spotSegTest         package:spotSegmentation         R Documentation

_S_p_o_t _S_e_g_m_e_n_t_a_t_i_o_n _T_e_s_t _D_a_t_a

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

     The two columns of this data set represent the Cy3 (green)
     absorption  intensities for channel 1, and the Cy5 (red)
     absorption intensities for channel 2 for part of a dye-swap
     experiment with replicates. They measure expression levels of 
     cellular RNA transcripts assessed in CD4+ T cell lines at
     different  times after infection with HIV-1BRU using DNA
     microarrays.

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

     data(spotSegTest)

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

     Each column is a vector of intensities of 24 spots arranged in  4
     rows and 6 columns, encoded for compact (16-bit TIFF) storage. For
     processing each column of 'spotSegTest'  should first be converted
     to a 144x199 matrix, then applying the transformation described
     below.

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

     The intensities can be obtained from this data by first 
     subtracting them from 65535 (256*256-1), then squaring, then
     multiplying by  a scale factor 4.71542407E-05. In other words, a
     number 'x' in the 'spotSegTest' data set  corresponds to intensity
       (256*256 - 1 - x)^2*.0000471542407 . \

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

     Dr. Angelique van't Wout, Department of Microbiology,  University
     of Washington\ The data is a subset the first block of a 12 block
     array image ('001030_08_1.GEL') in the first data set ('2000095918
     A') in the first experiment ('CEM LAI vs HI-LAI 24hr') of the
     following data archive:\ <URL:
     http://expression.microslu.washington.edu/expression/vantwoutjvi2002.html>

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

     {van't Wout} AB, Lehrman GK, Mikheeva SA, O'Keeffe GC, Katze MG,
     Bumgarner RE,  Geiss GK, Mullins JI\ Cellular gene expression upon
     human immunodeficiency virus type 1 infection of CD4(+)-T-cell
     lines.\ _J Virol._ 2003 Jan;77(2):1392-402.

