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8 protocols using mouse anti ha ha 11

1

Investigating Endocytic Trafficking Pathways

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All reagents were purchased from Sigma-Aldrich (St. Louis, MO, USA), unless otherwise stated. The following antibodies were purchased from Cell Signal Technologies (Danvers, MA, USA): phospho-AKT S473 (#9271), AKT (#9272), phospho-mTOR S2481 (#2974), mTOR (#2972), LAMP1 (Clone D2D11, #9091), EEA1 (#2411), Rab7 (Clone D95F2, #9367), Rab11 (Clone D4F5, #5589), β-actin (Clone 13E5, #4970), anti-rabbit IgG HRP (#7074), and anti-mouse IgG HRP (#7076). The following antibodies were purchased from Abcam (Cambridge, UK): phospho-GSK-3β S9 (ab131097), GSK-3β (Clone 3D10, ab93926), and megalin (ab76969). Mouse anti-HA (HA.11) was purchased from Covance (Princeton, NJ, USA). The following fluorescent antibodies were obtained from Thermo Fisher Scientific (Waltham, MA, USA): anti-rabbit IgG Alexa Fluor Plus 488 (A32731), anti-rabbit IgG Alexa Fluor Plus 594 (A32754), anti-mouse IgG Alexa Fluor Plus 488 (A32723), and anti-mouse IgG Alexa Fluor Plus 594 (A32744). Proteinuria and urinary creatinine colorimetric kits were purchased from Labtest (MG, Brazil). Wortmannin (CAS 19545-26-7) was purchased from Calbiochem (San Diego, CA, USA). MK-2206 (S1078) was purchased from Selleckchem (Houston, TX, USA). Albumin-fluorescein isothiocyanate (FITC) (A9771) was purchased from Sigma-Aldrich. DQ-Albumin Green (D12050) and shRNA for megalin (Ambion) were purchased from Thermo Fisher Scientific.
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2

Nef-TagRFP657 Localization Assay

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JTAg cells were electroporated with constructs expressing Nef-TagRFP657 or the control TagRFP657, Nef–HA, HA–glycoMa, SERINC5–GFP and Rab7–RFP as indicated. Then 48 h after transfection, cells were overlaid on poly-l-lysine coated glass slides, fixed with 4% paraformaldehyde and permeabilzed with 0.1% Triton X-100. The HA tag was detected by staining with mouse anti-HA (HA.11, Covance) and the secondary antibody Alexa 633 (Life Technologies). Images were acquired using a Leica TCS SP5 confocal microscope.
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3

Antibodies for Immunofluorescence and Analysis

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The following antibodies were used for immunofluorescence, FACS and immunoblot analysis: goat anti-Salmonella (CSA-1, Kirkegaard and Perry Laboratories), rabbit anti-DnaK [63 (link)], rat anti-HA (3F10, Roche), mouse anti-HA (HA11, Covance), mouse anti-FLAG (M2, Sigma-aldrich), rabbit anti-myc (Cell Signaling), mouse anti-β tubulin (Sigma-aldrich), rabbit polyclonal anti-GAPDH (Abcam), rabbit or goat anti-p65 (Santa Cruz), mouse anti- IĸBα (Cell Signaling), rabbit polyclonal anti-lamin B1 (Abcam), rabbit polyclonal anti-Xpo2 (CSE1L, Abcam), rabbit anti-Xpo1 (CRM1, Santa Cruz), rabbit anti-Xpo5 (Sigma-aldrich), rabbit anti-histone H3 (Abcam), rabbit anti-KPNA1 (Proteintech), mouse anti-p50 (Biolegend) and rabbit anti-STAT2 (Santa Cruz). Alexa Fluor 488-, 555- and 633- conjugated donkey anti-rat, anti-mouse, anti-goat and anti-rabbit antibodies were from Life technologies, UK.
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4

Antibody Characterization and Immunoblotting

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The primary antibodies used were mouse anti-HA HA11 (Covance), mouse anti-GFP (Roche Applied Science), mouse anti-FLAG M2 (Sigma), mouse anti-α-tubulin (Sigma), and mouse anti-epidermal growth factor receptor (Santa Cruz Biotechnology). Rabbit anti-EFA6R antibody was produced against a peptide representing the last 15 C-terminal amino acids of EFA6R and affinity-purified by using the immunizing peptide-coupled resin through a commercial vendor (Eurogentec). Cy3- and Cy5-conjugated anti-mouse IgG (Jackson ImmunoResearch Laboratories) secondary antibodies and TRITC-conjugated phalloidin (Sigma) were used for immunofluorescence. Horseradish peroxidase-conjugated anti-mouse and anti-rabbit IgG (GE Healthcare) secondary antibodies were used for immunoblotting. INSTA-Blot human tissues and Mowiol were from Merck Millipore. All other chemicals were from Sigma unless otherwise specified.
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5

Quantitative Western Blot Protocol

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For western immunoblotting, samples were fixed in TCA, acetone-washed and whole cell extracts prepared by bead-beating in TE containing protease inhibitors before running on SDS-PAGE and transferring to nitrocellulose membrane. Antibodies used were mouse anti-Ha (HA11, Covance) at 1:1000 dilution, mouse anti-GFP (Roche) at 1:1000, mouse anti-V5 (SV5-Pk1, Bio-Rad) at 1:2000, mouse anti-Flag (M2, Sigma) at 1:1000, rabbit anti-Pgk1 (lab stock) at 1:10000, rabbit anti-Kar2 (lab stock) at 1:20000, sheep anti-mouse-HRP (GE Healthcare) at 1:5000, donkey anti-rabbit-HRP (GE Healthcare) at 1:10000, donkey anti-mouse-IRDye 800CW (LI-COR Biosciences) at 1:10000 and donkey anti-rabbit-IRDye 680RD (LI-COR Biosciences) at 1:10000. Quantitative western blotting was performed using an Odyssey CLx Infrared Imaging System (LI-COR Biosciences) and quantified using ImageStudio 5.2.5 (LI-COR Biosciences).
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6

Antibody Immunofluorescence and ChIP Assays

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The following antibodies were used for immunofluorescence assays: mouse anti-GFP (LGB-1; Abcam), rabbit anti-RFP (ab62341; Abcam); mouse anti-Fibrillarin (38F3; Abcam), mouse anti-HA (HA.11; Covance) and rabbit anti-Rep1 (custom made; directed to a synthetic Rep1 peptide) (31 (link)). A mouse anti-Myc antibody (9E10; Covance) was used in the chromatin immunoprecipitation (ChIP) assays. Antibody dilutions ranged from 1:100 to 1:500 in individual assays, in accordance with initial standardization.
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7

Antibodies for Hedgehog Pathway Research

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Anti-Su(fu) (25H3) and anti-Fu (26F11) mouse monoclonal antibodies (mAbs) and anti-Cos2 rabbit polyclonal antiserum have been previously described [46 (link)]. Other antibodies used are: anti-Ci (2A1) rat mAb (a gift from R. Holmgren), rabbit anti-Lamin Dm0 (R836) (a gift from P. Fisher), anti-β-Tubulin mAb (E7) (Developmental Studies Hybridoma Bank), rat anti-HA (3F10) (Roche), mouse anti-HA (HA11) (Covance), mouse anti-V5 (Invitrogen), mouse anti-Myc (9E10), rabbit anti-Myc (A14) and rabbit anti-Sufu (Santa Cruz Biotechnology), mouse anti-FLAG (M2), mouse anti-acetylated α-Tubulin (Sigma), mouse anti-β-galactosidase (Promega), rabbit anti-GFP (Invitrogen), mouse anti-Nkx2.2, Foxa2 and Isl1/2 (Developmental Studies Hybridoma Bank), rabbit anti-Pax6 (Covance), guinea pig anti-Gli2 (a gift from J. Eggenschwiler), and rabbit anti-Gli2 (a gift from B. Wang).
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8

Immunofluorescence and Immunoblotting Protocols

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The following primary antibodies were used for immunofluorescence labeling or immunoblotting: mouse anti-ACBD3 (Sigma) at a 1:1,000 dilution for immunofluorescence labeling and a 1:3,000 dilution for immunoblotting; mouse anti-glyceraldehyde-3-phosphate dehydrogenase (anti-GAPDH) (Abcam) at a 1:1,000 dilution and mouse anti-Flag (M2; Sigma) at a 1:2,000 dilution for immunoblotting; rabbit antigiantin (Covance) at a 1:1,000 dilution, rabbit anti-TGN46 (LifeSpan Biosciences) at a 1:500 dilution, and goat anti-Salmonella antibody (CSA-1; Kirkegaard & Perry Laboratories) at a 1:200 dilution for immunofluorescence labeling; and mouse anti-HA (HA.11; Covance) at a 1:5,000 dilution for immunoblotting and a 1:1,000 dilution for immunofluorescence labeling.
Rhodamine Red X-conjugated donkey anti-mouse or anti-rabbit antibody, donkey anti-goat or donkey anti-rabbit–cyanine 2 (Cy2) antibody, and Cy5-conjugated donkey anti-mouse antibody were purchased from Jackson ImmunoResearch Laboratories, Inc. (West Grove, PA), for immunofluorescence labeling. Horseradish peroxidase (HRP)-conjugated goat anti-rabbit and goat anti-mouse antibodies were purchased from Dako for immunoblotting.
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