testMEDMEset              package:MEDME              R Documentation

_D_a_t_a_s_e_t _o_f _c_l_a_s_s _M_E_D_M_E_s_e_t _f_o_r _t_e_s_t_i_n_g _M_E_D_M_E

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

     This dataset contains a subset of the data reported in references.
     It contains normalized un-smoothed probe-level MeDIP enrichment
     for almost 50000 probes. This is a random subset of a custom
     Nimblegen chromosome X tiling array. It is a two channels array
     with an resolution of 100bp and oligos of 60nt. The M value is
     reported only. The fullyMet column of the logR slot contains data
     from a calibration experiments where MeDIP has been applied to a
     fully methylated sample. The last two columns NBMEL and YUSAC2
     contain DNA-methylation experimental data for two cell strains:
     NBMEL are newborn normal melanocytes cells and YUSAC2 a melanoma
     strain. Data was processed with within and between array
     normalization. The full dataset contains almost 380K probes. See
     references for details. Chromosome, genomic position and logR of
     probes can be accessed with the methods chr, pos and logR
     respectively.

     Please note that the original genomic coordinates were mapped to
     the hg17 human genome. These have been converted to hg18 using the
     LiftOver USCS tool available online for batch conversion.

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

     data(testMEDMEset)

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

     MEDMEset

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

     <URL:
     http://genome.cshlp.org/cgi/content/abstract/gr.080721.108v1>

