Comprehensive protein-protein interaction maps promise to reveal many aspects of the complex regulatory network underlying cellular function.
This data set was compiled by von Mering et al. (see reference below), combining various sources. Only the interactions that have ‘high’ and ‘medium’ confidence are included here.
igraph graph object. Its graph attributes:
‘name’, ‘Citation’, ‘Author’,
‘URL’. ‘Classes’. The ‘Classes’
attribute contain the key for the classification labels of the
proteins, in a data frame, the original MIPS categories are given
after the semicolon:
energy production; energy
aminoacid metabolism; aminoacid metabolism
other metabolism; all remaining metabolism categories
translation; protein synthesis
transcription; transcription, but without subcategory ‘transcriptional control’
transcriptional control; subcategory ‘transcriptional control’
protein fate; protein fate (folding, modification, destination)
cellular organization; cellular transport and transport mechanisms
transport and sensing; categories ‘transport facilitation’ and ‘regulation of / interaction with cellular environment’
stress and defense; cell rescue, defense and virulence
genome maintenance; DNA processing and cell cycle
cellular fate / organization; categories ‘cell fate’ and ‘cellular communication / signal transduction’ and ‘control of cellular organization’
uncharacterized; categories ‘not yet clear-cut’ and ‘uncharacterized’
Vertex attributes: ‘name’, ‘Description’, ‘Class’, the last one contains the class of the protein, accoring to the classification above.
Note that some proteins in the network did not appear in the
annotation files, the ‘Class’ and ‘Description’
NA for these.
The data was downloaded from http://www.nature.com/nature/journal/v417/n6887/suppinfo/nature750.html.
Comparative assessment of large-scale data sets of protein-protein interactions. Christian von Mering, Roland Krause, Berend Snel, Michael Cornell, Stephen G. Oliver, Stanley Fields and Peer Bork. Nature 417, 399-403 (2002)
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