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4 protocols using gtx122148

1

Antibodies Used in M6A Regulation Study

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Primary antibodies used in our study are as follows: mouse monoclonal antibody against GAPDH (60004-1-lg, Proteintech, Rosemont, IL, USA), rabbit polyclonal antibody against GAPDH (10494-1-AP, Proteintech), mouse monoclonal antibody against beta-actin (sc47778, Santa Cruz Biotechnology, Dallas, TX, USA), rabbit monoclonal antibody against METTL3 (15073-1-AP, Proteintech), anti-METTL14 (SAB1104405, Sigma-Aldrich), anti-WTAP (ab155655, Abcam, Cambridge, UK), anti-ALKBH5 (ab69325, Abcam), anti-FTO (ab124892, Abcam), anti-YTHDF1 (17479-1-AP, Proteintech), anti-YTHDF2 (24744-1-AP, Proteintech), anti-YTHDF3 (25537-1-AP, Proteintech), anti-YTHDC1 (14392-1-AP, Proteintech), anti-Histone 3 (GTX122148, GeneTex), anti-Flag (F1804-1 MG, Sigma-Aldrich), anti-HA (66006-1-Ig, Proteintech) and a mouse polyclonal antibody against EV71 VP1 generated in house. The secondary antibodies used in the study are goat anti-mouse IgG and goat anti-rabbit IgG were supplied by AntiGene Biotech GmbH, Stuttgart, Germany. Alexa Fluor 488, Alexa Fluor 568-conjugated secondary antibodies, and Hoechst 33258 were purchased from Invitrogen.
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2

Colon Tissue Protein Analysis via Immunoblotting and Immunofluorescence

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Immunoblotting was conducted as described previously [24 (link)]. Colon tissues from mice were dissected the next day after completing the WAS procedure. The epithelial layers were gently scraped off, and proteins were extracted. In separate studies, human LS174T cells were collected and processed with the same method. Proteins were separated and blotted with the following primary antibodies: Piezo1 (1:500, 15939-1-AP, Proteintech), H3K9me3 (1:500, 13969, Cell Signaling Technology), T-H3 (1:500, GTX122148, GeneTex), SUV39h1 (1:500, PA5-29470, Thermo-Fisher), Histone Deacetylase 3 (Hdac3) (1:500, GTX1096679, GeneTex), and GAPDH (1:1000; Proteintech).
For immunofluorescence staining, paraffin sections were stained as described in previous research [25 (link)]. Primary antibodies used for incubation were as follows: Piezo1 (1:200, 15939-1-AP, Proteintech), H3K9me3 (1:500, 13969, Cell Signaling Technology), AGR2 (1:200, AF6068, R&D Systems), and Mucin2 (1:200, GTX100664, GeneTex). DAPI (D9542, Sigma, Millipore, St. Louis) was used for nucleic acid staining.
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3

Chromatin Immunoprecipitation Protocol

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For chromatin immunoprecipitation (ChIP) assays, anti-histone H3, GTX122148 (GENETEX), anti-acetyl histone H3 (H3K27ac), #39134, 39336 (Active Motief), anti-Sp1, GTX110593 (GENETEX), A19649 (ABclonal), anti-c-Myc, A19032 (ABclonal), C15410174 (Diagenode), anti-c-MycK323ac, C15410346 (Diagenode) were used. The detailed procedures were provided in Supplementary Data S1 and Supplementary Table S1. qPCR analysis was performed using the Thermal Cycle Dice (Takara Bio). Several amplifications were performed by classic PCR and products were run on 1.5% agarose gels and was visualized on iBrightFL1000 (Thermo Fisher Scientific). Primer sequences were available in Supplementary Table S1.
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4

Western Blot Analysis of Protein Expression

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The cells were harvested using a curet and centrifuged at 1000× g for 10 min at 4 °C and then lysed in ice-cold radioimmunoprecipitation assay (RIPA) lysis buffer (Catalog number: 89900, Thermo Scientific company, Waltham, MA, USA) with 100 µL protease inhibitor cocktail (Roche, Pleasanton, CA, USA). Equal amounts of protein (30 µg) were separated by SDS-PAGE (10% gel) and subsequently transferred to a polyvinylidene difluoride membrane. Subsequent to blocking with 5% skimmed milk at room temperature for 1 h, the membranes were incubated at 4 °C overnight with primary antibodies, including anti-MAT2A (1:1000; GTX50027; GeneTex), anti-β-actin (1:500; tcea13161; TAICLONE BIOTECH CORP.), anti-α-tubulin (1:500; GTX112535; GeneTex), anti-Histone H3 (1:1,000; #3932; GTX122148; GeneTex), followed by incubation at room temperature for 2 h with HRP-conjugated polyclonal secondary antibody (1:5000; GTX213110-01/GTX213111-01; GeneTex). All Western blots were visualized using the enhanced plus chemiluminescence assay kit (EMD Millipore, Billerica, MA, USA), according to the manufacturer’s protocol. Protein expression levels in cells were quantified by ImageJ software (https://imagej.nih.gov/ij/, accessed on 1 May 2021).
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