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13 protocols using cy3 affinipure goat anti rabbit igg h l

1

Immunofluorescence Localization of hnRNP Qs

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The localization of HA-tagged hnRNP Qs was determined through an immunofluorescence assay (IFA). 1×10 5 cells were seeded a day before transfection in a 12-well plate with a cover slip. After transfecting hnRNP Q plasmids for 24 hr, cells were fixed with 4% paraformaldehyde diluted in PBS for 20 min and permeabilized by 1% Triton X-100 diluted in PBS at room temperature for 5 min. To inactivate free aldehydes that might cause background signal, the coverslip was incubated in 1% BSA dissolved in PBST (PBS with 0.1% Tween 20) containing 0.3 M glycine at room temperature for 30 min. Before hybridizing with the primary antibody, the coverslip was further incubated with 1% BSA/PBST at room temperature for another 1.5 hr.
For primary antibody hybridization, HA (Covance, MMS101R, 1:1,000), hnRNP Q/R (Sigma, R5653, 1:5,000), or LIN28B (Cell Signaling, #4196, 1:5,000) was dissolved in 1% BSA/ PBST and incubated with the coverslip at 4˚C overnight. After washing three times with PBST, the coverslip was further incubated with Goat Anti-Mouse IgG H&L (Alexa Fluor 488; Abcam, ab150113, 1:1,000) or Cy3 AffiniPure Goat Anti-Rabbit IgG (H+L; Jackson ImmunoResearch, 111-165-144) at 37˚C for one hour followed by three additional washes, DAPI staining, and mounting.
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2

Immunohistochemical Localization of p65

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The brain slices (4 μm-thick) were laid flat on adhesive glass slides. Initially, the slices were permeabilized with 0.3 % Triton X-100 for 30 min and blocked with goat serum for 1 h. They were then incubated at 4 °C overnight with the primary antibodies, rabbit anti-p65 (1:200, Abcam) followed by incubation with the secondary antibodies, Cy3 anti-rabbit IgG (Cy3-AffiniPure Goat Anti-Rabbit IgG (H + L), 1:200, Jackson, USA) for 2 h at 25 °C. Each step was followed by three times of a 5-min washing in PBS. The prepared specimens were counterstained with DAPI for 10 min and scanned with a Pannoramic MIDI digital slide scanner for image creations (3DHISTECH, Hungary). The localization of p65 expression was analyzed using Caseviewer software (3DHISTECH, Hungary).
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3

Immunofluorescence Analysis of Cell Markers

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Antibodies against Nudt2 (#10484-1-AP, dilution 1:1000, Proteintech, Biotest, Israel), β-actin (#A1978, dilution 1:10000, Sigma-Aldrich, Israel), Ki-67[SP6] (dilution 1:100, ab16667), anti-alpha tubulin antibody (dilution 1:100, ab7291); PUREBLU™ DAPI dye (#135-1303, dilution 1:100, Bio-Rad, USA), Cy™3 AffiniPure Goat Anti-Rabbit IgG (H+L) (# 111-165-144,dilution 1:100, Jackson, USA), Cy™2 AffiniPure Donkey Anti-Mouse IgG (H+L) (#715-225-151, dilution 1:100, Jackson, USA), Phospho-Rb (Ser807/811) Antibody (#9308,CST,USA), Phospho-Rb (Ser795) Antibody (#9301,CST,USA), Rb (4H1) Mouse mAb (#9309,CST,USA)and E2F-1 Antibody (#3742,CST,USA).
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4

Immunofluorescence Imaging of NDUFA4L2 and Cytochrome C

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The NSCLC cell line A549 was plated on sheet glasses in a 6 mm plate. Cells on sheet glasses were fixed with 4% paraformaldehyde for 20 minutes and then washed three times with PBS. Cells were permeabilized with PBS containing 0.1% Triton X‐100 for 20 minutes and blocked in 5% bovine serum albumen for one hour. Sheet glasses were incubated with NDUFA4L2 and cytochrome C primary antibodies overnight at 4°C using the following dilutions: cytochrome C (mouse mAb, #12963, 1:200, Cell Signaling Technology) and NDUFA4L2 (rabbit polyclonal antibody, 1:25, Proteintech, Chicago, IL, USA). Sheet glasses were washed with tris‐buffered saline plus tween 20 three times and incubated with Cy3‐AffiniPure Goat Anti‐Rabbit IgG (H + L) and Alexa Fluor 488‐AffiniPure Goat Anti‐Mouse IgG (H + L) (Jackson ImmunoResearch, West Grove, PA, USA). Immunofluorescence was analyzed by fluorescence microscopy (Olympus BX51).
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5

Immunofluorescence Analysis of Prostate Tissue

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Prostate tissue samples were immediately fixed in ice-cold 4% formaldehyde supplemented with 1 tablet/10 ml of PhoSTOP (04 906 837 001; Roche). Prostate samples were embedded in paraffin, and 5-µm serial sections were cut. For histopathological analyses, paraffin sections were stained with H&E. For immunofluorescence staining, sections were processed as previously described (Ratnacaram et al., 2008 (link)), except that sections were incubated over night with primary antibodies diluted 1:200, unless indicated. Primary antibody used for immunofluorescence were directed against AKT pS473 (4060; Cell Signaling Technology), γH2AX (05-636; EMD Millipore; 1:600), p53 (CM5; Vector Labs), p53 pS15 (12571; Cell Signaling Technology), pHP1γ (2600; Cell Signaling Technology), RPA32 (GTX113004; Tebu-Bio), RPA32 pS4/S8 (A300-245A; Bethyl Laboratories), ATR (2790; Cell Signaling Technology), Ki67 (M7248; Dako), BrdU (600-401-C29; Rockland), ATM pS1966 (200-301-400; Rockland), Mdm2 (sc-965; Santa Cruz Biotechnology), Mdm2 pS166 (human)/pS163 (mouse; 3521; Cell Signaling Technology), PCNA (ab2426; AbCam), 53BP1 (NB100-305; Novus Biologicals). Secondary antibodies (CY3 AffiniPure goat anti–rabbit IgG [H+L], CY3 AffiniPure goat anti–mouse IgG [H+L], CY5 AffiniPure goat anti–mouse IgG [H+L], and CY5 AffiniPure donkey anti–rabbit IgG [H+L]) were from Jackson Immunoresearch.
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6

Immunofluorescent Staining of Cardiomyocytes

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Isolated cardiomyocytes were fixed with 4% paraformaldehyde for 3–5 min, washed with 0.01 M PBS and permeabilized with 0.5% Triton X-100 (Sigma, United States). After blocking with 10% normal goat serum (Solarbio, Beijing, China), cells were incubated with GPR43 (dilution 1:100, Cat# AFR-032, RRID: AB_2756592, Alomone labs, Israel) and the type 2 ryanodine receptor (RyR2, dilution 1:100, Cat# ab2827, RRID: AB_2183052, Abcam, United States) antibodies for 12 h in 4°C. After the primary antibody was washed, the Cy3 AffiniPure Goat Anti-Rabbit IgG (H + L) (dilution 1:100, Cat# 111-65-003, RRID: AB_2338000, Jackson, United States) and Fluorescein (FITC) AffiniPure Donkey Anti-Mouse IgG (H + L) (dilution 1:100, Cat# 715-095-150, RRID: AB_2340792, Jackson, United States) secondary antibodies were incubated at normal temperature for 1 h. Cells were spread evenly on slides and treated DAPI with Fluoromount-G (SouthernBiotech, United States). The images were acquired using a laser-scanning confocal microscope (LSM 800, Carl Zeiss, Germany).
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7

Quantifying HIF-1α and SDF-1 Expression

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HIF-1 alpha expression was measured in sections of the explanted constructs using immunofluorescence. The staining was carried out with HIF antibodies at a concentration of 1:200 (HIF-1α antibody, Alexa 546 coupled antibody, sc-13515, Santa Cruz Biotechnology, Inc. Heidelberg, Germany) according to the manufacturer’s protocol. Additionally, the expression of the SDF-1 was analyzed in the constructs using primary antibodies (CXCL12 polyclonal antibody, PA5-89116, InvitrogenTM / Thermo Fisher Scientific, Germany) at a concentration of 1:100 using secondary antibodies (Cy3-AffiniPure Goat Anti-Rabbit IgG (H+L), Jackson ImmunoResearch Laboratories, USA) at a concentration of 1:3000 according to manufacturer’s protocols.
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8

Immunofluorescence Analysis of SIRT1 and PCNA

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After osteogenic induction and treatment, BMSCs were washed with PBS and then fixed in 4% paraformaldehyde for 15 min at room temperature. The cells were permeabilized with 0.1% Triton-X 100 in PBS for 10 min. After blocking with 5% BSA (Sigma-Aldrich; Merck KGaA) for 1 h at room temperature, the cells were incubated with primary antibodies against SIRT1 (Abcam; cat. no. ab110304, 1:2,000) and PCNA (Abcam; cat. no. ab92552, 1:500) at 4°C overnight. The cells were then incubated with DAPI, Alexa Fluor® 488-AffiniPure goat anti-mouse IgG [H+L (Jackson ImmunoResearch Europe, Ltd.; cat. no. 115-545-003, 1:200] and Cy3- AffiniPure goat anti-rabbit IgG [H+L (Jackson ImmunoResearch Europe, Ltd.; cat. no. 111-165-003, 1:200)] at room temperature for 1 h. Images of cells were captured using a fluorescence microscope (Olympus Corporation; magnification, ×1,000).
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9

Imaging Dopaminergic Neurons in Drosophila Brains

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Adult brain dissections were performed as previously described [60 (link)]. Briefly, decapitated heads from 7‐week‐old flies were fixed in 4% formaldehyde in PTX (0.5% Triton X‐100, PBS) for 20 min, and washed five times for 2 min each in PTX. Dissected brains were fixed in 4% formaldehyde in PTX for 10 min, washed five times for 2 min each in PTX and then incubated with Tyrosine Hydroxylase (Merck, Kenilworth, NJ, USA, Cat #: Ab152, 1 : 400) and Cy™3 AffiniPure Goat Anti‐Rabbit IgG (H + L) (Jackson Immunoresearch, West Grove, PA, USA, Cat #: 111‐165‐003, 1 : 200) to detect dopaminergic neurons: Brains were then washed three times for 10 min each at room temperature and mounted in Vectashield for microscopy. Once coverslipped, Drosophila brains were imaged using the HC PL APO CS2 63x/1.4 objective using a zoom factor of 3.5 on the Leica TCS SP8 inverted confocal microscope. Z‐stack images were acquired using LAS X Navigator software.
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10

Chondrocyte ECM Expression Comparison

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To compare cartilage extracellular matrix (ECM) expression levels of chondrocytes at P1 and P3, cell-seeded coverslips of AUCs were firstly prepared. Briefly, after coverslips (24-mm diameter) were placed in a six-well plate, chondrocyte suspensions of P1 or P3 were added, and plates were cultured in an incubator with 5% CO2 at 37°C. After culture for 48 h, immunofluorescence staining of type II collagen (COL II), type I collagen (COL I), and type X collagen (COL X) was performed using rabbit polyclonal antibody (1:100 in PBS; ab34712, Abcam, Cambridge, United Kingdom), rabbit polyclonal antibody (1:500 in PBS; GB11022, Servicebio, China), and rabbit polyclonal antibody (1:200 in PBS; DF13214, Affinity Biosciences, United States), followed by incubation with Cy™3 AffiniPure Goat Anti-Rabbit IgG (H + L) (red, Jackson ImmunoResearch, West Grove, PA, United States). Alcian blue staining was performed to detect expression of glycosaminoglycans (GAG) following standard histological protocols (Cooke et al., 2018 (link)).
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