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3 protocols using gap 43

1

Neuronal Markers Immunohistochemistry

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Following the previously described cell culture conditions, samples were collected at 7 days fixed in a 10% formalin solution and kept at 4 °C until further used for staining procedures. Samples were incubated with beta III Tubulin (anti-beta III Tubulin polyclonal antibody, 1:100 dilution; Abcam, Cambridge, UK), GAP-43 (rabbit GAP43 polyclonal antibody, 1:200 dilution; Thermo Fisher Scientific, Bleiswijk, The Netherlands), NF200 (mouse anti-neurofilament 200 monoclonal antibody, 1:40 dilution; Sigma, Darmstadt, Germany) and Synapsin 1 (rabbit anti-synapsin I polyclonal antibody, 1:200 dilution; Abcam; Cambridge, UK) overnight at 4 °C, in a humidified atmosphere after the quenching of endogenous peroxidase activity (0.3% hydrogen peroxide solution; 30 min). R.T.U. VECTASTAIN® Universal ABC Elite® Kit (Vector Laboratories, Burlingame, CA, USA) was used for secondary antibody detection and incubation revealed by using the Peroxidase Substrate Kit (DAB) (Vector Laboratories, Burlingame, CA, USA), according to the manufacturer instructions. The samples were counterstained with hematoxylin for nuclei visualization, mounted in aqueous mounting medium (Sigma, Darmstadt, Germany), and observed in an optical microscope (Leica DM750 microscope).
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2

Comprehensive Antibody Validation for Western Blot, Immunofluorescence, and ChIP-seq

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The antibodies used for western blot, immunofluorescence staining and ChIP-seq are obtained from different companies. Antibodies from ThermoFisher: GAP43 (Cat. # PA1-16729, 1:250 for immunofluorescence), goat anti-mouse IgG Alexa Fluor 594 (Cat. # A-11032, 1:250 for immunofluorescence staining). Antibodies from SigmaAldrich: FLAG (Cat. # F1804, 1:1000 for western blot) Antibodies from Santa Cruz: GAPDH (Cat. # sc-25778, 1:2000 for western blot), goat anti-mouse IgG HRP secondary antibody (Cat. # sc-2005, 1:2000), goat anti-rabbit IgG HRP secondary antibody (Cat. # sc-2004, 1:2000). Antibody from Abcam: H3K27ac (Cat. # ab4729, 4 µg/reaction for ChIP), HAND2 (Cat. # ab200040, 4 µg/reaction for ChIP). Antibody from Active Motif: RNA polymerase II (Cat. # 39097, 4 µg/reaction for ChIP). Antibody generated by collaborating with Rockland Immunochemicals Inc: CASZ1 (1:4000 for western blot, 4 µg/reaction for ChIP). Antibody from EMD Millipore: H3K27me3 (Cat. # 07-449, 4 µg/reaction for ChIP). Antibody from Cell Signaling Technology, H3K4me3 (Cat. # 9751, 4 µg/reaction for ChIP).
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3

Immunofluorescent Labeling of Neural Proteins

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Mounted tissue sections were equilibrated to room temperature, washed in PBS for 2 × 5 minutes, permeabilised in 0.1% Triton x-100 in PBS for 20 minutes and washed for 2 × 5 minutes in PBS. Sections were blocked in blocking buffer (75 μl; 0.5% bovine serum albumin (g/ml), 0.3% Tween-20, 15% normal goat/donkey serum (Vector Laboratories) in PBS) in a humidified chamber for 30 minutes and incubated with primary antibody (RNA-binding protein with multiple splicing (RBPMS), 1:500, ThermoFisher, #ABN-1376; growth associated protein-43 (GAP-43), 1:400, ThermoFisher, #33–5000; AAV, 1:200, ThermoFisher, #AB-PA1–4106) diluted in ADB (15% normal goat serum in place of bovine serum albumin) overnight at 4°C. The following day, slides were washed for 3 × 5 minutes in PBS and incubated with secondary antibody (Mouse IgG 488, 1:400, ThermoFisher, #A11001; Guinea Pig IgG 546, 1:400, ThermoFisher, #A-11074) diluted in ADB for 1 hour at room temperature. Slides were washed for 3 × 5 minutes in PBS, mounted in Vectorshield mounting medium containing DAPI (Vector Laboratories) and stored at 4°C before microscopic analysis. Negative controls including omission of primary antibody were included in each run and were used to set the background threshold levels prior to image capture.
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