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)

