientz, China). The supernatant was collected, and the total volume was recorded. Then the supernatant was incubated with IgG antibody (Sigma, #SAB3700848), H3K27me3 antibody (Cell Signaling Technology, # 9733) or EZH2 antibody (abcam, # ab3748) at 4°C overnight separately. 1% supernatant was taken as input and stored at 4 °C. Then pre-cleaning G-sepharose were added into the mixture and incubated at 4 °C for 90 min. After centrifugation, the supernatant was removed and beads were washed repeatedly. IP elution buffer was added to the beads and the process of de-crosslinking was performed by heating at 65 °C overnight. Finally, DNA were extracted for qRT-PCR analysis. The primer sequences were as follows: Forward primer, 5ʼ- AGCAGGCATCCATGAAATGT-3ʼ, Reverse primer, 5ʼ- AAGTGGTTCACCAAGTGCAA -3ʼ.
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