Cell Type Facet
The cell type facet allows you to filter the cREs in your search results based on their biochemical activities in a particular cell type, measured as DNase, H3K4me3, H3K27ac, or CTCF Z-scores in that cell type. Click a cell type to select it, and additional Z-score columns will appear in the cRE Search Results table for the DNase-seq or ChIP-seq data available in that cell type. You can search for a cell type using the search box above the table, but you still need to click the cell type to select it once you have found it. When a cell type is selected, simply click its name again to deselect it.For each cell type, the 2X2 colorful square on the right indicates which datasets are available in this cell type—green for DNase-seq, red for H3K4me3 ChIP-seq, yellow for H3K27ac ChIP-seq, and blue for CTCF ChIP-seq.Once a cell type is selected, you can use the Z-score facet below to filter search results based on biochemical activity in the selected cell type. By default, selecting a cell type filters the search results to only include elements with a DNase-seq Z-score of at least 1.64 (corresponding to the 95th percentile for a one-tailed test) in the selected cell type, if DNase-seq data is available for the selected cell type.
Coordinate Facet
The coordinate facet allows you to filter your search results based on genomic coordinate. To adjust the selected coordinates, you may either drag the sliders or type values into the textboxes. Above the slider, the histogram displays the distribution of cREs across the selected chromosome.
Z-score Facet
The Z-score facet allows you to filter your search results based on their DNase, H3K4me3, H3K27ac, and CTCF Z-scores. When no cell type is selected, the sliders filter cREs based on maximal Z-scores in each data type across all cell types. When a cell type is selected, their Z-scores in the selected cell type are used for filtering. A minimum Z-score of 1.64 (95th percentile) is recommended for filtering cREs based on activity in a given category.In some cases, a selected cell type may not have all four types of data available. In this case, the sliders for the missing data types will not display, and a message will appear above the cRE Search Results table explaining that some datasets are missing for the selected cell type.