The largest database of trusted experimental protocols

86 protocols using imagej

1

Protein-Protein Interaction Detection

Check if the same lab product or an alternative is used in the 5 most similar protocols
FLAG-mANGPTL8 and Pe-CFP-PIRB were transfected into 293-T cells using Lipo8000™ Transfection Reagent. After 24 h, 293-T cells were collected and lysed in ice-cold IP buffer (containing 50 mM Tris-HCl, pH 7.5, 150 mM NaCl, 1% Nonidet P40 (Np40), proteinase inhibitor (Roche), 0.1% SDS-Na) for 30 min. The lysates were sonicated and centrifuged at 13,000 × g for 15 min at 4 °C. The supernatants were collected and incubated with anti-FLAG-M2 agarose beads (Sigma) overnight at 4 °C. The beads were rinsed with ice-cold IP buffer three times and then heated at 95 °C in loading buffer, followed by western blot analyses. Images of the precipitated proteins were captured by a Bio-Rad imaging system and analyzed by Image J.
+ Open protocol
+ Expand
2

Immunoblotting Analysis of Signaling Proteins

Check if the same lab product or an alternative is used in the 5 most similar protocols
Cells were collected at 48 hours after transfection and performed a standard steps as previously described13 (link). Antibodies were used at the following dilutions and obtained from Santa Cruz Biotechnologies (CBL, 1:500; MET, 1:1000; EGFR, 1:1000; Ubiquitin, 1:1000; HA, 1:1000; and β-actin, 1:2000), Cell Signaling Technology (Danvers, MA) (p-EPHA2 Y772, 1:1000; p-CD79A Y182, 1:1000), Abcam (Cambridge, MA) (p-p85 Y607, 1:500), and OriGene Technologies (Rockville, MD) (p-PECAM Y713, 1:500). The immunoblotting results were quantified by ImageJ and Quantity Once software (Bio-Rad, Hercules, CA).
+ Open protocol
+ Expand
3

Genomic DNA Extraction from Embryos

Check if the same lab product or an alternative is used in the 5 most similar protocols
For each condition, four embryos were homogenized in 500 μl DNA extraction buffer (10 mM Tris pH 8.0, 0.2 mM EDTA, 0.5% SDS) supplemented with 100 μg/ml proteinase K and incubated at 55 °C overnight. Samples were extracted twice in one volume of phenol:chloroform:isoamyl alcohol (25:24:1) and once with chloroform. Genomic DNA was ethanol precipitated and resuspended in 15 μl H2O. Samples were incubated with 50 μg/ml RNase A and incubated at 37 °C for 2 h. Genomic DNA was run on 1% TAE agarose gel and visualized by staining with ethidium bromide. DNA was quantified using Quantity One software (BioRad) or ImageJ.
+ Open protocol
+ Expand
4

Scratch Wound Healing Assay in PC3 Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
PC3 cells (after transfection for 24 h) were trypsinized at 37°C until the cell layer was suspended and then centrifuged at 300 × g at room temperature for 5 min. The cells were resuspended in RPMI-1640 medium and seeded in a 6-well cell culture plate at a density of 4×105 cells/well. Upon the cells reaching 90–100% confluence, vertical linear scratches were made in the cell monolayer using a sterile 200-µl pipette tip. The suspended cells were removed by washing with PBS and the adhered cells were subsequently incubated with serum-free RPMI-1640 medium. Images of the scratches were photographed under an inverted light microscope with 10× magnification at 0 and 48 h. The percentage of the healed wound area was measured by ImageJ (version 5.0; Bio-Rad Laboratories, Inc.).
+ Open protocol
+ Expand
5

Radiographic Assessment of Spinal Alignment

Check if the same lab product or an alternative is used in the 5 most similar protocols
Demographic and clinical data were reviewed, including age, gender, height, weight, bone mineral density (BMD), and occupation history. All the data were collected by two residents from medical records or by telephone. For radiography, subjects were instructed to stand in a comfortable position, with the hips and knees fully extended [16 (link)]. Arms were flexed with the hands resting on supports at the level of their shoulders [16 (link)]. All radiographs were obtained in digital format. Parameters related to sagittal alignments were measured three times independently by a post-graduate student, a resident orthopedic surgeon, and a senior orthopedic surgeon, using Image J (Bio-Rad, Hercules, CA, USA). These investigators were blinded to patient information. Each parameter was measured by each of the three researchers, and an average value was calculated. BMD was indicated by a T score.
+ Open protocol
+ Expand
6

Western Blot Analysis of Apoptosis Regulators

Check if the same lab product or an alternative is used in the 5 most similar protocols
Western blot analysis was performed by standard methods as previously described29 (link). The antibodies against BCL-2, BCL-XL, MCL-1, BAX, BAK, cleaved caspase 3, cytochrome c, glyceraldehyde 3-phosphate dehydrogenase (GAPDH), Akt, p-Akt, and β-tubulin were purchased from Cell Signaling Technology. The antibodies against PARP, BIM, p53, MDM2, and PUMA were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). The antibody against BTK was purchased from ImmunoWay Biotechnology (JiangSu, China). The secondary anti-mouse and anti-rabbit antibodies were purchased from Santa Cruz Biotechnology. Antigen–antibody complexes were detected using Bio-Rad Clarity western ECL substrate, and protein level was quantified by ImageJ (Bio-Rad Laboratory, Hercules, CA, USA).
+ Open protocol
+ Expand
7

Immunofluorescence Analysis of Autophagy and Senescence

Check if the same lab product or an alternative is used in the 5 most similar protocols
Immunofluorescence analysis was carried out on the OCT compound embedded in the liver
cryosection. Sections were fixed with 4% paraformaldehyde (Sinopharm Chemical Reagent Co.,
Ltd, Shanghai, China) at 4°C for 30 min and then permeabilized with 1% Triton X-100 for 20
min. After three washes with PBS, the slices were blocked with 5% BSA blocking solution
and incubated with LC3B (cat. no. 3868) and p21 (cat. no. 2947) antibodies overnight at
4°C; these antibodies were purchased from Cell Signaling Technology (Danvers, MA, USA).
The cells were then washed in blocking solution and stained with FITC-conjugated
anti-rabbit IgG (Boster Biological Technology, Wuhan, China) for 1 h. Cell nuclei were
stained with honchest 33258 dye solution (Beyotime Institute of Biotechnology). Next,
samples were examined under a fluorescence microscope (Nikon D-FL-E, Tokyo, Japan).
Quantitation of ~300 cells containing fluorescein isothiocyanate FITC‐LC3 and FITC-p21
were analyzed by Image J (Bio-Rad Laboratories, Inc., Hercules, CA, USA).
+ Open protocol
+ Expand
8

Immunofluorescence Analysis of Kidney Tissue

Check if the same lab product or an alternative is used in the 5 most similar protocols
Tissues and immunofluorescence staining were performed according to the method previously described with a few adjustments (Li et al., 2021 (link)). Briefly, renal tissues were embedded in Tissue-Tek OCT compound, snap frozen in liquid nitrogen, and stored at −80°C till examination. To inspect the deposition of IgG, C3, C5b-9, and synaptopodin in glomeruli, 5 µm cryosections were immersed in acetone and washed in cold PBS. After blocking with 5% bovine serum albumin in PBS for 30 min, the cryosections were stained with IgG, C3, C5b-9, and synaptopodin overnight at 4°C, followed by goat anti-mouse IgG H&L (Alexa Fluor® 488). The cryosections were observed under confocal fluorescence microscope (Zeiss LSM710, Germany). Fluorescence intensity was measured in five randomly selected fields of six cryosections by ImageJ (Bio-Rad Laboratories, Hercules, CA, United States).
+ Open protocol
+ Expand
9

Placental Protein Expression Analysis

Check if the same lab product or an alternative is used in the 5 most similar protocols
Twenty to forty μg of total placental protein were loaded on Mini‐PROTEAN® TGX gel (Bio‐Rad) and resolved at 150 volts for 1 h. The proteins were transferred onto a polyvinylidene difluoride (PVDF) membrane (Bio‐Rad) and blocked with 5% powdered milk in tris buffered saline solution with 0.05% tween‐20 (TBST) for 1 h at room temperature (RT). Membranes were incubated overnight at 4°C with mouse monoclonal anti‐CD68 (1:500, Abcam Cat# ab201973, RRID:AB_2936513) and rabbit polyclonal anti‐CD206 (1:800, Abcam Cat# ab64693, RRID:AB_1523910). The following day, blots were washed with TBST and incubated with 1:5000 dilutions of horse radish‐peroxidase conjugated secondary antibodies (Goat Anti‐Mouse IgG Bio‐Rad Cat# 1706516, RRID:AB_2921252; Goat Anti‐Rabbit IgG Bio‐Rad Cat# 1706515, RRID:AB_2617112) for 1 h at RT. The blots were developed using Clarity ECL Western Substrate (Bio‐Rad) and imaged using ChemiDoc™ XRS+ Imaging System (Bio‐Rad). Membranes were permanently stained with 1% Amido Black for total protein lane quantification. Band expression and total protein expression were analyzed by densitometry (ImageJ, Bio‐Rad). Placental protein expression for CD68 and CD206 was standardized to total participant pooled protein lysate samples.
+ Open protocol
+ Expand
10

Bcl-2 and Bax Protein Quantification

Check if the same lab product or an alternative is used in the 5 most similar protocols
The Bcl-2 and Bax protein level in left ventricle sample was determined by western-blotting. Antibodies for Bcl-2 (sc-492) and Bax (sc-493) were purchased from Santa Cruz Biotechnology, INC., CA, USA. The protein bands were captured with an image processor using the Bio-Rad software (CA, USA) and the intensity of the bands was measured using ImageJ (NIH, USA).
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!