Figure 3

Example query: search by gene. By clicking on the 'Genes' department store at the upper right corner of the mall, users can perform a gene-specific query. One can view the list of all genes in PAZAR by clicking on the 'View Gene List' button. Alternatively, users can search for a specific gene within all of PAZAR based upon several gene-specific identifiers. At the top of the 'Gene View' page is a summary table of all of the genes obtained from the search. Here, the results show that the queried gene (EnsEMBL gene ID ENSG00000131095) has annotations in two different projects. Below, users can find the details and all annotated regulatory sequences for each of the resulting genes individually as, in PAZAR, each boutique stays independent within the mall. By clicking on the regulatory sequence ID for a specific regulatory sequence, found in the far left column, users can access the PAZAR Sequence view for that sequence. In this view, data are color-coded, with gene-specific information presented in blue and sequence-specific data in orange. A gene-specific summary table is presented at the top of the page followed by a table detailing the regulatory sequence of interest. A third table summarizes the supporting experimental data for this regulatory sequence. Clicking on the Analysis ID found in the leftmost column of this table takes users to the PAZAR Analysis View, color-coded in green and containing a more in-depth description of the supporting experimental data.