PD map update – October’16 edition

We are proud to announce the October'16 edition of the PD map. New content featured in this release is highlighted below. 

Submaps

We’ve added two entirely new submaps to the PD map – the one featuring genes curated in Parkinson's UK Gene Ontology Annotation Project, and one illustrating PD-relevant iron metabolism. To access them, you can search for “Gene Ontology genes” or “Iron Metabolism” terms in the “Search” tab, and click on the button in the left panel (see below).

 

 

You can also go directly to the “Submaps” tab and access the submaps directly. For that you need to change the set of visible tabs by clicking on the arrow as illustrated below. Then the “Submaps” tab becomes accessible, together with “Login” and “Project info”. With the “Submaps” tab active you can choose and display the submap of your choice. 

 

 

A small reminder – submaps are synchronized with the main PD map. This means that searched items, drug/chemical/miRNA targets and data overlays are also visible on displayed submaps.

 

Parkinson's UK Gene Ontology genes

In a close collaboration with the team Parkinson’s disease Gene Ontology Annotation project we developed a visualization of the genes they curate. You can follow this link to access the submap. In a nutshell, PD GO Annotation genes are grouped according to a selected set of PD-relevant GO terms and arranged in accord with the layout of the PD map. We hope that in this way our curation efforts can reinforce each other. Many thanks to Rebecca Foulger and Paul Denny for their support.

Iron metabolism

The newly introduced “Iron metabolism” submap (click here for access) is a follow up project that was initiated during the curation workshop with the team of Katrin Marcus from the MPC, Ruhr-University Bochum. The submap focuses on the PD-relevant mechanisms in Iron metabolism with special emphasize on neuromelanin granules and lipofuscin. Special thanks go to Caroline May and Sarah Plum from MPC.  

 

Content update

We’ve included recent publications into the PD map. One of the main highlights is the identification of a receptor for a-synuclein fibrils, LAG3, which provides more detail to our representation of the mechanism. Another important update concerns LRRK2 role in mitochondrial clearance. The PD map now features LRRK2 interaction with Miro and the role of the pathogenic G2019S mutation.

 

User comment highlights

Following the suggestions during our October’16 workshops we integrated mechanisms of CHCHD2 in the PD map in the context of mitochondrial function and apoptosis signaling. Other candidates suggested by the PD map users were PARP1 and PBX1, which we added in the nucleus. Other suggestions we implemented in this release were FBXO7 and SESN2.

 

We would like to thank our collaborators and the PD map users for their valuable support. Your guidance is vital! We hope for more support from you in developing the PD map.

 

Marek Ostaszewski

Curator/Developer

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