mouse                package:clValid                R Documentation

_M_o_u_s_e _M_e_s_e_n_c_h_y_m_a_l _C_e_l_l_s

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

     Data from an Affymetrix microarray experiment (moe430a) comparing
     comparing gene expression of mesenchymal cells from two distinct
     lineages, neural crest and mesoderm derived. The dataset consists
     of 147 genes and ESTs which were determined to be significantly
     differentially expressed between the two cell lineages, with at
     least a 1.5 fold increase or decrease in expression. There are
     three samples for each of the neural crest and mesoderm derived
     cells.

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

     data(mouse)

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

     A data frame with 147 observations on the following 8 variables.

     '_I_D' The Affymetric GeneChip ID, from the moe430a chip

     '_M_1' Mesoderm derived cell sample 

     '_M_2' Mesoderm derived cell sample 

     '_M_3' Mesoderm derived cell sample 

     '_N_C_1' Nueral crest derived cell sample

     '_N_C_2' Nueral crest derived cell sample

     '_N_C_3' Nueral crest derived cell sample

     '_F_C' The functional class of each gene/EST

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

     V. Bhattacherjee, P. Mukhopadhyay, S. Singh, C. Johnson, J. T.
     Philipose, C. P. Warner, R. M. Greene, and M. M. Pisano. Neural
     crest and mesoderm lineagedependent gene expression in orofacial
     development. Differentiation, 2007.

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

     data(mouse)

     ## table of fuctional classifications
     table(mouse$FC)

     ## hierarchical clustering of expression values
     express <- mouse[,c("M1","M2","M3","NC1","NC2","NC3")]
     rownames(express) <- mouse$ID
     hc <- hclust(dist(express))
     plot(hc)

