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35 protocols using ab21027

1

Quantifying Myofibroblast Apoptosis in Lung Tissue

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Co-localization of cleaved caspase-3, an apoptosis marker, and α-SMA, a myofibroblast marker, was conducted to confirm myofibroblast apoptosis by immunofluorescence. Five μm-thick OTC-embedded samples were cut and then fixed using 4% formaldehyde, permeabilized in 0.2% Triton X-100 for 5 minutes, and blocked with 10% normal goat serum. Primary antibodies for alpha smooth-muscle actin (aSMA; 1:200; Ab21027, Abcam), cleaved-Caspase 3 (1:200; #9661, Cell Signaling) along with AlexaFluor-labeled secondary antibodies (Life Technologies) were used. Images were acquired at 20x (Plan-fluor, 0.5 N.A.) or 60x (Plan-apochromat, 1.4 N.A.) magnification with a fluorescence microscope. Myofibroblasts expressing high levels of aSMA and/or cleaved caspase-3 were counted in six different random high-powered fields of the lung in each mouse, 5–6 mice per group.
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2

Comprehensive Immunohistochemistry Panel

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Primary antibodies: Rabbit anti-cleaved Caspase 3 (9661S, Cell Signaling Technology, Danvers, USA), rabbit anti-Ki-67 (ab16667, Abcam, Cambridge, UK), rat anti-CD31 (DM3614P, Dianova, Hamburg, Germany), goat anti-CD32b (AF1460, R&D Systems, Minneapolis, USA), goat anti-Lyve1 (AF2125, R&D Systems, Minneapolis, USA), rat anti-Endomucin (14–5851–82, Thermo Fisher Scientific, Waltham, USA), rabbit anti-TRP-2 (ab74073, Abcam, Cambridge, UK), rabbit anti-wide spectrum cytokeratin (ab9377, Abcam, Cambridge, UK), goat anti-alpha smooth muscle actin (ab21027, abcam, Cambridge, UK), rat anti-CD45 (550539, BD Biosciences, Franklin Lakes, USA), rat anti-CD68 (137002, BioLegend, San Diego, USA), rabbit anti-Melan A (NBP1-30151, Novus, Minneapolis, USA). For Western blotting: rabbit anti-Akt (9272S, Cell Signaling Technology, Danvers, USA), rabbit anti-phospho-Akt (9271S, Cell Signaling Technology, Danvers, USA). Secondary antibodies: Alexa-Fluor 488, Alexa-Fluor 647 and Cy3-conjugated secondary antibodies were purchased from Dianova (Hamburg, Germany). For Western Blotting a rabbit anti-IgG HRP conjugated antibody was used. (Merck, Darmstadt, Germany).
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3

Multiparametric Profiling of SARS-CoV-2 Infection

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All reagents were purchased from Sigma (St. Louis, MO) unless indicated otherwise. Dyes and secondary antibodies were obtained from Thermo-Fisher (Waltham, MA). RNAscope 2.5 HD Detection of s-sense COVID-19 for RNA detection was used (Hayward, CA). Antibodies for macrophages (Iba-1, Ab5076), lymphocytes (CD3, ab11089), endothelial cells (Von Willebrand factor, ab194405), epithelial cells (EpCam, ab7504), myeloperoxidase (MPO, ab25989), CD8 (CD8, ab22378), CD20 (B cells, ab9475), and smooth muscle actin (SMA, ab21027) were obtained from Abcam, MA. Vimentin (sc-52721) from Santa Cruz (Santa Cruz, CA) and the antibody for SARS protein M (APO90991su-n) were obtained from Origene (Rockville, MD). All experiments were performed under the University of Texas Medical Branch (UTMB) and the NIH regulations.
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4

Immunofluorescence Analysis of α-SMA and vWF

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Immunofluorescence analysis was used to detect α-SMA and vWF as previously described (47 (link)). Briefly, following blocking step, sections were then incubated overnight at +4°C with goat polyclonal α-SMA (1:250; ab21027, Abcam) in PBS with 3% of donkey serum (w/v) and 1% bovine serum albumin (BSA). After three washing steps with PBS containing 1% w/v BSA, the sections were incubated with Alexa Fluor 488 donkey anti-goat secondary antibody (1:200; ab150129, Abcam) for 1 hour at room temperature in the dark. The samples were washed three times in PBS with 1% w/v BSA, and the slides were then incubated overnight at +4°C with rabbit polyclonal vWF antibody (1:200; ab6994, Abcam) in PBS with 3% of donkey serum (w/v) and 1% BSA (all from Sigma-Aldrich). After three washing steps with PBS and 1% w/v BSA, the sections were incubated with Alexa Fluor 647 donkey anti-rabbit secondary antibody (1:200; ab150075, Abcam) for 1 hour at room temperature in the dark. Last, samples were washed three times with PBS and 1% w/v BSA, and the sections were mounted using 4′,6-diamidino-2-phenylindole mounting media (Sigma-Aldrich). Fluorescence emission was detected using a confocal laser scanning microscopy (Olympus FluoView 1000).
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5

Immunofluorescence Staining of Enteric Nervous System

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Cell cultures or pcgENS (at day 11) were fixed with 4% paraformaldehyde in PBS at room temperature for 30 min. After permeabilization with PBS-sodium azide containing 10% horse serum and 0.25% Triton X-100 (Sigma-Aldrich, St. Louis, MO, USA), samples were incubated at room temperature, sequentially, with primary antibodies for 3 h, washed 3 times with PBS, and then with secondary antibodies for 1 h, diluted in PBS-sodium azide containing 10% horse serum. The following primary antibodies and dilutions were used for immunofluorescence microscopy experiments: rabbit anti S100β (1:200, IR504, Dako, Santa Clara, CA, USA) staining glial cells; goat anti α-smooth muscle actin (SMA) (1:200, ab21027; Abcam, Cambridge, UK) staining smooth muscle; mouse anti PGP9.5 (1:500, MA1-83428, Thermo Fisher Scientific, Waltham, MA, USA); rabbit anti PGP9.5 (1:500, CL7755AP, Cedarlane, Burlington, ON, Canada) staining enteric nerves and rabbit anti-N-Cadherin (1:200, Ab-18203, Abcam). The following secondary antibodies were used: anti-mouse Cy3 (1/500, 715-165-151, Jackson ImmunoResearch, West Grove, PA, USA), anti-mouse FP 488 (1/500, 115-545-205, Jackson ImmunoResearch), anti-rabbit Cy3 (1/500, 711-165-152, Jackson ImmunoResearch), and anti-goat AMCA (1:50, 705-155-147, Jackson ImmunoResearch).
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6

Vascular Tissue Analysis: Histological and Immunofluorescent Imaging

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Excised vascular segments were dissected to exclude regions where ligations were placed or anastomoses. For samples from ApoE knockout mice, the segment between the ligations, as well as the zone of bifurcation was analyzed. Vascular segments were fixed in 4% paraformaldehyde, embedded in an upright position in paraffin, cut sequentially into 4μm sections and subjected to hematoxylin and eosin staining (H&E) or immunofluorescence staining. The distance between sections ranged from 200μm to 300μm. For immunofluorescence, the following antibodies were used at indicated concentrations: anti-ACTA2 (Abcam, ab21027) (1:1000), anti-ICAM-1 antibody [YN1/1.7.4] (Abcam, ab119871) (1:200). Secondary antibodies were Alexa Fluor 546 (Invitrogen, A11056) and Alexa Fluor 647 (Jackson Immuno-research, 712-606-153), both utilized at a 1:200 dilution.
Quantification of nuclear sizes was performed by ImageJ on H&E sections. IH and atherosclerosis were analyzed on H&E sections.
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7

Immunofluorescent Quantification of Tumor Angiogenesis

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3 randomly selected, formalin-fixed tissues from Saline- and Au@Ag-treated groups were routinely embedded in paraffin, then 4 mm thick paraffin slices were cut. Samples were deparaffinised, then heat-mediated antigen retrieval was performed using citrate buffer at pH = 6. Samples were blocked with donkey serum (Millipore) and stained with alphaSMA-specific antibody (1:200) (abcam, ab21027) then Alexa488-labelled donkey-anti-goat secondary antibody (abcam, ab150129) was applied. After alphaSMA staining, samples were blocked again using normal goat serum, and Ki67-specific antibody (abcam, ab15580) was used in 1:50 dilution followed by Dylight549-labelled goat anti-rabbit secondary (abcam, ab96984). After immunoreactions, samples were counterstained with DAPI and analysed by an Olympus BX51 fluorescent microscope.
For correlation analysis, 4–5 photographs were taken from the subcutaneous regions of each tumour, then the percentage of alphaSMA- and Ki67-positive cells was quantified using CellProfiler 2.2.0 software. Statistical evaluation of the obtained data was performed using GraphPad Prism 7 software by calculating the Pearson r value.
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8

Immunohistochemical Analysis of Mammary Tumors

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Mammary tumor sections (5μm) were deparaffinized and high temperature antigen retrieval was performed, followed by blocking in TBS/BSA 5%, 10% donkey serum and exposure to primary antibody and biotinylated secondary antibody (Vectastain ABC kit, Vector Labs) for immunohistochemistry or Alexa 488, 568 and 647-conjugated secondary antibodies (Thermo Fisher Scientific) for immunofluorescence. Primary antibodies against, GLS1 (ab93434; 1/100) and α-SMA (ab32575; 1/1000 or ab21027; 1/300) were purchased from Abcam. A primary antibody against α-SMA (A2547; 1/300) was purchased from Sigma. A primary antibody against SLC1A3 (sc-7757; 1/100), was purchased from Santa Cruz Biotechnology. A primary antibody against PCNA (13–3900, 1/100) was purchased from Thermo Fisher Scientific. In most cases, color development was achieved by adding streptavidin biotinylated alkaline phosphatase complex (Vector Labs) followed by Vector Red alkaline phosphatase substrate solution (Vector Labs). Levamisole was added to block endogenous alkaline phosphatase activity (Vector Labs). Pictures were obtained using an Olympus Bx51 microscope or ZEISS LSM Exciter confocal microscope. Intensity of staining was quantified using ImageJ software (NIH). All measurements were performed blinded to condition
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9

Immunofluorescence Imaging of Aortic Sections

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Formalin-fixed paraffin-embedded aortic sections from SMC lineage-traced mice were de-paraffinized, rehydrated, and then subjected to antigen retrieval using sodium citrate buffer (pH 6.0) at 98°C for 20 min. The tissues were then permeabilized with Tris-buffered saline (TBS) containing 0.025% Triton X-100 and blocked for 1.5 h with 5% bovine serum albumin (BSA) in TBS. The sections were then incubated with either goat anti-SMA antibody (ab21027; Abcam) or rat anti-F4/80 (MF48000, ThermoFisher Scientific, clone BM8). Following overnight incubation at 4°C, the samples were washed with TBS containing 0.01% Tween 20 (TBST) and incubated with anti-goat or anti-rabbit Alexa Fluor™ 647 for 1 h at room temperature. The tissues were then washed again with TBST and mounted with ProLong™ Diamond Antifade Mountant (Invitrogen), following which the slides were allowed to dry for 24 h in the dark. Imaging was performed using a Nikon A1 Confocal Laser Microscope at the UTHealth Center for Advanced Microscopy. Negative control staining was performed using normal goat or normal rat IgG. Please refer to the Major Resources Table for detailed information on the primary antibodies used.
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10

Immunofluorescence Staining for Sema3A, CD31, and α-SMA

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Immunofluorescence was performed as previously described [18 (link)]. The paraffin-embedded sections were deparaffinized with xylene and treated with heat-mediated antigen unmasking solution. Then, the sections were permeabilized in 0.25% Triton X-100 for 15 min. After being blocked with 20% donkey serum for 30 min., the sections were incubated with the primary antibodies anti-Sema3A antibody (1:100, ab199475, Abcam), anti-CD31 antibody (1:50, AF3628, R&D Systems, RRID: AB_2161028), anti-α-SMA antibody (1:100, ab5694, Abcam, RRID: AB_2223021) and anti-α-SMA antibody (1:100, ab21027, Abcam, RRID: AB_1951138) at 4 °C overnight, then incubated with the corresponding fluorescein-conjugated secondary antibodies (1:100 dilution; Life Technologies). Nuclei were stained with DAPI for 10 min. All sections were observed under a confocal microscope (Nikon, Tokyo, Japan).
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