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200 protocols using dm4000

1

Investigating Cell Adhesion, Migration, and Endocytosis

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For adherence analysis, 1 ml RPMI medium and 1 ml cell suspension at a density of 4×105/ml were added to 6-well plates coated with collagen, followed by incubation at 37 °C for 1 h, then fixed with 4% PFA. Images were taken by Leica DM4000 (Germany) for statistics analysis. For abscission assess, cells at 80% confluence density were stimulated with 100 μg/ml puromycin aminonucleoside at 37 °C for 48 h, then counted the adherent cells under Leica DM4000.
For migration analysis, 8-μm Transwell kit (Falcon) coated with collagen were hanged on 24-well plates containing 500 μl RPMI medium with 10% FBS. 100 μl cell suspension at a density of 2×105/ml were added to the upper layer of the chamber, followed by incubation at 37 °C for 24 h. Cells from the bottom side of the chamber (migrated cells) were fixed with 4% PFA and stained with 1% crystal violet solution. Migrated cells were observed and counted by Leica DM4000 (Germany).
For endocytosis analysis, MPC5 was cultured in PBS containing FITC-transferrin (50 µg/ml) at 37 °C for 5 h. After washed with PBS and citrate buffer, cells were fixed with 4% PFA and stained with DAPI. Images were taken by a Leica sp8 laser (TCS SP8, Germany) scanning confocal microscope. The endocytosis abilities were indicated by the mean fluorescence intensity of FITC-transferrin.
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2

Immunohistochemical and Immunofluorescence Visualization

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Immunohistochemistry: Mucosal sections were processed for histology. The Diva Decloaker reagent was used for antigen retrieval in formalin-fixed, paraffin-embedded tissues. α-SMA and vimentin were detected with monoclonal rabbit anti-α-SMA (ab32575, Abcam, Cambridge, MA) (1:300) and anti-vimentin (ab92547, Abcam) (1:300), followed by treatment with goat anti-rabbit IgG H&L (HRP, ab6721, Abcam) and diaminobenzidine.
Immunocytochemistry: Primary cells were seeded on glass coverslips in six-well plates. At least five randomly selected visual fields of the immunostained cells were examined under a light microscope (Leica, DM4000, Tokyo, Japan). The obtained images were compiled using Adobe Photoshop CS6 software.
Immunofluorescence staining was performed on paraffin-embedded sections of normal and diseased human oral mucosal specimens. Rabbit polyclonal antibodies to CD31 (ab28364, Abcam) (1:25) or mouse monoclonal antibodies to α-SMA (ab7817, Abcam) (1:200) were applied overnight, followed by incubation with goat anti-rabbit Cy2 (111–225-144, Jackson ImmunoResearch, West Grove, PA) or a mouse monoclonal antibody to α-SMA (ab205719, Abcam) (1:250), respectively. Cells were examined with a fluorescence (Leica, DM4000, Instruments, Melville, NY) or confocal (Leica, tcssp8, NY) microscope.
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3

Chromosomal and Micronucleus Analyses

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24 h post-transfection, cells were treated with colchicine (NSC 757, Selleck) at 0.2 μg/mL for 2 h to arrest in metaphase. The cells in metaphase were harvested and washed with cold PBS twice, and then incubated in 0.075 M KCl at 37 °C for 20 min. Hypotonic cells were then centrifuged for 10 min at 1000 rpm and fixed in Cornoy’s fixative (methanol:acetic acid = 3:1) for 20 min at room temperature twice. Cells were resuspended with 0.5 mL Cornoy’s fixative and the suspension was dropped on a lean slide to release chromosomes. These slides were stained with 1% Giemsa solution for 5 min and mounted with neutral balsam (Sangon Biotech). All metaphase spread plates were imaged at a magnification of 1000x using a fluorescence microscope (Leica DM4000). Different types of chromosomal aberrations such as chromatid breaks and radial chromosomes were scored and calculated as percentage of chromosomal aberrations.
For micronucleus preparation, cells were grown on glass coverslips in a 6-well plate and washed gently with cold PBS twice after 24 h post-transfection. Cells were fixed with 4% paraformaldehyde and stained with DAPI. All plates were imaged at a magnification of 1000x using a fluorescence microscope (Leica DM4000). Micronuclei were defined as discrete DNA aggregates juxtaposed to primary nuclei in cells and the frequency of micronucleated cells was calculated.
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4

Epifluorescence Microscopy Imaging Protocol

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Specimens were imaged using an epifluorescence microscope (DM4000; Leica) equipped with DAPI, Endow GFP, and Texas red zero-pixel shift filter sets (Chroma Technology Corp.), a 63× 1.32 NA oil immersion objective, and a camera (CoolSNAP HQ; Roper Industries) controlled by MetaMorph 7. Z stacks were collected at 0.2 μm intervals and deconvolved using AutoDeblur (version X1; Media Cybernetics) for 10 iterations. Line scans (100 pixels wide) were performed using MetaMorph 7. For formalin-fixed, paraffin-embedded specimens stained as part of tissues microarrays, tiled images were collected on a DM4000 microscope equipped with Chroma filter sets (as above), a 20× HC PLAN APO NA 0.7 objective, CoolSNAP HQ2 grayscale CCD (for fluorescence) and Jenoptik ProgRes C10 Plus color CCD (for transmitted light) cameras, and a motorized xyz-stage (Ludl) controlled with custom MetaMorph 7 journals. Images were stitched using MetaMorph 7. Single images of H&E-stained slides were acquired using a MicroPublisher 5.0 CCD camera (Q Imaging) on a Leica DMLB microscope equipped with 10× NA0.25 and 40× NA0.65 HC FL PLAN objectives.
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5

Glucose Uptake Measurement in HepG2 Cells

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Glucose uptake was measured using the fluorescently labeled deoxyglucose analog, 2-NBDG, as described previously (38 (link)). Briefly, HepG2 cells were seeded into a 12-well plate and were maintained in a serum-free medium for 4 h. The test compound was added to each cell sample. Following treatments for 18 h, insulin (100 nM) was administered for 30 min. Next, HepG2 cells were treated with 200 μM 2-NBDG for 30 min incubation at 37°C and then washed 3 times with PBS. 2-NBDG-treated HepG2 cells were transferred into a black 96-well plate. The fluorescence was measured using the Tecan Spark multimode microplate reader (Tecan, Männedorf, Switzerland), set at an excitation wavelength of 488 nm and an emission wavelength of 542 nm. For 2-NBDG visualization analyses, HepG2 cells were cultured in a chamber slide. The cell nuclei were stained with Hoechst 33342 staining solution for live cells for 10 min. The image was taken using a fluorescent microscope (Leica DM4000, Germany). The mean fluorescence intensity was quantified using the StrataQuest software module (TissueGnostic, Vienna, Austria). The fluorescence intensity was normalized to the cell number with Hoechst 33342. The 2-NBDG-uptake of cells was expressed as a percentage of control cells.
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6

Evaluating HONE-1 Cell Proliferation

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EdU Apollo®488 In Vitro Imaging Kit (Ribo Bio, China) was used to evaluate the proliferation of HONE-1 cells. In according to the manufacturer’s advice, 5-ethynyl-20-deoxyuridine (EdU) with a final concentration of 50 mM was added and the cells were incubated at 37 °C for 2 h. Cell nucleus were stained with Hoechst for 15–30 min and visualized by a fluorescent microscope (Leica, DM 4000, Germany).
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7

Histological and Immunohistochemical Analysis of Pancreatic Tumours

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Samples were fixed in 10% neutral buffered formalin overnight and processed using the Leica Peloris Dual Retort tissue processor (Germany). Histological staining was performed on 4 μm sections deparaffinized in xylene and rehydrated using graded ethanol washes. Haematoxylin and eosin and picrosirius red (Polysciences, USA, #24901-250) staining were performed on a Leica Autostainer XL. Immunohistochemistry was performed using the Leica Bond RX system. Refer to Supplementary Table S1 for antibody details. For scoring of invasive index, migration modality, cell cluster and immunohistochemistry staining, three representative images per condition were acquired using a bright field microscope (Leica DM4000).
For immunofluorescence analysis, pancreatic tumour allograft cryosections (4 μm) were fixed in 100% acetone for 10 min at −20 °C and air-dried. Rehydrated sections were blocked and processed with antibodies as described in Supplementary Table S1. Slides were then mounted with Vectashield containing DAPI (Vector) and cells imaged using a Leica DMI 6000 SP8 laser scanning confocal fluorescence microscope. Staining specificity was shown with isotype controls.
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8

Double-Filtration Device Performance

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To investigate the performance of the double-filtration device, a mixture of 100 and 500 nm FNPs was sequentially injected into Devices I and II using a micropump (Longer Co., Ltd, Baoding, China). 500 μL of the mixture was first injected into Device I containing a single membrane with a pore size of 200 nm, and 500 μL of air was then flowed through the device. The resultant filtrate named Filtrate I was collected from the waste chamber using a tubing with an inner diameter of 0.5 mm. Filtrate I was subsequently injected to Device II, which contained a single membrane with a pore size of 30 nm, and 500 μL of air was flowed through the device. The resultant filtrate named Filtrate II was collected from the waste chamber. Finally, the number of 100 and 500 nm FNPs was counted under a fluorescence microscope (Leica DM4000, German) to verify the precision of size-exclusion of the double-filtration microfluidic device.
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9

Histological Assessment of Tissue Fibrosis

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Tissues were fixed with 4% formalin overnight, embedded in paraffin and cut into 6 μm slices. H&E and Masson staining (Masson’s trichrome staining kit, Sigma) were performed separately on consecutive tissue sections, and images were obtained using a microscope (Leica DM4000, Wetzlar, Germany). Quantification of fibrosis was conducted using ImageJ (NIH) as the percentage of blue collagen-stained area relative to the total tissue in one field.
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10

Optical Characterization of As-Grown Crystals

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General views of the as-grown crystals
were obtained at different magnifications by an optical microscope
(Leica DM4000). It includes a module for fluorescence characterization,
which consists of a mercury lamp and a Leica bandpass filter (340–380
nm) as illumination source, and an Avantes AvaSpec-2048 Fiber Optic
Spectrometer, which provides a resolution better than 0.5 nm. Photoluminescence
of sample areas containing many crystals were obtained by using this
setup.
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