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10 protocols using ab36999

1

Immunofluorescence Imaging of Oligodendrocytes

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MSCs and OPCs were fixed with 4% paraformaldehyde for 10 minutes and incubated 1h in blocking and permeabilization solution [0.1% Triton X-100 (Sigma) and 5% normal goat serum (MP Biomedicals) in phosphate-buffered saline (PBS)]. Primary antibodies, diluted 1:500 in blocking/permeabilization solution, were incubated overnight at 4 °C and detected using antirabbit and -mouse secondary antibodies conjugated to Alexa Fluor 488 (Invitrogen; 1:250 dilutions; 2h incubations at room temperature). To identify cell nuclei, samples were counterstained with 1 µg/ml 4',6-diamidino-2-phenylindole (DAPI) in PBS. The primary antibodies used for immunofluorescence were against the A2B5 antigen (Millipore, MAB312), galactocerebroside (GalC ; Millipore, Ab142), NuMA (Abcam, ab36999), and topoisomerase II-α (Abcam, ab75765).
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2

Histological Analysis of Glioblastoma Xenografts

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According to an approved animal protocol (University of Wisconsin Institutional Animal Care and Use Committee), NOD SCID mice whose brains were implanted with 200,000 GSCs from GSC lines 12.1, 22, 44, and 107 were euthanatized for paraffin embedding, and 5-µm thick tissue sections were obtained in the UW Experimental Pathology Shared Service Translational Research Initiatives in Pathology (TRIP) laboratory. Masson’s trichrome staining was performed by UW Carbone Cancer Center experimental pathology shared services on paraffin-embedded samples. For Picrosirius red staining, sections were deparaffinized in xylene and hydrated through decreasing grades of alcohol. These sections were incubated in 0.1 % (wt/vol) Sirius red F3B (Bayer chemicals) in saturated Picric acid solution for 1 hour at room temperature and then rinsed with distilled water, and stained with Mayer’s haematoxylin, followed by differentiation in 1% Hcl, alkalinization with tap water, dehydration, and final mounting. Sections were then examined using circular polarized light. The same methods of staining were used for TMA slides. Immunohistochemistry was performed as previously described28 (link). A human specific anti-NUMA antibody (ab36999, Abcam) was used at the concentrations of 1:200 on mouse xenograft slides.
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3

Paraffin-Embedded Tissue Immunostaining

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Paraffin-embedded tissues were cut into 5 μm sections and dried before use. To begin, sections were deparaffinized in xylene and rehydrated in graded ethanol solutions. Antigen retrieval was performed by boiling in 10 nM sodium citrate buffer (pH 6.0) for 20 min. Washing steps were performed with 1×PBS and primary antibodies were incubated at 4°C overnight in a humidified chamber. All primary antibodies (BrdU, Abcam, ab6326, 1:1000; NuMA, Abcam, ab36999, 1:250) were diluted in 5% BSA, 0.5% Tween-20 blocking buffer.
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4

Immunohistochemistry Protocol for Paraffin-Embedded Tissues

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Paraffin-embedded tissues were cut into 5-μm–thick sections and dried before use. To begin, sections were deparaffinized in xylene and rehydrated in graded ethanol solutions. Antigen retrieval was performed by boiling in 10 nmol/L sodium citrate buffer (pH 6.0) for 20 minutes. Washing steps were performed with 1× PBS and primary antibodies were incubated at 4°C overnight in a humidified chamber. All primary antibodies (BrdU, Abcam, ab6326, 1:1,000; NuMA, Abcam, ab36999, 1:250) were diluted in 5% BSA, 0.5% Tween-20 blocking buffer.
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5

Immunostaining of DNA Repair Factors

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This procedure was performed as described previously (19 (link)). Where indicated, immunostaining was preceded with in situ cell fractionation to reveal insoluble proteins (24 (link)). Fluorescent signals were imaged with a Zeiss CLSM710 using a 63× oil (NA = 1.4) objective. Repair foci were quantified using an automated routine in ImageJ (http://rsbweb.nih.gov/ij/) or by visual scoring. Antibodies used for immunostaining were: 53BP1 (Abcam, ab36823, 5 μg/ml), BRCA1 (Calbiochem, MS110, 0.3 μg/ml), cyclin B1 (Cell Signaling Technology, clone D5C10, 1:200), FLAG (Sigma, M2, 2 μg/ml), γH2AX (Milipore, JBW301, 3.3 μg/ml), Histone H4 acetylated (Milipore, 06–598, 5 μg/ml), Histone H4K20me (Abcam, ab9051, 5 μg/ml), Ki67 (Vector Laboratories, VP-K451, 1:1000), lamin B (Abcam, Ab16048, 2 μg/ml), NuMA (B1C11, 1:2), NuMA full-length (Abcam, ab36999, 1:100), NuMA proximal coiled-coil (Bethyl Laboratories, A301–510A, 4 μg/ml), NuMA distal C-terminal domain (Abcam, clone EP3976, 1:250), RAD51 (Abcam, ab63801, 1:1000), SNF2h (Abcam, ab3749, 15 μg/ml or clone 3.25(2), 4 μg/ml) and WSTF (Abcam, clone EP1704Y, 1:100). Note that for immunostaining with RAD51 antibodies, a permeabilization step with 0.5% triton X100 was performed after fixation with paraformaldehyde.
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6

Immunostaining Protocol for Cell Junctions

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The following antibodies were used in this study: α-tubulin (rat; ab6160; Abcam), β-catenin (rabbit; C2206; Sigma), E-cadherin [rr1] (Gumbiner and Simons, 1986 (link)) provided by Developmental Studies Hybridoma Bank (mouse; DSHB Hybridoma Product rr1), ezrin (rabbit; ab41672, Abcam), GFP (rabbit; ab6556, Abcam), IQGAP1 (mouse; 610611; BD Biosciences), nuclear mitotic apparatus (NuMA; rabbit; ab36999; Abcam), p120 Catenin (mouse; 610134, BD Biosciences), P-MLC2 Thr18/Ser19 (rabbit; 3674; Cell Signaling Technology), and ZO-1 (rat; MABT11; EMD Millipore; or rabbit; 61–7300; ThermoFisher). All fluorescently labeled secondary antibodies were purchased from Jackson ImmunoResearch. DAPI and phalloidin-TRITC and -CF647 were purchased from Sigma and Biotium, respectively. For live imaging experiments, the lumen was stained with BCECF AM or FDA (ThermoFisher) and the DNA with DRAQ5 (Cell Signaling Technology).
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7

Immunofluorescence Staining Protocol

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The following antibodies were used in this study: α-tubulin (ab6160; Abcam, Cambridge, MA), γ-tubulin (T6557; Sigma, St. Louis, MO), BUBR1 (200-301-902; Rockland, Limerick, PA), and NuMA (ab36999; Abcam). Ciliobrevin D, pertussis toxin, and nocodazole were from EMD Millipore (Billerica, MA). Latrunculin B and 4,6-diamidino-2-phenylindole (DAPI) and phalloidin–tetramethylrhodamine isothiocyanate were from Sigma. DRAQ5 was from Invitrogen (Carlsbad, CA).
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8

Immunofluorescence Staining of Nuclear Proteins

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As previously described (Byron et al. 2013 (link)), coverslips were incubated in primary antibody diluted in 1% BSA, 1 × PBS for 1 h at 37 °C. They were then washed and immunodetected with a 1:500 dilution of fluorescent conjugated anti-mouse or -rabbit antibody in 1 × PBS with 1% BSA. Prior to some SAF-A antibody stains, we treated cells for antigen retrieval using established procedures by incubating coverslips in 10 mM citric acid and 0.05% tween at 100 °C for 20–40 min. This method is commonly used to expose epitopes in clinical tissue samples, and allowed us to visualize the enriched layer of endogenous SAF-A on the Barr body, previously seen only after a matrix prep (Helbig and Fackelmayer 2003 (link)). For protein/RNA detection, antibody stains were done with added 1 U/µl of RNasin Plus RNase inhibitor (Promega) and signals fixed for 10 min in 4% paraformaldehyde prior to hybridization. Coverslips were counterstained with DAPI and mounted with Vectashield (Vector Laboratories) for imaging. Antibodies used were anti-SAF-A (Abcam ab20666 and ab10297), anti-FUS (Bethyl Labs), anti-hnRNP C (Abcam ab97541), anti-SafB1 (Abcam ab8060), anti-NuMA (Abcam ab36999), anti-Lamin B1 (Abcam ab16048 and Santa Cruz sc-6217).
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9

Monoclonal and Polyclonal Antibody Characterization

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Anti-NDR1 monoclonal antibody (M04) was purchased from Abnova. Anti-pT444-NDR1 rabbit polyclonal antibody was produced and purified as described previously40 (link). Anti-Ezrin monoclonal antibody (4A5) was described previously41 (link). Other antibodies were used as following: mouse anti-GFP (BD Biosciences); mouse anti-Flag (M2, Sigma); anti-α-tubulin (DM1A, Sigma); rabbit anti-Flag (Sigma, F-7425); rabbit anti-γ-tubulin (Abcam); mouse anti-actin (1A4, Sigma, A-2547); mouse anti-EB1 (BD Biosciences, 610534); mouse anti-Cyclin B (BD Biosciences, 554177); rabbit anti-RFP (Invitrogen, R10367); rabbit anti-Mob1 (Cell Signaling, 3863); rabbit anti-Mob2 (HCCA2) (Abcam, ab103109); rabbit anti-MBP (New England BioLabs, E8032); rabbit anti-pT210-PLK1 (Epitomics, 3646-1); rabbit anti-NuMA (Abcam, ab36999) and ACA (a gift from Dr. Don Cleveland, University of California at San Diego, La Jolla, CA).
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10

Immunohistochemical Analysis of Paraffin Sections

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Paraffin-embedded tissues were cut into 5 μm sections and dried before use. To begin, sections were deparaffinized in xylene and rehydrated in graded ethanol solutions.
Antigen retrieval was performed by boiling in 10 nM sodium citrate buffer (pH 6.0) for 20 min. Washing steps were performed with 1×PBS and primary antibodies were incubated at 4°C overnight in a humidified chamber. All primary antibodies (BrdU, Abcam, ab6326, 1:1000; NuMA, Abcam, ab36999, 1:250) were diluted in 5% BSA, 0.5% Tween-20 blocking buffer.
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