KastenmayerRaw            package:PCpheno            R Documentation

_D_a_t_a _f_r_o_m _K_a_s_t_e_n_m_a_y_e_r _e_t _a_l. _2_0_0_6

_D_e_s_c_r_i_p_t_i_o_n:

     Kastenmayer et al. (2006) undertook the first functional studies
     of small open reading frames (sORFs) in any system, using the
     model eukaryote Saccharomyces cerevisiae. Phenotypic analyses of
     the new gene-deletion strains identified 22 sORFs required for
     haploid growth, growth at high temperature, growth in the presence
     of a non-fermentable carbon source, or growth in the presence of
     DNA damage and replication-arrest agents.

_U_s_a_g_e:

     data(KastenmayerRaw)

_F_o_r_m_a_t:

     'Kastenmayer' is a 5 columns dataframe.


     _S_Y_S_T_E_M_A_T_I_C Systematic name of the sORF.

     _C_O_M_M_U_N Commun name of the sORF.

     _L_e_n_g_t_h Length of the small ORF sequence in number of amino acids.

     _E_v_i_d_e_n_c_e Experimental source of the data

     _r_e_f_H_o_m_o_l_o_g_y Bibliographical evidence of reported homology.

     _K_o_c_o_l_l_e_c_t_i_o_n Bibliographical evidence of reported homology.

     _E_S_S_E_N_T_I_A_L Indicates if the sORF knockout is essential.  A blank in
          this column indicates that the knockout is not-essential, if
          available.

     _G_F_P_T_A_P "GFP" or "TAP" signifies that sORF was detected by the
          indicated technique. "both" indicates that sORF was detected
          both as a TAP-tagged and GFP-tagged protein.  "None"
          indicates that sORF was not detected by either method. Empty
          field indicates that sORF was not tested

     _U_P_T_A_G Sequence of the upstream primer.

     _D_O_W_N_T_A_G Sequence of the downstream primer.

_A_u_t_h_o_r(_s):

     N. LeMeur

_S_o_u_r_c_e:

     Kastenmayer et al. (2006), supplementary information: <URL:
     http://www.genomeresearch.org> or  <URL:
     ftp://genome-ftp.stanford.edu/pub/yeast/systematic_results/phenotypes>

_R_e_f_e_r_e_n_c_e_s:

     Kastenmayer JP, Ni L, Chu A, Kitchen LE, Au WC, Yang H, Carter CD,
     Wheeler D, Davis RW, Boeke JD, Snyder MA, Basrai MA. (2006)
     Functional genomics of genes with small open reading frames
     (sORFs) in S. cerevisiae. Genome Res. 16(3):365-73. PMID: 16510898

_E_x_a_m_p_l_e_s:

     data(KastenmayerRaw)
     str(KastenmayerRaw)

