TAP complexes           package:apComplex           R Documentation

_A_P-_M_S _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:

     List of complex estimates after filtering baits prone to
     systematic bias

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

     data(gavin06FilteredEstimates)
     data(krogan06FilteredEstimates)

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

     'gavin06FilteredEstimates' contains results from an analysis of
     the AP-MS data published by Gavin et al. (2006).  These estimates
     were constructed using 'findComplexes' with a sensitivity
     parameter of .70, specificity of .999, and commonFrac=0.5  

     'krogan06FilteredEstimates' contains results from an analysis of
     the AP-MS data published by Krogan et al. (2006).  These estimates
     were constructed using 'findComplexes' with a sensitivity
     parameter of .70, specificity of .999, and commonFrac=1/3. 

     Both sets of estimates are reported as lists of length three,
     corresponding to MBME, SBMH, and UnRBB complex estimate types (see
     Scholtens et al., 2005). Each of the three elements contains a
     list of character vectors of estimated complex members.

_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:

     Gavin, et al. (2006)

     Krogan, et al. (2006)

_S_e_e _A_l_s_o:

     'gavinBP2006','kroganBPMat2006,\code{findComplexes}'

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

     data(gavin06FilteredEstimates)
     lapply(gavin06FilteredEstimates,FUN=length)

     data(krogan06FilteredEstimates)
     lapply(krogan06FilteredEstimates,FUN=length)

