This web page was produced as an assignment for Genetics 564, an undergraduate capstone course at UW-Madison.
What is a transcriptome?
A transcriptome is composed of all of the RNA transcripts in a cell. RNA transcripts are produced by translation of a gene, which is composed of DNA. By observing transcriptomes, we can better understand which genes are on and off . The figure to the below demonstrates different RNA transcripts that make up the transcriptome in eukaryotes.
What can the transcriptome tell us about VHL?
GEO DataSets are composed of information from an original study. The information of the study can be observed using multiple tools that include comparing levels of gene expression and cluster heatmaps . To the right, there is a zoomed in picture of a heatmap. It shows the level of expression of thousands of genes in the different test subjects.
GEO Profiles are derived from GEO DataSets. These profiles show the expression of a single gene in all samples of a given data set . Unlike in the GEO DataSet, the samples that are treated with beta-catenin are clearly labeled and easier to observe. In this data, there is a noticeable increase in VHL expression when there is beta-catenin overexpression.
In the future, I could use this information to investigate how normal beta-catenin expression effects VHL. The methods of this study could also provide help information for future experiments pertaining to my research.
- National Human Genome Research Institute: Transcriptome. <https://www.genome.gov/13014330/>
- NCBI: About GEO DataSets. <https://www.ncbi.nlm.nih.gov/geo/info/datasets.html>
- NCBI: About GEO Profiles. <https://www.ncbi.nlm.nih.gov/geo/info/profiles.html>