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Cyanine3 (cy3)

Manufactured by Wuhan Servicebio Technology
Sourced in China

Cy3 is a fluorescent dye used in various laboratory applications. It is commonly used as a labeling agent for proteins, nucleic acids, and other biomolecules. Cy3 has an excitation wavelength of approximately 550 nm and an emission wavelength of around 570 nm, making it suitable for detection and visualization purposes in various analytical techniques.

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16 protocols using cyanine3 (cy3)

1

Colocalization Analysis of Novel miRNA-2 and CPR1

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For the assessment of novel miRNA-2 and CPR1 colocalization, antisense RNA detection probes targeting novel miRNA-2 and the CPR1 gene were designed and labeled with the dual fluorophores Cy3 and FAM, respectively, at Servicebio Biotechnology Company (Wuhan, China). A scrambled sequence and the sense probe for the target gene were used as NCs. Two days after microinjection, the tick nymphs were dissected in cold PBS buffer, fixed overnight in 4% paraformaldehyde, and incubated overnight at 37°C for probe hybridization (Nuovo et al., 2009 (link); Yang et al., 2016 (link)). The tick samples were washed in PBS containing 5% Triton X-100 (v/v) for 10 min and stained with DAPI G1012 (Servicebio, Wuhan, China) at room temperature for 8 min. The signals of CPR1 and novel miRNA-2 were detected using an Eclipse CI upright fluorescence microscope (Nikon, Japan). The probes for the miRNA and target genes are listed in Table 1.
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2

Immunofluorescent Labeling of Cellular Markers

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The paraffin sections were dewaxed and placed in a repair box of EDTA antigen retrieval buffer (PH8.0) for antigen retrieval in a microwave oven, and 3% BSA was used for blocking for 30 min, after which the blocking solution was discarded. Slides were placed in a wet box and incubated with the corresponding primary antibodies, including anti-CCL3 (1:40, AF-450-SP, R&D Systems), anti-CCR4 (1:200, sc-101375, Santa Cruz Biotechnology), and anti-E-cadherin (1:200, 14472S, CST) at 4°C overnight. The slides were then incubated with the secondary antibodies CY3(G1223, Servicebio, Wuhan, China), FITC (G1222, Servicebio), and CY5(GB27303, Servicebio), and incubated at room temperature for 50 min in the dark. The slides were then incubated with DAPI solution at room temperature for 10 min to stain the nuclei. The fluorescent images were observed and preserved using a fluorescence microscope.
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3

Immunofluorescence staining of mouse brain

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After behavioral tests, mice were perfused. They were sequentially perfused with 40 ml of normal saline and 40 ml of a 4% paraformaldehyde solution (0.1 mol/L PBS, pH 7.4) through the ascending aorta after anesthesia with chloral hydrate. The mouse brain was fixed in 4% paraformaldehyde solution for more than 24 h, then dehydrated in gradient alcohol. Brain slices (thickness: 4 µm) were cut using a Frozen platform (JB-L5, Wuhan Junjie Electronics Co., Ltd., China) and collected in an EDTA antigen retrieval solution (pH 8.0). Next, the brain slices were rinsed with PBS (pH 7.4) three times for 5 min, then placed in 3% BSA and incubated at room temperature for 30 min. The brain slices were transferred into PBST with a primary antibody (Anti-P2X7R, 1:200, Bioss; Anti-Iba1, 1:500, Servicebio; Anti-Brdu, 1:200; Servicebio) and incubated at 4°C overnight. After rinsing with PBS (pH 7.4) for 5 min three times, the brain slices were transferred into PBS (pH 7.4) with a secondary antibody (FITC, 1:400, Servicebio; Cy3, 1:400, Servicebio) and incubated in the dark at room temperature for 50 min. For immunofluorescence staining, the patches were rinsed three times with PBS for 5 min three times, then dried with a 4’, 6-diamidino-2-phenylindole staining solution. Images were obtained using an Ortho-Fluorescent Microscopy (Nikon Eclipse C1, Nikon, Japan).
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4

FISH Assay for Ier2 Gene Expression

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The cell slides were fixed with 4% paraformaldehyde for 20 min, washed three times with 1 × PBS for 5 min each time, and digested with protease K, washed three times with 1 × PBS for 5 min each time. Subsequently, slides were pre-hybridized with pre-hybridization buffer for 1 h at 37 °C. Thereafter, cells were hybridized in hybridization buffer containing specific FISH probes (2.5 μl, 20 μM) at 37 °C overnight. Afterward, the cells were washed in gradient decreasing concentration of SSC buffer at 37 °C (2 × SSC buffer for 10 min, 1 × SSC buffer for 5 min twice, 0.5 × SSC buffer for 10 min). After counterstaining with DAPI, we mounted and visualized the stained coverslips under a confocal microscope (Zeiss, LSM510, Jena, Germany). The Ier2 probe (5′-CACTTGTAGGGGCCGA AACGCGAATGCTAGTGAAA-3′) was constructed and labeled with Cy3 by Servicebio (Wuhan, China).
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5

Immunofluorescent Staining of Liver Macrophages

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Liver sections were deparaffinized, rehydrated, and blocked with 5% bovine serum albumin (BSA) for 1 hour at room temperature. After washing, the tissue slices were incubated overnight at 4°C with primary rabbit antibodies against F4/80 (1:5000, Servicebio), CD206 (1:400, Servicebio), and iNOS (1:200, Servicebio). After washing with PBS, the slices were incubated at room temperature for 1 h with goat anti-rabbit secondary antibodies labeled with HRP (1:500, Servicebio) or Cy3 (1:300, Servicebio). Nuclei were stained with DAPI (Sigma-Aldrich). Fluorescence images were obtained with a DM6B microscope (Leica Microsystems, Milan, Italy) and analyzed by ImageJ.
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6

Immunostaining of Skin Stem Cells

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Photosensitive resin was purchased from Ausbond (Shenzhen, China). Hair removing cream of VEET was obtained from Reckitt Benckiser Plc. (Wuhan, China). Isoflurane was purchased from Shenzhen Reward Life Technology Co., Ltd. (Shenzhen, China). MXD liniment (2%) was purchased from Sichuan Medco Huakang Pharmaceutical Co., LTD. (Sichuan, China). DAPI-containing antifluorescence quenching tablets were obtained from Beyotime Biotechnology (Shanghai, China). Cell-Counting Kit-8 was purchased from Dalian Meilunbio Co. Limited. (Dalian, China). Clodronate disodium was obtained from ShangHai YuanYe Biotechnology Co., Ltd. (Shanghai, China).
The following antibodies were used for immunostaining: primary antibody: anti-β-Catenin (Wanlei bio, WL 0962a, 1:200), anti-CK15 (HuaBio, ET1609-54, 1:100), anti-Ki67 (ThermoFisher Scientific, 14-5698-80, 1:200), and anti-F4/80 (Servicebio, GB113373, 1:500). Secondary antibodies: fluorescence conjugates with rhodamine (ZSGB-BIO, 1:100), Cy3 (Servicebio, 1: 200), and FITC (ZSGB-BIO, 1:100).
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7

Immunofluorescence Staining of Brain Tissue

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Brain tissue samples were washed with PBS three times and sealed with 5% BSA blocking solution at room temperature for 1 h. The corresponding primary antibody was selected to incubate the sectioned tissue, and the antibody information is as follows: LC3 (GB13431, Servicebio, China), Lamp1 (bs-1970R, Bioss, China), NLRP3 (GB11300, Servicebio, China), Caspase-1 (GB11383, Servicebio, China), IL-1β (GB11113, Servicebio, China), IBA-1 (GB12105, Servicebio, China), and iNOS (GB11119, Servicebio, China). The samples were then refrigerated overnight at 4°C. The next day, the slices were cleaned three times, and the secondary antibody Fitc (G1222, Servicebio, China) or Cy3 (GB123, Servicebio, China) was incubated at room temperature in the dark for 1 h. DAPI was used to stain the tissues’ nuclei, and the samples were cleaned and sealed with a cover glass. A fluorescence microscope was used to observe and collect fluorescence images. The fluorescence intensity was analyzed by ImageJ software (Meng et al., 2016 (link)).
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8

Fluorescent Visualization of Bacterial Colonization in Mouse Pancreas

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The EUB338 16S rRNA probe labeled with the fluorophore Cy3 (extinction wavelength, 555 nm; emission wavelength, 570 nm; Servicebio, China) was used to detect the bacterial colonization within mouse pancreatic tissues by FISH. Nuclei were stained with DAPI (G1012, Servicebio). Fluorescence microscopic analysis was conducted with Nikon Eclipse 90i confocal microscope (Nikon, Melville, NY) using a Cy3 labeled-probe at 1μM as described [51 (link)–53 ].
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9

Immunofluorescent Localization of RABV P Protein

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The expression of the P protein in brain tissues was determined by immunofluorescence staining, serving as a marker for RABV within the brain tissue. Brain tissue paraffin sections were deparaffinized in xylene, rehydrated through a series of ethanol/water, and then incubated in 3% H2O2 at room temperature. Subsequently, the sections were placed in a 10 mM sodium citrate buffer (pH 6) and subjected to antigen retrieval at 95°C for 1 h. A 30 min blocking step with saturated BSA followed. The primary antibody against RABV P protein was incubated for 2.5 h at 37°C in a humidified chamber, followed by detection using a secondary antibody conjugated with Cy3 (Servicebio). Images were captured using a LEICA Versa 200 microscope and processed using Caseviewer C. V 2.4 and Image-Pro Plus 6.0 software.
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10

Immunostaining of Vascular Cells

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The fixations of VICs were carried out with 4% paraformaldehyde. Triton X-100 (0.5%) was used for permeabilization. Primary antibodies from Vimentin (Santa Cruz; 1:1,000 dilution), α-SMA (Affinity; 1:1,000 dilution), to CD31 (Abcam; 1:50 dilution) were incubated overnight at 4°C on a shaker. Next, relevant secondary antibodies labeled with Cy3 (Servicebio; 1:500 dilution) were incubated for 1 h at RT. The nuclei were stained with 4′,6-diamidino-2-phenylindole (Servicebio; 1:500 dilution). Fluorescent images were captured using an inverse fluorescent microscopy.
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