Cancer Genetics Protocols

Protocols and information related to cancer genetics. Including: Loss of Heterozygosity and Single-Strand Conformational Polymorphism(SSCP).

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Cancer Genetics Protocols Categories

Loss of Heterozygosity Protocols (2)

Single Strand Conformational Polymorphism(SSCP) Protocols (3)

Cancer Genetics Protocols Protocol Links Sort by: Hits | Alphabetical

An Alternatively Spliced Isoform of t(8;21) Transcript Promotes Leukemogenesis - http://www.natureprotocols.com/2006/08/03/an_alternatively_spliced_isofo.php

Describe the methods to identify and quantitate the specific A/E9a transcript in t(8;21) patients samples relative to the AML1-ETO transcript encoding the well known full-length 752 amino acid AML1-ETO protein (AE). Includes: RNA preparation and RT-PCR; Relative quantitation of the AE9a and the AE transcripts. - [Read An Alternatively Spliced Isoform of t(8;21) Transcript Promotes Leukemogenesis]

Anatomy of a Comparative Gene Expression Study - http://www.cs.wustl.edu/~jbuhler//research/array/

Anatomy of a comparative gene expression study. Includes: Choosing Cell Populations; mRNA Extraction and Reverse Transcription; Fluorescent Labeling of cDNA's; Hybridization to a DNA Microarray; Scanning the Hybridized Array; Interpreting the Scanned Image. - [Read Anatomy of a Comparative Gene Expression Study]

Applications of SKY in Cancer Cytogenetics Review - http://www.utoronto.ca/cancyto/protocols_software/cytogenetics/SKY.html

SKY has also been applied for the mouse genome, enabling investigators to extrapolate information from mouse models of cancer to their human counterparts. This review will address the advances that SKY has facilitated in the field of cancer cytogenetics, as well as its variety of application in the cancer research laboratories. - [Read Applications of SKY in Cancer Cytogenetics Review]

cDNA / AFLP - http://www.dpw.wau.nl/pv/aflp/cDNA-AFLP%20Protocol.htm

CDNA/AFLP. A tool for transcriptome analysis. - [Read cDNA / AFLP]

Clonality - X Chromosome Inactivation Assay Protocol - http://cgap-mf.nih.gov/Protocols/DNARNAProteomicAnalysis/DNA/DNAProtocols/Clonality.html

Investigators can utilize X chromosome inactivation (methylation) to determine the clonality status of a tumor or premalignant lesion in females. The technique is based on a methylation-sensitive restriction enzyme and analysis of a polymorphic locus on the X chromosome. Clonal cell populations will show "loss" of the non-methylated allele after restriction digest. The assay can be performed on DNA recovered from microdissected samples. Both frozen tissue and fixed-embedded tissue can be used. - [Read Clonality - X Chromosome Inactivation Assay Protocol]

Cutting Bands and Reamplification for Sequencing Protocol - http://genome-lab.ucdavis.edu/Protocols/Cutting%20Bands%20and%20Reamplification%20for%20Sequencing.htm

Protocol for cutting bands and reamplification for sequencing. - [Read Cutting Bands and Reamplification for Sequencing Protocol]

Determination of the CpG Island Methylator Phenotype (CIMP) in Colorectal Cancer using MethyLight - http://www.natureprotocols.com/2006/06/30/determination_of_the_cpg_islan.php

Detailed, step-by-step protocol of the MethyLight assay for detection of CIMP with high sensitivity and specificity in colorectal cancer using a five marker panel composed of CACNA1G, IGF2, NEUROG1, RUNX3 and SOCS1. - [Read Determination of the CpG Island Methylator Phenotype (CIMP) in Colorectal Cancer using MethyLight]

DNA Extraction Technique for Biopsy Tissue Protocol - http://genome-lab.ucdavis.edu/Protocols/DNA%20extraction%20technique%20for%20biopsy%20tissue.htm

Protocol for DNA extraction technique for biopsy tissue. - [Read DNA Extraction Technique for Biopsy Tissue Protocol]

Serial Analysis Of Gene Expression (SAGE) - http://www.embl-heidelberg.de/info/sage/

SAGE is a new method that has been invented at Johns Hopkins University in USA to give scientists an overview of a cell’s complete gene activity. It works by capturing RNAs, identifying them and counting them. By comparing different types of cells, the researchers hope to generate profiles that will help them understand healthy cells and what goes wrong during diseases. Includes: How SAGE works and Steps of SAGE. - [Read Serial Analysis Of Gene Expression (SAGE)]