Thanks for your question!
A particularity of the Platform’s interface is that it will display direct or indirect evidence depending on which page you are looking at.
In this case, when you look at the associations page for diseases and phenotypes associated with MKS1, the Platform displays only direct evidence for the association between MKS1 and neoplasm, i.e. where each of these entities is specifically referred to.
However, when you click on the cell, the evidence page you land on displays both direct and indirect evidence for the association. The Platform uses the properties of our disease ontology (EFO) to gather evidence for MKS1 in neoplasm and any of its ontological descendants. In the evidence page, the evidence from GEL PanelApp is for renal fibrosis, and the evidence from PhenoDigm refers to CHILD Syndrome, rather than the more general term ‘neoplasm’.
Since these are indirect pieces of evidence, they will appear in the associationByDataTypeIndirect table.
You can find more information about this in our documentation.
Let me know if this has answered your question!