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Martin Graham, Colin Combe, Lars Kolbowski, Juri Rappsilber (Wellcome Centre for Cell Biology, Michael Swann Building, University of Edinburgh & Dept. of Bioanalytics, TU Berlin)
XiView is a visualisation tool for interactively viewing and querying protein structure data arising from Cross Linking Mass Spectrometry experiments. XiView uses proven visualisation techniques, notably Multiple Coordinated Views - whereby crosslinks are shown simultaneously in several sub-views, which can be categorised into those which show physical positioning such as a) protein networks, b) circos-type views and c) matrix (contact map) plots, and those which show crosslink attribute data, such as d) a histogram view and e) a scatterplot. The crosslink dataset can be filtered on various attributes, and individual or groups of crosslinks highlighted or selected in any of the views. These states are then propagated between and seen immediately in the other coordinated views. The results of several experiments may be viewed in aggregate, to show where they reinforce each other and also where they diverge. Loading a PDB file offers the use of an integrated NGL 3D viewer, which also acts as a coordinated view alongside the other representations. Distance data calculated from the PDB file can be used to verify crosslink data - as crosslinks should join proximal parts of a protein.