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313 protocols using image pro plus 7

1

Histopathological Analysis of Intestinal Injury

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After fixation in 10% formalin, the intestinal tissues were embedded in paraffin wax and cut into 3 μm slices. The slices were then dehydrated with gradient alcohol, cleaned with xylene, and sealed with resin. Hematoxylin and eosin (H&E) staining was performed on the slices. Finally, images were captured using a light microscope (Nikon, Tokyo, Japan) to detect histopathological changes. The severity of intestinal injury was assessed according to Chiu’s scoring system, as previously described [9 (link)].
For immunohistochemistry (IHC), tissue slices were treated with anti-Fas antibody (1:500 dilution; Cell Signaling Technology). The horseradish peroxidase (HRP)-conjugated secondary antibody (Gene Tech, Shanghai, China) was incubated for 30 min at room temperature and used to detect the primary antibody. The images were acquired using a light microscope (Nikon), and Fas staining was quantified using Image-Pro Plus 7 (Media Cybernetics, MD, USA).
Apoptotic cells in the intestinal epithelium sections were detected using TdT-mediated dUTP-biotin nick end-labeling (TUNEL) reagent (Elabscience, Wuhan, China) according to the manufacturer’s instructions. Images were acquired using a fluorescence microscope (Leica Microsystems), and TUNEL-positive cells were quantified using Image-Pro Plus 7 (Media Cybernetics).
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2

Immunohistochemical Staining Protocol

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For immunohistochemical staining, the sections were deparaffinized in xylene and rehydrated through graded ethanol. Antigen retrieval was performed for 20 min at 95°C with sodium citrate buffer (pH 6.0). After quenching endogenous peroxidase activity with 3% H2O2 and blocking non-specific binding with 1% bovine serum albumin buffer, sections were incubated overnight at 4°C with indicated primary antibodies. Following several washes, the sections were treated with HRP conjugated secondary antibody for 40 min at room temperature, and stained with 3, 3-diaminobenzidine tetrahydrochloride (DAB). Slides were photographed with microscope (Olympus BX43F, Japan). The photographs were analyzed based on the ratio of the staining with the Image-Pro Plus 7.0 software (Media Cybernetics, Inc., Silver Spring, MD, USA). The anti-NCAPG2 used in this manuscript is (ab110882, 1:100).
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3

Quantifying mSKP Sphere Formation

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On the 14th day, five pictures were taken randomly for every culture condition, mSKP spheres were counted, and their diameters were measured using Image-pro Plus 7.0 (Media Cybernetics, USA). Then the number and diameter of mSKP spheres obtained from every culture condition were compared.
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4

Quantitative Immunohistochemical Analysis of Colonic Tight Junction Proteins

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Immunohistochemical detection of epithelial tight junction (TJ) proteins: ZO-1, occludin and claudin-1 was performed using a Rabbit specific HRP/DAB (ABC) Detection IHC kit (ab64261, Abcam, Australia) following the manufacturer’s instructions and as previously described [19 (link)]. Antibodies anti-ZO-1 (NBP1-85046, Novus Biologicals, Australia, 1:400); anti-occludin (NBP1-87402, Novus, 1:600) and anti-claudin-1 (NBP1-77036, Novus, 1 μg/mL) were used for incubating the colonic sections overnight at 4 °C. Computer-assisted image analysis was performed with a Leica DM500 microscope (Leica Microsystems, Wetzlar, Germany), Leica ICC50 W camera (Leica Microsystems, Wetzlar, Germany), and Image Pro Plus 7.0 (Media Cybernetics, Inc., Rockville, MD, USA) software. The expression of tight junction (TJ) proteins: ZO-1, occludin and claudin-1 was blindly assessed by choosing random five fields on each slide (n = 4/group). Barrier TJ protein expressions and staining intensity in colonic epithelium were expressed as the percentage expression of a respective TJ protein.
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5

Histological Assessment of Heart Tissue

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For histological examination, the heart was immersion fixed in 10% neutral-buffered formalin followed by embedding in paraffin. The paraffin-embedded cross sections (5 µm) were prepared and stained with hematoxylin and eosin (H and E) to examine histological changes in the heart tissue. The images were captured by using Olympus BX43 Upright Light Microscope with an Olympus Q-Color3 digital camera (Olympus Corporation, Tokyo, Japan) and analyzed by using Image-Pro Plus 7.0 (Media Cybernetics, Bethesda, MD, USA).
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6

Histological Evaluation of Collagen

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Masson staining, osmic acid staining and type I and type III collagen immunohistochemical staining were analyzed by light microscopy (100×; Olympus, Tokyo, Japan). Five fields of vision were chosen in each image followed by image analysis and processing using Image-Pro Plus 7.0 software (Media Cybernetics) (Cheng et al., 2011).
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7

Radial Alveolar Counts in Mice

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Radial alveolar counts were performed as previously described (10 (link), 38 (link)) on 21 day old male mice. In brief, mice were euthanized with an intraperitoneal injection of ketamine/xylazine, the trachea was cannulated, and lungs were inflation-fixed (25 cm H2O) for 10 min with 10% neutral-buffered formalin. The left lung was removed, prepared for immunostaining, post fixed for two days at 4°C and paraffin embedded. Sections were stained with hematoxylin and eosin, and alveolarization was assessed by performing radial alveolar counts. All images were obtained using a Rolera XR CCD camera (Q-Imaging, Canada) mounted on a Leica DMLB microscope (Leica Microsystems, Germany). Images were analyzed using research-based digital image analysis software (Image-pro Plus 7.0, Media Cybernetics, Silver Spring, MD). RAC was determined by counting the number of alveolar septa transected by a perpendicular line drawn from the terminal bronchiole to the nearest connective tissue septum (38 (link)), and was averaged from 8–10 sections per animal from each treatment group.
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8

Histological Evaluation of Scaffold Implants

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Morphology was studied following standard histological procedures (10 (link), 11 (link)). Briefly, articular specimens were fixed (4% formaldehyde, 5 days) and immersed in Osteosoft decalcifier solution (Merck) for 5 to 8 weeks. Then, samples were embedded in paraffin, 5-μm-thick serial sections were obtained in the middle part of the scaffolds (~3 mm diameter), and stained with hematoxylin-eosin and Masson's trichrome. The presence of chondral glycosaminoglycan was monitored by Alcian blue staining (pH 2.5) and counterstained with Harris hematoxylin. Sections were analyzed under a Leica-DM4000B optical microscope, and pictures were taken using a camera (Leica-DFC420). Cell density (number of cells/mm2) was quantified inside the implanted scaffolds as well as the distance between articular surface and scaffold, using Image proPlus 7.0 (Media Cybernetics). Results are expressed as average values ± SD of 4 measurements. Results were compared using Mann-Whitney U-test, and were considered statistically significant when the p value was <0.05. The square of the Pearson correlation coefficient (R2) was used to determine the degree of linear regression between the parameters studied.
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9

Histological Analysis of Intestinal Tissues

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Fixated tissues were dehydrated in an ethanol gradient of 77%‐99% (absolute ethanol, cat. no. 83813.360, VWR), cleared using xylene (cat. no. 28973.363, VWR) and embedded in paraffin (cat. no. 2270.60.60, Hounisen, Skanderborg, Denmark). Sections of 2 μm were stained with Meyer's Hematoxylin (cat. no. AMPQ00254.0500, Ampliqon, Odense, Denmark) and Eosin Y (cat. no. 341973R, VWR) to identify eosinophils and 0.5% Toluidine Blue (TB; cat. no. 89640, Sigma‐Aldrich) in 1 M hydrochloric acid to identify mast cells, or Periodic acid‐Schiff (PAS; periodic acid: Cat. no. 1.00524.0025, Merck and Schiff′s reagent: Cat. 3952016, Sigma‐Aldrich) to identify goblet cells.34 Slides were examined using a Leica DMR upright microscope (Leica Microsystems GmbH, Wetzlar, Germany). The software ImagePro Plus 7.0 (MediaCybernetics, Rockville, MD, US) was used for image analysis. Villus length was measured from the villus tip to the crypt‐villus junction. Cell count and villi length in the SI were averaged from three sections of three similar consecutive villi and crypts. Cell count in the colon was averaged from six individual crypts. Analysis of histological sections was performed blinded.
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10

Cell Proliferation Assays for Clonogenic and Metabolic Activity

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Cell proliferation was assessed using the MTT and clonogenic assays. The MTT assay was performed as described previously.47 (link) For the clonogenic assay, 5 × 103 cells were seeded in a 6-well plate. After 2 weeks, colonies were stained with crystal violet and counted using the Image-Pro Plus 7.0 software (Media Cybernetics).
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