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A simple method for estimating global DNA methylation using bisulfite PCR of repetitive DNA elements - http://nar.oxfordjournals.org/cgi/content/full/32/3/e38

Category: Epigenetics and Methylation Protocols: Bisulfite Treatment Methylation Assay Protocol

Yang et al, NAR. 2004. ue to the heavy methylation of repetitive elements, this assay was especially useful in detecting decreases in DNA methylation, and this assay was validated by examining cell lines treated with the methylation inhibitor 5-aza-2'deox - [Read A simple method for estimating global DNA methylation using bisulfite PCR of repetitive DNA elements]

A simple technique for quantifying apoptosis in 96-well plates - http://bmc.ub.uni-potsdam.de/1472-6750-5-12/

Category: Cell Biology and Cell Culture: Apoptosis Protocols

A simple technique for quantifying apoptosis in 96-well plates. Quantitative and Large scale assay. Ribble et al 2005. - [Read A simple technique for quantifying apoptosis in 96-well plates]

A specific endpoint assay for ubiquitin. - http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=304457

Category: Protein Protocols: Protein Ubiquitination Protocols

A specific endpoint assay for ubiquitin. Rose et al., Proc Natl Acad Sci U S A. 1987. Simple endpoint assays for free ubiquitin (Ub) and for the Ub-activating enzyme are described. . - [Read A specific endpoint assay for ubiquitin.]

Analysis of Cellular DNA Content by Flow Cytometry Protocol - https://catalog.invitrogen.com/index.cfm?fuseaction=iProtocol.unitSectionTree&treeNodeID=9E661C8A9C23374B5FAB0610666CCDFB&objectid=6674F58BDEF6DCA5276258FEA4CD534D

Category: Cell Biology and Cell Culture: Flow Cytometry Protocols: DNA Staining Protocols for Flow Cytometry

Simple and universally applicable methods for staining fixed cells are presented, as are methods that utilize detergents and proteolytic treatment to permeabilize cells. Additionally, supravital cell staining with Hoechst 33342, which is primarily used for sorting live cells for subsequent culturing based on DNA-content differences, is also described. Also presented are methods for staining of cell nuclei isolated from paraffin-embedded tissues, and deconvolution of DNA-content-frequency... - [Read Analysis of Cellular DNA Content by Flow Cytometry Protocol]

Antibody Addition to Drosophila Specimens and Detection Using Enzyme-Linked Reagents Protocol - http://www.cshprotocols.org/cgi/content/abstract/2006/23/pdb.prot4526

Category: Drosophila Protocols

Enzyme-linked reagents give excellent sensitivity and use a simple light microscope for detection. A range of enzymes is available, but for staining in situ, horseradish peroxidase will suit most needs. Diaminobenzidine (DAB) is one of the most sensitive substrates for horseradish peroxidase. It yields an intense brown product that is insoluble in both water and alcohol. It can be made more sensitive by adding metal salts such as cobalt or nickel to the substrate solution. - [Read Antibody Addition to Drosophila Specimens and Detection Using Enzyme-Linked Reagents Protocol]

Assay of ß-Galactosidase in Yeast: Freeze/Thaw Assay by Chemiluminescence in 96-Well Plates - http://www.cshprotocols.org/cgi/content/extract/2006/1/pdb.prot4160

Category: Reporter Gene Assays: B-Galactosidase Assay Protocols

Method described indicates how cells are lysed by a simple freeze/thaw protocol and treated with a chemiluminescent substrate. - [Read Assay of ß-Galactosidase in Yeast: Freeze/Thaw Assay by Chemiluminescence in 96-Well Plates]

Assay of ß-Galactosidase in Yeast: Freeze/Thaw Assay by Chemiluminescence in 96-Well Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/1/pdb.prot4160

Category: Yeast Protocols: Yeast Genetics Protocols: B-Galactosidase Assay Protocols

In this protocol the cells are lysed by a simple freeze/thaw protocol and treated with a chemiluminescent substrate. - [Read Assay of ß-Galactosidase in Yeast: Freeze/Thaw Assay by Chemiluminescence in 96-Well Protocol]

Assay of ß-Galactosidase in Yeast: Freeze/Thaw Assay by Chemiluminescence in Microcentrifuge Tubes - http://www.cshprotocols.org/cgi/content/extract/2006/1/pdb.prot4159

Category: Reporter Gene Assays: B-Galactosidase Assay Protocols

In the method described here, the cells are lysed by a simple freeze/thaw protocol and . . . - [Read Assay of ß-Galactosidase in Yeast: Freeze/Thaw Assay by Chemiluminescence in Microcentrifuge Tubes]

Assay of ß-Galactosidase in Yeast: Freeze/Thaw Assay by Chemiluminescence in Microcentrifuge Tubes - http://www.cshprotocols.org/cgi/content/extract/2006/1/pdb.prot4159

Category: Yeast Protocols: Yeast Genetics Protocols: B-Galactosidase Assay Protocols

In this protocol the cells are lysed by a simple freeze/thaw protocol. - [Read Assay of ß-Galactosidase in Yeast: Freeze/Thaw Assay by Chemiluminescence in Microcentrifuge Tubes]

Attaching Suspension Cells to Slides Using a Cytocentrifuge Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/21/pdb.prot4291

Category: Cell Culture Protocols: Cell Staining Protocols

A simple method for handling suspension cells is to attach them to a solid substrate before fixation, and one way to do this is to use a cytocentrifuge. - [Read Attaching Suspension Cells to Slides Using a Cytocentrifuge Protocol]

Bradford Protein Concentration Assay - http://web.chemistry.gatech.edu/~williams/bCourse_Information/4581/techniques/bradford/bradford.html

Category: Protein Protocols: Protein Quantitation Concentration Protocols: Bradford Protein Assay Protocols

Includes Abbreviations, Background, and Procedure steps using BSA. The Bradford protein assay (1) is one of several simple methods commonly used to determine the total protein concentration of a sample. The method is based on the proportional binding of the dye Coomassie to proteins. The assay is colorimetric; as the protein concentration increases, the color of the test sample becomes darker. Coomassie absorbs at 595 nm. - [Read Bradford Protein Concentration Assay]

Buffer Solutions and How they work... - http://www.chemguide.co.uk/physical/acidbaseeqia/buffers.html

Category: Buffers Media, and Solutions: Buffer Theory

This page describes simple acidic and alkaline buffer solutions and explains how they work. - [Read Buffer Solutions and How they work...]

CaCl2 Competent Cell Stock Protocol - http://www.bio.indiana.edu/~chenlab/potocols/CompetentCellStock.htm

Category: Microbiology: Bacterial Competent Cells Preparation E.Coli

Simple Protocol for CaCl2 Competent Cells. Chen Lab. Indiana University Bloomington - [Read CaCl2 Competent Cell Stock Protocol]

CALCIUM PHOSPATE TRANSFECTION OF HUMAN CELLS - http://omrf.ouhsc.edu/~frank/CAPO4TRANSFECT.html

Category: Cell Biology and Cell Culture: Cell Transfection Protocol

Simple Transfection using Calcium chloride and phosphate.Dr. Frank. Arthritis and Immunology Program, Oklahoma City. Medical Research Foundation. - [Read CALCIUM PHOSPATE TRANSFECTION OF HUMAN CELLS]

Chemotaxis Assay Using Microchemotaxis Chambers (Modified Boyden Chamber) - http://bioprotocol.bio.com/protocolstools/protocol.jhtml?id=p2158

Category: Signalling Signal Transduction Protocols: Chemokine Protocols

Simple apparatus to study chemotaxis of leukocytes or other migratory cells. Protocol for Chemotaxis. BioProtocol - [Read Chemotaxis Assay Using Microchemotaxis Chambers (Modified Boyden Chamber)]

Chemotaxis Protocol - http://dictybase.org/techniques/chemotaxis/Hadwiger_Protocol.pdf

Category: Immunology: Chemotaxis

Chemotaxis Protocol by Jeff Hadwiger. Dictyostelium Chemotaxis to Folate: a Simple Assay, from the Hadwiger Laboratory. Detailed Protocol. - [Read Chemotaxis Protocol]

Confocal Microscopy - Simple Definitions Queens Univ. - http://meds.queensu.ca/qcri/flow/imageanalysis.htm

Category: Molecular Imaging: Confocal Microscopy Protocols and Information

Confocal Microscopy - Simple Definitions Queens Univ.Image Analysis, Co-localization Analysis, 3D Reconstruction, Object Tracking, Timelapse - Confocal, Deconvolution. - [Read Confocal Microscopy - Simple Definitions Queens Univ.]

Culture Chambers for Live-Cell Imaging - http://www.microscopyu.com/articles/livecellimaging/culturechambers.html

Category: Microscopy Protocols: Live-Cell Imaging Protocols

Specimen chambers have had many designs published over the years describing systems that offer excellent optical properties while allowing specimens to be maintained for varying amounts of time. Ranging in complexity from the simple preparation of a sealed coverslip on a microscope slide to sophisticated perfusion chambers that enable tight control of virtually all environmental variables culture chambers are designed to to allow living specimens to be observed with minimal invasion at high res. - [Read Culture Chambers for Live-Cell Imaging]

Culture of Human Embryonic Stem Cells (hESC) - http://stemcells.nih.gov/research/NIHresearch/scunit/culture.asp

Category: Cell Biology and Cell Culture: ES Stem Cell Biology and Culture

Culture of Human Embryonic Stem Cells (hESC). one simple protocol outlined. NIH Stem Cell Unit - [Read Culture of Human Embryonic Stem Cells (hESC)]

Darkfield Illumination - http://microscopy.fsu.edu/primer/techniques/darkfield.html

Category: Microscopy Protocols: Optical Microscopy Protocols

The visibility of the faint star light is enormously enhanced against a dark background. This principle is applied in darkfield (also called darkground) microscopy, a simple and popular method for making unstained transparent specimens clearly visible. Such objects often have refractive indices very close in value to that of their surroundings and are difficult to image in conventional brightfield microscopy. - [Read Darkfield Illumination]

Dye Terminator Cleanup for Automated DNA Sequencing Reactions Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/1/pdb.prot4101

Category: DNA Protocols: DNA Sequencing Protocols

Protocol describes a simple procedure for purifying sequencing reactions using the MagneSil particles from Promega. - [Read Dye Terminator Cleanup for Automated DNA Sequencing Reactions Protocol]

Equilibrium Density Gradient Percoll Protocol - http://homepages.gac.edu/~cellab/chpts/chpt3/ex3-3.html

Category: Cell Biology and Cell Culture

Cell fractionation of cellular components using Percoll a synthetic, colloidal solution of polyvinylpyrrolidone coated silica, specifically designed for sedimentation centrifugation. Percoll becomes a simple matter to establish a linear density gradient. Organelle separations are much easier to accomplish on Percoll density gradients than on sucrose gradients. - [Read Equilibrium Density Gradient Percoll Protocol]

Flow cytometric determination of leukocyte surface antigens in whole blood - http://pingu.salk.edu/flow/protocols/wholeblood.html

Category: Cell Biology and Cell Culture: Flow Cytometry Protocols

Flow cytometric determination of leukocyte surface antigens in whole blood. Quantitation of cell surface antigens in whole blood with the flow cytometer is very simple and requires:
1. Blood collection; 2. Addition of antibody; 3. Calibration of the flow cytometer; 4. Making measurements. - [Read Flow cytometric determination of leukocyte surface antigens in whole blood]

Fluorescent Reagents for Live Cell Imaging and Their Introduction into Cells - http://www.cshprotocols.org/cgi/content/abstract/2006/29/pdb.ip20

Category: Microscopy Protocols: Fluorescence Microscopy Protocols

Most biological specimens are relatively transparent, so details of internal and intracellular morphology are difficult to image in untreated living specimens using simple bright-field techniques. Fluorescence microscopy offers greater advantages and possibilities for increasing contrast and determining the specific localization of molecules in cells. Article outlines the three methods most commonly used to introduce an appropriate label into Drosophila tissue without perturbing the process. - [Read Fluorescent Reagents for Live Cell Imaging and Their Introduction into Cells]

Fluorometric Quantitation of DNA Using Hoechst 33258 Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/1/pdb.prot4458

Category: Nucleic Acid Detection Protocols

Protocol describes the quantitation of DNA using Hoechst 33258, a fluorescent dye that binds to double-stranded DNA. Fluorometry is simple and more sensitive than spectrophotometry, and allows the detection of nanogram quantities of DNA. The assay can only be used to measure the concentration of DNAs whose sizes exceed ~1 kb, as Hoechst 33258 binds poorly to smaller DNA fragments. - [Read Fluorometric Quantitation of DNA Using Hoechst 33258 Protocol]

Articles (1-7 of 7)

Genomic DNA Labeling of Microarrays Protocol

DNA microarrays are an ordered arrangement of DNA molecules complementary to genes of interest that are "spotted" by robotic equipment onto a glass slide substrate. The expression of genes in cells can be monitored with microarrays by preparing cDNA from the mRNA of cells of interest and measuring the hybridization to the microarray. This protocol describes the labeling of genomic DNA for use as a probe for hybridization to the cDNA spotted on the array.