To perform that, the technical team of this database created a common platform called CMADES, by which the pathway editors could manually enter the connection map of a signaling pathway and automate various tasks such as keeping the record of data entry and pathway reconstruction.
A visualization option in Caret allows each connection map to be immediately displayed when any surface node within the target area is selected.
Although the distal-DHS-promoter connection map was established on the basis of an extensive panel of cells, this map does not cover the entire regulatory-element-promoter landscape for all tissues and cell lines.
As such, we built the regulatory block for each gene based on distal-DHS-promoter connection map (denoted as DHS-based regulatory block in this study).
Figure 3 shows the connection map between microRNA molecules and its target genes from temporal up-pattern and from temporal down-pattern.
For example, 1538 (of 3391) heart enhancers assigned to at least one heart gene could not be retrieved from this distal-DHS-promoter connection map.
The animation-assisted analysis involving the visualization of complex connection maps with an animation uniquely allowed us to integrate the information from all the pairwise comparisons that were possible with the microarray data obtained in this study.
They range from biological (e.g., protein interaction graphs, metabolic reaction networks, neuronal connection maps) over engineering (blueprints, circuit diagrams, communication networks) to social systems (friends, collaboration, or citation networks).
As an alternative framework of connectivity mapping, statistically significant connections' map (sscMap) was developed by Zhang and Gant in 2008, which adopted the concept and the reference profile data of the original CMap.
Similarly, the connectivity map showed a connection between TYMS 28bp repeats and 1494 6bp deletion polymorphisms.
