Matrix: Pajek/yeast

Description: Pajek network: yeast protein interaction network

Pajek/yeast graph
(undirected graph drawing)


Pajek/yeast
scc of Pajek/yeast

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  • Matrix group: Pajek
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  • download as a MATLAB mat-file, file size: 115 KB. Use UFget(1533) or UFget('Pajek/yeast') in MATLAB.
  • download in Matrix Market format, file size: 54 KB.
  • download in Rutherford/Boeing format, file size: 51 KB.

    Matrix properties
    number of rows2,361
    number of columns2,361
    nonzeros13,828
    # strongly connected comp.101
    explicit zero entries0
    nonzero pattern symmetrysymmetric
    numeric value symmetrysymmetric
    typebinary
    structuresymmetric
    Cholesky candidate?no
    positive definite?no

    authorS. Sun, L. Ling, N. Zhang, G. Li, R. Chen
    editorV. Batagelj
    date2003
    kindundirected graph
    2D/3D problem?no

    Additional fieldssize and type
    PIN_classfull 2361-by-1
    nodenamefull 2361-by-154

    Notes:

    ------------------------------------------------------------------------------
    Pajek network converted to sparse adjacency matrix for inclusion in UF sparse 
    matrix collection, Tim Davis.  For Pajek datasets, See V. Batagelj & A. Mrvar,
    http://vlado.fmf.uni-lj.si/pub/networks/data/.                                
    ------------------------------------------------------------------------------
     Yeast protein interaction / long names                                       
     ---------------------------------------                                      
     Dongbo Bu, etal.: Topological structure analysis of the                      
     protein-protein interaction network in budding yeast.                        
     Nucleic Acids Research, 2003, Vol. 31, No. 9 2443-2450                       
     http://www.bioinfo.org.cn/PIN/                                               
     http://www.imb-jena.de/jcb/ppi/PPI_PDF_free/bu2003.pdf                       
                                                                                  
     transformed in Pajek format: V. Batagelj, 25. July 2003                      
     -----                                                                        
     Yeast protein interaction / PIN class                                        
     -------------------------------------                                        
     Dongbo Bu, etal.: Topological structure analysis of the                      
     protein-protein interaction network in budding yeast.                        
     Nucleic Acids Research, 2003, Vol. 31, No. 9 2443-2450                       
     http://www.bioinfo.org.cn/PIN/                                               
                                                                                  
     transformed in Pajek format: V. Batagelj, 25. July 2003                      
     PIN class encoding:                                                          
     1-T, 2-M, 3-U, 4-C, 5-F, 6-P, 7-G, 8-D, 9-O, 10-E, 11-R, 12-B, 13-A          
     -----                                                                        
    

    SVD-based statistics:
    norm(A)19.4861
    min(svd(A))7.18759e-41
    cond(A)2.71108e+41
    rank(A)1,644
    null space dimension717
    full numerical rank?no
    singular value gap1.7232e+12

    singular values (MAT file):click here
    SVD method used:s = svd (full (A)) ;
    status:ok

    Pajek/yeast svd

    For a description of the statistics displayed above, click here.

    Maintained by Tim Davis, last updated 12-Mar-2014.
    Matrix pictures by cspy, a MATLAB function in the CSparse package.
    Matrix graphs by Yifan Hu, AT&T Labs Visualization Group.