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23 protocols using gata3

1

Immune Cell Profiling of Intestinal Lamina Propria

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Single-cell suspensions of the lamina propria of the small intestine were obtained, as described above. The cell surface was labeled with LinLD (catalog no. 423102; Biolegend, U.S.), CD45 (catalog no. A15395; ThermoFisher, U.S.), TCRβ,γδ (catalog no. MA5-28524; ThermoFisher, U.S.), NKp46 (catalog no. 250802; Biolegend, U.S.), CD127 (catalog no. PA5-79511; ThermoFisher, U.S.), RORγt (catalog no. ab104950; Abcam, Cambridge, UK), and GATA3 (catalog no. 386902; Abcam, Cambridge, UK). Cells were analyzed using LSRFortessa X-20 multi-dimensional high-definition flow cytometry (BD, Franklin Lakes, NY, USA), and the data were analyzed using FIowJo software version 10 (FlowJo, LLC, Ashland, OR, USA).
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2

Cytokine and Transcription Factor Analysis

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The protein expression of IL-5, IL-13, OPN (R&D systems), GATA3 (Abcam), and RORα (Cloud clone) were determined by ELISA kits according to instructions. ECP level was detected by Unicap system.
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3

GATA3 Regulation of Epithelial-Mesenchymal Transition

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U2OS and Saos2 cells were transfected with FLAG-GATA3 plasmid or GATA3 siRNA for 48 hours. Subsequently, cells were collected and lysis by RIPA protein extraction reagent supplemented with a protease inhibitor cocktail (Roche, Pleasanton, CA, USA). The concentration of protein was quantified using the BCA Protein Quantifcation kit (Pierce, Waltham, MA, USA) according to the manufacturer’s instructions. A total of 40 µg protein was separated by 10% SDS-PAGE and transferred to nitrocellulose membranes (Sigma-Aldrich Co., St Louis, MO, USA). The membranes were blocked with 5% skim milk (OriGene Technologies, Inc., Beijing, People’s Republic of China) for 1 hour at room temperature. Subsequently, the membranes were incubated with antibodies, such as GATA3 (1:2,000, Abcam, Cambridge, UK), E-cadherin antibody (1:2,000, Abcam), N-cadherin antibody (1:2,000, Abcam), vimentin antibody (1:2,000, Abcam), slug (1:1,000, Abcam), snail (1:2,000, Abcam), twist1 (1:1,000, Abcam), and β-actin antibody (1:5,000, Abcam) overnight at 4°C. After washing with TBST buffer three times, the membranes were incubated with horseradish peroxidase-coupled (HRP) secondary antibody (1:5,000, Abcam) at room temperature for 1 hour. Finally, the blots were visualized using Western Lighting Chemiluminescence Reagent Plus (PerkinElmer, Inc., Waltham, MA, USA).
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4

Protein Extraction and Western Blot Analysis

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Total protein was extracted via RIPA lysis (Beyotime, Shanghai, China) with phenyl-methane-sulfonyl fluoride and protease inhibitor. 10% SDS-PAGE gel electrophoresis with 30 μg protein per well was performed and then we transferred PVDF membranes. Antibodies PRPF6 (No. ab99292, 1:2000, Abcam, London, England), CEBPB (No. ab32358, 1:2000, Abcam, London, England), GATA3 (No. ab199428, 1:2000, Abcam, London, England), Vimentin (No. ab40497, 1:1000, Elabscience, Wuhan, China), E-cadherin (No. ab40285, 1:1000, Elabscience, Wuhan, China), N-cadherin (No. ab70061, 1:1000, Elabscience, Wuhan, China), β-tubulin III (No. YM0634, 1:2000, Immunoway, Wuhan, China), β-actin (No. AP0060, 1:5000, Bioworld, Wuhan, China) were incubated overnight at 4°C.
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5

Chromatin Modulator Profiling Protocol

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Chaetocin (S8068), AMI-1 (S7884), BIX-01294 (S8006), GSK343 (S7164), 3-deazaneplanocin (S7120), and UNC0631 (S8071) were purchased from Selleek. Horseradish peroxidase (HRP) labeled secondary antibody (LK2003) and β-actin (KM9001T) were purchased from Sungene Biotech. Antibodies such as KMT1A (ab12405), H3K9me3 (ab176916), and GATA3 (ab199428) were purchased from Abcam.
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6

Immunostaining and Confocal Imaging of Human Organoids

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The organoids were washed with cell recovery solution (Corning, USA) before being fixed for 30 min in 4% paraformaldehyde. After permeation and blocking, primary antibodies against human GATA3 (1,100, Abcam, UK), TFA2A (1,100, Abcam, UK), TFA2C (1,100, Abcam, UK), beta-hCG (1,500, Abcam, UK), E-cadherin (1,250, Abcam, UK), HLA-G (1,50, Abcam, UK), and PAPPA2 (1,100, Abcam, UK) were added and incubated at 4°C overnight. The following day, the organoids were sequentially incubated with fluorescence-labeled secondary rabbit or mouse antibody. Phalloidin and DAPI were added accordingly. Subsequently, the stained organoids were imaged using a ZEISS LSM 700 Confocal Laser Scanning Microscope and ZEN imaging software.
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7

Immunofluorescence Staining of Organoids

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For imaging, organoids were cultured in 8-well chamber slides. Organoids were fixed by 4% formaldehyde (30 min, ambient temperature) and blocked (5% BSA, 0.2% Triton X-100, 0.1% Tween 20, in PBS; 1 h, ambient temperature), and incubated (1 h, 37 °C) with primary antibodies CK5 (BioLegend, Amsterdam, The Netherlands), CK 7 (Abcam, Cambridge, UK) and GATA3 (Abcam). Primary antibodies were incubated with complementary Alexa Fluor 488-labelled (Jackson ImmoResearch Europe, Cambridge, UK) secondary antibodies (1:250, 1 h, ambient temperature). Nuclei were counterstained by DAPI (DAKO), and the expression of the marker genes was visualized by microscopy (Zeiss Axiophot, Carl Zeiss AG, Oberkochen, Germany). Antibody diluent was 1% BSA in PBS. Samples without primary antibodies and samples stained with anti-rabbit IgG antibodies served as controls.
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8

Plscr1 Expression in Lung Cell Populations

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To localize the expression of Plscr1 in various cell populations, lungs from WT mice with or without HDM challenges were sectioned, SPC (Santa Cruz, 13979), CX3CR1 (Thermo Fisher Scientific, 14-6093-81), or Gata-3 (Abcam, 199428) was labeled with red fluorescence (Alexa Fluor 594) and Plscr1 (Invitrogen, MA5-19636) was labeled with green fluorescence (Alexa Fluor 488). To localize the expression of Plscr1 and CRTH2, double-label immunofluorescence staining was undertaken using Paraffin-embedded lungs from WT and IL-13 Tg mice. Monoclonal anti-Plscr1 (Proteintech, 11582-1-AP), and anti-CRTH2 (Santa Cruz, sc-271898) were used in these evaluations. CRTH2 was labeled with red fluorescence (Alexa Fluor 594) and Plscr1 was labeled with green fluorescence (Alexa Fluor 488).
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9

Western Blot Analysis of Cell Signaling Proteins

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At the end of the indicated treatments, the cells were rinsed with ice-cold PBC and then lysed with RIPA lysis buffer. Protein concentrations were determined using the BCA protein assay kit (Thermo Fisher Scientific). Proteins (50 µg) were run on 10% SDS-PAGE gels and transferred to PVDF membranes. Membranes were blocked using 5% fat-free milk for 1 h at room temperature. Antibodies used to probe the blots were Vimentin (ab24525), EpCAM (ab71916), PCBP1 (ab171681), E-Cadherin (ab76055), GATA3 (ab106625), cyclin D1 (ab16663), cyclin E (ab71535), CDK2 (ab232753), CDK4 (ab226474), CDK6 (ab84717) and TBP (ab28175) (all from Abcam). All antibodies were used at a 1:1,000 dilution. Blots were incubated with the primary antibodies overnight at 4°C. Blots were probed with TBP to confirm that equivalent amounts of proteins were loaded in each case. Post-incubation with primary antibodies, blots were washed thrice with 1X PBS and then incubated with goat anti-mouse IgG H&L (HRP) (ab6789; Abcam) or goat anti-rabbit IgG1 IgG H&L (HRP) (ab6721; Abcam) secondary antibody at 1:5,000 dilution for 1 h at room temperature. Post-incubation blots were washed thrice with 1X PBS. Blots were visualized using ECL Plus kit (Thermo Fisher Scientific, Inc.) and HyBlot CL film (Denville Scientific).
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10

Immunoblotting Protocol for Protein Detection

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Whole cell extracts were harvested with RIPA buffer supplemented with 1X protease inhibitors (Roche) and run on gradient SDS-PAGE gels (Life Technologies). Proteins were wet transferred onto nitrocellulose membranes (0.45microns, BioRad) at 100V for 1 hour. Membranes were blocked in 5% BSA in TBST for 1 hour. Primary antibodies were diluted in 5% BSA in TBST and added to the membranes overnight at 4°C. Primary antibodies used in this study were AHDC1 (1:50, Abcam), GAPDH (1:5,000, UCSC), GATA3 (1:1,000, Abcam), HA (1:1,000, Abcam), pan-ZNF (1:1,000, Millipore), and IRDye 800CW Streptavidin (1:1,000, Li-COR). Fluorescent secondary antibodies compatible with Odyssey CLx (Li-Cor) were used for 2-color imaging of membranes. Image analysis was performed with ImageStudioLite version 5.2.5 (Li-Cor).
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