Recovery of genes and SNPs at the different stages of our process for screening for allelic imbalance

<p><b>Copyright information:</b></p><p>Taken from "Allelic imbalance in gene expression as a guide to -acting regulatory single nucleotide polymorphisms in cancer cells"</p><p></p><p>Nucleic Acids Research 2007;35(5):e34-e34.</p><p>Published online 31 Jan 2007</p><p>PMCID:PMC1865061.</p><p>© 2007 The Author(s).</p

Electrophoretic mobility shift assay images for the SNP alleles of the and genes

<p><b>Copyright information:</b></p><p>Taken from "Allelic imbalance in gene expression as a guide to -acting regulatory single nucleotide polymorphisms in cancer cells"</p><p></p><p>Nucleic Acids Research 2007;35(5):e34-e34.</p><p>Published online 31 Jan 2007</p><p>PMCID:PMC1865061.</p><p>© 2007 The Author(s).</p> Three lanes are shown for each SNP allele. From left to right these are: a control reaction with labeled probe only, a reaction containing both labeled probe and nuclear extract and a reaction where an unlabeled probe is added in excess as a competitor, in addition to the labeled probe and nuclear extract. For the and genes, the two lanes are shown: a reaction with labeled probe and nuclear extract and a reaction where the unlabeled competitor probe is added. The sequences of the allele-specific EMSA probes are given in

Volcano plot of the AI data from 105 heterozygous cSNPs in 13 cell lines

<p><b>Copyright information:</b></p><p>Taken from "Allelic imbalance in gene expression as a guide to -acting regulatory single nucleotide polymorphisms in cancer cells"</p><p></p><p>Nucleic Acids Research 2007;35(5):e34-e34.</p><p>Published online 31 Jan 2007</p><p>PMCID:PMC1865061.</p><p>© 2007 The Author(s).</p> AI for each SNP was determined by calculating the fluorescence signal ratio between the two alleles (/) in RNA (cDNA) and genomic DNA for each heterozygous SNP. The level of AI obtained by dividing the signal ratio in RNA by the corresponding ratio in DNA is plotted on the horizontal axis. The -value for the difference between allelic ratios in RNA and DNA based on five replicate assays is plotted on the vertical axis. Spots above the horizontal dashed line represent the SNPs showing AI at a -value < 0.0001 that were selected for further analysis