MuscleExample           package:sigPathway           R Documentation

_S_u_b_s_e_t _o_f _I_n_f_l_a_m_m_a_t_o_r_y _M_y_o_p_a_t_h_y _D_a_t_a_s_e_t _t_o _D_e_m_o_n_s_t_r_a_t_e
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_D_e_s_c_r_i_p_t_i_o_n:

     'MuscleExample' is an R workspace containing the following
     objects: (1) 'tab':        a matrix of 5000 rows and 15 columns
     (2) 'phenotype':  a indicator vector which denotes which columns
     in 'tab' are arrays from normal (NORM) and inclusion body myositis
     (IBM) (3) 'G':          a list containing the source, title, and
     the probe set IDs associated with 626 pathways

     The full inflammatory myopathway dataset (which includes all probe
     sets and samples, including more NORM, IBM, and dermatomyositis
     arrays) and a more comprehensive pathway annotation list for the
     HG-U133A and other selected array platforms are available at <URL:
     http://www.chip.org/~ppark/PNAS05/>

     Although the objects contained in 'MuscleExample' are subsets of
     the full dataset, the results obtained from running pathway
     analysis with 'MuscleExample' are comparable to those obtained
     using the full dataset.  This example dataset contains 8 IBM and 7
     NORM arrays. The 5000 probe sets were selected by considering the
     variance of the expression values of each probe set among the 15
     arrays.

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

     data(MuscleExample)

_F_o_r_m_a_t:

     1 integer matrix, 1 numeric vector, and 1 list

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

     <URL: http://www.chip.org/~ppark/PNAS05/>

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

     Tian L., Greenberg S.A., Kong S.W., Altschuler J., Kohane I.S.,
     Park P.J. (2005)  Discovering statistically significant pathways
     in expression profiling studies.  _Proceedings of the National
     Academy of Sciences of the USA_, *102*, 13544-9.

     <URL: http://www.pnas.org/cgi/doi/10.1073/pnas.0506577102>

