Chapter 8 — Nucleic Acid Detection and Genomics Technology
- Properties of Cyanine Dyes
- Premiere Cyanine Dyes for Ultrasensitive Nucleic Acid Detection and Quantitation
- Cell-Impermeant Cyanine Dimers: The TOTO Family of Dyes
- High Affinity for Nucleic Acids
- High Fluorescence Enhancements and High Quantum Yields upon Binding to Nucleic Acids
- Modifying the Dimers Creates Compounds with Different Spectral Characteristics
- Binding Modes of the Cyanine Dimers
- Working with Cyanine Dimers
- Live Cell–Impermeant Cyanine Monomers: The TO-PRO Family of Dyes
- Spectral Characteristics of the Cyanine Dye Monomers
- Binding of Cyanine Dye Monomers to Nucleic Acids
- Working with Cyanine Monomers
- Cell-Impermeant SYTOX Dyes for Dead-Cell Staining
- SYTOX Green Stain
- SYTOX Blue Stain
- SYTOX Orange Stain
- Cell-Permeant Cyanine Dyes: The SYTO Nucleic Acid Stains
- Chemically Reactive Cyanine Dyes
- Phenanthridines and Acridines: Classic Intercalating Dyes
- Cell-Impermeant Ethidium Bromide and Propidium Iodide
- Cell-Permeant Hexidium Iodide
- Cell-Permeant Dihydroethidium (Hydroethidine)
- High-Affinity Ethidium Homodimers
- Ethidium Monoazide: A Photocrosslinking Reagent
- Acridine Orange: A Dual-Fluorescence Nucleic Acid Stain
- AT-Selective Acridine Homodimer
- AT-Selective ACMA
- Indoles and Imidazoles: Classic Minor Groove–Binding Dyes
- DNA-Selective Hoechst Dyes
- AT-Selective DAPI
- Other Nucleic Acid Stains
- The Intercalators 7-Aminoactinomycin D and Actinomycin D
- Multicolor Hydroxystilbamidine
- Long-Wavelength LDS 751
- NeuroTrace Fluorescent Nissl Stains
- Data Table
- Product List
- ChromaTide Nucleotides
- Structures of the ChromaTide Nucleotides
- Biotin and Dinitrophenyl (DNP) ChromaTide Nucleotides
- Fluorescent ChromaTide Nucleotides
- Using ChromaTide Nucleotides in Enzymatic Labeling Methods
- Aminoallyl UTP and Aminoallyl dUTP
- 5-Bromo-2'-Deoxyuridine, 5-Bromo-dUTP (BrdUTP) and 5-Bromo-UTP (BrUTP)
- ULYSIS Nucleic Acid Labeling Kits
- ARES DNA Labeling Kits
- Chemical Labeling of Oligonucleotides
- Alexa Fluor Oligonucleotide Amine Labeling Kits
- Other Reactive Fluorescent Dyes and Quenchers
- Dyes for Sequencing Applications
- Labeling Phosphate-Modified Oligonucleotides
- Other Chemical Labeling Methods for Nucleic Acids
- Labeling Cytidine Residues
- Labeling the 3'-Terminus of RNA
- Labeling Abasic Sites with ARP
- Specialized Methods for Nucleic Acid Modification
- Product List
- Nucleic Acid Detection and Quantitation in Solution
- PicoGreen dsDNA Quantitation Reagent and Kits
- OliGreen ssDNA Quantitation Reagent and Kit
- RiboGreen RNA Quantitation Reagent and Kit
- Other Stains for Nucleic Acid Quantitation in Solution
- Cyanine Dyes and Phenanthridine Dyes for Nucleic Acid Quantitation in Solution
- Hoechst 33258 Dye for Quantitating DNA in Solution
- Real-Time Quantitative PCR Using the SYBR Green I Nucleic Acid Gel Stain
- A Useful Technique to Reduce Background Fluorescence in Nucleic Acid Detection
- Product List
- Nucleic Acid Detection in Gels
- SYBR Gold Nucleic Acid Gel Stain
- SYBR Green I Nucleic Acid Gel Stain
- SYBR Green II RNA Gel Stain
- SYBR Green Nucleic Acid Gel Stains: Special Packaging and a Starter Kit
- Ethidium Bromide
- Cyanine Monomers for Staining DNA in Electrophoretic Gels
- Cyanine and Ethidium Dimers for Staining DNA Prior to Electrophoresis
- Other Nucleic Acid Stains for Gel-Staining Applications
- Capillary Electrophoresis and Channel Electrophoresis
- Capillary Electrophoresis
- Product List
- Principles of Fluorescence In Situ Hybridization (FISH)
- Probe Preparation for FISH
- Enzymatic Incorporation of ChromaTide-Labeled Nucleotides
- Aminoallyl dUTP Labeling Using the ARES Kits
- Direct Chemical Labeling of Nucleic Acids Using the ULYSIS Kits
- Labeling Oligonucleotides
- Signal Amplification for FISH Using Secondary Detection Reagents
- Biotin and Streptavidin
- Signal Amplification Using Anti-Dye Antibodies
- Tyramide Signal Amplification (TSA)
- Signal Amplification Using Enzyme-Labeled Fluorescence (ELF) Technology
- Signal Amplification Using Two Rounds of Amplification
- Colorimetric Signal Amplification
- Counterstaining Chromosomes for FISH
- Gaskets for In Situ Hybridization Experiments
- Nucleic Acid Hybridization on Blots and Microarrays
- Labeling Nucleic Acid Samples for Microarray Experiments
- Consistent, Uniform Sample Labeling with ARES DNA Labeling Kits
- Fast and Easy Direct Labeling with ULYSIS Nucleic Acid Labeling Kits
- Fluorophore-Labeled Nucleotides
- Labeled Random Oligodeoxynucleotides
- Using Labeled Oligonucleotides as Biosensors on Solid Supports
- Secondary Detection for Signal Amplification
- Detecting Biotin Labels with Fluorescent Streptavidin Conjugates
- Signal Amplification with the ELF 97 Phosphatase Substrate
- Chemiluminescent Detection on Blots
- Other Types of Signal Amplification
- Techniques for Blot and Microarray Quality Control and Normalization
- SYBR DX DNA Blot Stain
- Nucleic Acid Stains for Microarrays
- Panomer Random-Sequence Oligonucleotides
- Sample Quantitation
- Hybridization Chambers for Microarrays
- Solution-Based Hybridization Assays
- Real-Time Quantitative PCR Using FRET and Quenching Techniques
- Other Solution-Based Hybridization Assays Using FRET and Quenching Techniques
- Other Solution-Based Hybridization Assays Using Fluorescent Nucleic Acid Stains
- Product List
- Nuclear Counterstaining of Fixed Cells and Tissues
- Blue-Fluorescent Counterstains
- Green-Fluorescent Counterstains
- Yellow-Fluorescent Counterstain
- Orange- and Red-Fluorescent Counterstains
- Long-Wavelength Nuclear Counterstains
- Cytological Nuclear Counterstain Kit
- Nuclear Counterstains for Live Cells and Unfixed Tissues
- Cell-Permeant Blue-Fluorescent Counterstains
- Cell-Permeant Green-Fluorescent Counterstains
- Cell-Permeant Orange- and Red-Fluorescent Counterstains
- Tracking Chromosomes through Mitosis
- Chromosome Counterstaining
- Red-Fluorescent Counterstaining for Green-Fluorescent Probes
- The Best Green-Fluorescent Counterstains
- Blue-Fluorescent Counterstaining for Multicolor Labeling
- Very Long-Wavelength Counterstains for Multicolor Labeling
- Chromosome Banding
- SYTOX Green
- Acridine Homodimer
- Other Dyes and Chromosome Banding Reagents
- NeuroTrace Fluorescent Nissl Stains
- Product List
- Nucleic Acid Conformational Analysis
- Examining the Behavior of Single Nucleic Acid Molecules
- DNA Binding Assays
- Electrophoretic Mobility-Shift (Bandshift) Assays
- DNA Binding Assays in Solution
- Selective Cleavage of Nucleic Acids with a Chemical Nuclease
- Assessing DNA Damage
- Comet (Single-Cell Gel Electrophoresis) Assay to Detect Damaged DNA
- TUNEL Assay for In Situ Detection of Fragmented DNA
- Microplate-Based Assays for DNA Damage
- Assays for Enzymes that Modify Nucleic Acids
- Gel-Based Assays for DNase Detection
- Solution-Based Assays for Nuclease Detection
- An Assay for Reverse Transcriptase Activity
- Telomerase
- Product List
