Krogan complexes          package:apComplex          R Documentation

_K_r_o_g_a_n _d_a_t_a _c_o_m_p_l_e_x _e_s_t_i_m_a_t_e_s

_D_e_s_c_r_i_p_t_i_o_n:

     Affiliation matrices with rows corresponding to proteins and
     columns corresponding to complexes.

_U_s_a_g_e:

     data(MBMEcKrogan)

_D_e_t_a_i_l_s:

     These are the results from an analysis of the AP-MS data (Krogan
     et al., 2004). These  estimates were constructed using
     'findComplexes' with a sensitivity parameter of .75, specificity
     of .99, and Beta=-0.2 for externally derived similarity measure
     based on Gene Ontology cellular component annotation (see
     Scholtens and Gentleman (2004)).

     'MBMEcHMSPCI' contains 82 multi-bait-multi-edge complex estimates.

_S_o_u_r_c_e:

     Scholtens D and Gentleman R.  Making sense of high-throughput
     protein-protein interaction data.  Statistical Applications in
     Genetics and Molecular Biology 3, Article 39 (2004).

     Scholtens D, Vidal M, and Gentleman R.  Local modeling of global
     interactome networks.  Bioinformatics 21, 3548-3557 (2005).

_R_e_f_e_r_e_n_c_e_s:

     High-Definition Macromolecular Composition of Yeast RNA-Processing
     Complexes; Molecular Cell, Vol 13, 225-239, 30 January 2004

_E_x_a_m_p_l_e_s:

     data(MBMEcKrogan)
     MBMEcKrogan[1:4,1:4]

