title: xiNET: cross-link network maps with residue resolution.
abstract: xiNET is a visualization tool for exploring cross-linking/mass spectrometry results. The interactive maps of the cross-link network that it generates are a type of node-link diagram. In these maps xiNET displays: (1) residue resolution positional information including linkage sites and linked peptides; (2) all types of cross-linking reaction product; (3) ambiguous results; and, (4) additional sequence information such as domains. xiNET runs in a browser and exports vector graphics which can be edited in common drawing packages to create publication quality figures.
  
  
  BACKGROUND
  xiNET is open source, released under the Apache version 2 license. Results can be viewed by uploading data to http://crosslinkviewer.org/ or by downloading the software from http://github.com/colin-combe/crosslink-viewer and running it locally.
authors: From the ‡Wellcome Trust Centre for Cell Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3BF, United Kingdom;
authors: Colin W
authors: CW
authors: Combe
authors: From the ‡Wellcome Trust Centre for Cell Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3BF, United Kingdom;
authors: Lutz
authors: L
authors: Fischer
authors: From the ‡Wellcome Trust Centre for Cell Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3BF, United Kingdom; §Department of Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany juri.rappsilber@ed.ac.uk.
authors: Juri
authors: J
authors: Rappsilber
mesh_terms: D000596:Amino Acids / Q000378:metabolism*; D003432:Cross-Linking Reagents / Q000378:metabolism*; D013058:Mass Spectrometry; D060066:Protein Interaction Maps; D055503:Protein Multimerization; D017434:Protein Structure, Tertiary; D012984:Software; D019473:Transcription Factors, TFII / Q000737:chemistry / Q000378:metabolism
chemical_list: D000596:Amino Acids; D003432:Cross-Linking Reagents; D019473:Transcription Factors, TFII; C056604:transcription factor TFIIF
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