Rapid and Reliable Methylation Detection in Archival Tissue Samples using High-Resolution Melting Analysis

27 Jun 2013

Promoter hypermethylation is a frequent mechanism for the repression of gene transcription in cancer and is regarded as one of the hallmarks of cancer. Analysis of DNA methylation is a promising tool for early cancer detection, risk assessment and response to therapy. The most popular approaches for DNA methylation detection rely on the treatment of genomic DNA with sodium bisulfite. Several simpler PCR-based methods have also been developed which are especially important for small scale research labs. Download this application note to read about is high-resolution melting analysis (HRM), based on the “melting” properties of DNA in solution.

LightCycler ® 2.0 Instrument

The LightCycler® 2.0 Instrument allows you to monitor amplification of 32 PCR products simultaneously, in real-time and online, with six different detection channels. The LightCycler® Software 4.1 collects fluorescence data from all six channels at each cycle and displays it immediately. This enables you to terminate PCR runs early if signal levels are adequate, or prolong them when signals are too low. Amplification occurs in specially designed reaction capillaries. Their superior surface-to-volume ratio provides extremely rapid thermal transfer, which facilitates high-speed thermal cycling. The combination of LightCycler® Capillaries and the air-driven temperature control of the LightCycler® 2.0 Instrument ensures rapid PCR. An entire 35-cycle run can be performed in as little as 30 minutes (with 20 μl capillaries) to 60 minutes (with 100 μl capillaries).Fluorescence detection formats: The LightCycler® 2.0 Instrument is optimized for two fluorescence detection formats: SYBR Green I, HybProbe probes, and hydrolysis probes. In addition, the instrument supports a wide variety of other fluorescence detection formats, such as monocolor SimpleProbe probes and other formats based on FRET (fluorescence resonance energy transfer). However, it is essential that the fluorescent dyes used are compatible with the LightCycler® 2.0 optical unit. Software: The LightCycler® 2.0 Instrument utilizes the LightCycler® Software 4.1, an optimized version of the LightCycler® 4.0 and 4.05 Software, which provides advanced data-analysis modules, efficient data management, and effective data protection.

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LightCycler® 480 Real-Time PCR System

The Roche LightCycler 480 System - Another breakthrough in real-time PCR analysis of gene expression and melting curve-based mutation analysis.The Roche LightCycler 480 RT-PCR System combines amazing speed with exceptional accuracy and will meet the needs of a broad range of scientific applications in genomics research including array validation, gene-knockdown studies, and SNP analysis.This Roche Light Cycler PCR supports all current probe formats and applications and its built-in versatility allows adaptation to future technological advances in genomics research.Customer benefits from the Roche LightCycler® 480 System: Speed – rapid temperature control for superb specificity and yield.The LightCycler 480 PCR System utilizes a novel block technology to allow the rapid heating and cooling required to complete a 40-cycle, 384-well quantitative PCR run in less than 40 minutes and leads to extraordinary well-to-well temperature homogeneity and maximized inter-well, inter-cycle reproducibility. Accuracy – unbiased conditions for unambiguous results Special arrangement of optical components ensures the uniform collection of signals across the plate and makes analysis independent of sample position or differences in reaction volume. Versatility – utmost flexibility for maximum efficiency Five excitation and six emission filters of the Roche LightCycler allow you to work with the assay format of your choice, including SYBR Green I, hydrolysis probes, probes, probes, Molecular Beacons, and others. High-performance optical system from the LightCycler 480Fluorescence excitation by a high-intensity xenon lamp, and a specially developed signal-collection system, result in maximal sensitivity for any assay format in all channels. Additional Features of the LightCycler 480 PCR System: Customizable modular system concept Building on the principles of the well-established, performance-proven LightCycler® Software 4.0, the Roche LightCycler® 480 platform comes equipped with modules for run control, Tm calling, and absolute quantification. Further customize your system to your specific needs by adding separately offered advanced analysis modules. Especially developed reagents A tailor-made hot-start PCR enzyme master mix is available for each type of LightCycler® 480 application. Built on Roche Diagnostics’ performance proven FastStart technology, these reagents ensure optimal reproducibility and high dynamic ranges. Perfect integration into laboratory workflow Compatibility for automated sample-preparation, automated loading and connectivity to laboratory information management systems (LIMS) for integrated workflow monitoring offer uncompromising adaptability for a perfect fit.

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Genome AnalysisGenomics, the study of genomes, includes functional genomics, evolutionary genomics and comparative genomics. There are many genomic technologies such as DNA sequencing of whole genomes, computational biology and bioinformatics. DNA and nucleic acids must be isolated and concentrated from cells for analysis with kits, automated analyzers and software. Other useful technologies for studying genomics include PCR, microarrays and electrophoresis.PCR and Thermal CyclingPolymerase chain reaction (PCR) kits and thermal cyclers are used for the in vitro amplification of DNA permitting subsequent analysis and experimental procedures. Explore a range of high-quality polymerase, primers and nucleotides or simplify your workflow with a PCR mastermix. Find reverse transcription PCR (RT-PCR) and cDNA synthesis kits for RNA products and libraries. Quantitatively measure the amplification of DNA with real-time PCR (qPCR) and droplet digital PCR (ddPCR) kits and systems, and discover automated PCR setup solutions to increase throughput. Alternative DNA amplification methods also include recombinase polymerase amplification (RPA) kits. Find the best PCR kits and thermal cyclers and purification equipment in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.DNA SequencingDNA sequencing, such as sanger sequencing, is a biological technique that determines the precise order of nucleotide bases in a fragment or template of DNA. DNA sequencers and genetic analyzers are based on capillary electrophoresis, where labeled DNA fragments are electrophoretically separated by size as they migrate through a polymer. Find the best DNA sequencing products, including DNA sequencing kits, genomic libraries and genetic identity kits in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Gene Expression and Molecular CloningMolecular cloning is a set of techniques that utilizes vectors to transfer recombinant DNA into host cells and is an essential tool for investigating the expression of genes and proteins in bacterial or mammalian cells. A variety of vectors optimized for gene cloning and expression in a range of host organisms are available, alongside competent cells for genetic replication. Here, you can explore a range of molecular tools, high-quality genomic and cDNA libraries, premade clones, transformation and transfection reagents and mutagenesis or gene expression detection assays and expression arrays. Find the best gene expression and molecular cloning products in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.BiomarkersBiomarkers are biological markers which can be measured and evaluated to indicate a biological state. The use of biomarkers in research and diagnosis can indicate a normal or disease state or drug response of cells / tissues. Biomarkers include genetic markers, cell surface markers such as antigens, antibodies or receptors and secreted molecules such as cytokines. An assay system is required for identification of biomarkers. :Epigenetic AnalysisEpigenetic analysis products are used to study heritable phenotype changes that do not alter the DNA sequence, such as DNA modifications affecting gene activity. Determine whether genes have been methylated with DNA methylation quantification kits or methylation microarrays. Assess epigenetic regulation with histone modification kits or ChIP-on-chip microarrays. Kits are also available for bisulfite conversion and amplification of your samples, as well as epigenomic library preparation kits for next-generation sequencing (NGS). Find the best epigenetic products in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Cancer ResearchAlthough cancer is often referred to as a single condition, it actually consists of more than 100 different diseases. Microscopy, mass spectrometry, high throughput sequencing and flow cytometry are some of the most common techniques employed in cancer research labs.DNA MethylationMethylation