A combinatorial code for CPE-mediated translational control

Maria Piqué, José Manuel López, Sylvain Foissac, Roderic Guigó and Raúl Méndez

Supplemental data web page
X. tropicalis
 H. sapiens
 M. musculus
H. sapiens-M. musculus pairs of homologs
Total
3073 16164 11765
4225
Repression
 729 (23.7%)
  3491 (21.6%)
  2007 (17.0%)
 437 (61.3%)
Activation
 914 (29.7%)
  3048 (18.9%)
  2057 (17.5%)
 469 (60.5%)
     1. Early
 852 (27.7%)  2896 (17.9%)
  1963 (16.7%)
 437 (59.3%)
          1.1 Strong
 479 (15.6%)
  1576 (9.8%)
  1162 (9.9%)
 238 (54.7%)
          1.2 Weak
 367 (11.9%)  1287 (8.0%)
  779 (6.6%)
 120 (41.3%)
          1.3 Biphasic
 6 (0.2%)  33 (0.2%)
  22 (0.2%)
 2 (18.1%)
     2. Late
 62 (2.0%)  152 (0.9%)
  94 (0.8%)
 16 (42.1%)
          2.1 Strong
 42 (1.4%)
  103 (0.6%)
  70 (0.6%)
 12 (42.8%)
          2.2 Weak
 20 (0.7%)
  49 (0.3%)
  24 (0.2%)
 4 (40.0%)

Table S1. Number (and proportion) of mRNAs classified in each category of translational control, for X. tropicalis, M. musculus and H. sapiens. An mRNA is classified in a category based on the arrangement of cis-acting elements present in its 3'-UTR (as described in Figure S4B). In the last column, a pair of homologs is assigned to a category only if the mouse and human homologs are both in the same category. The proportion is relative to the total number of mouse mRNAs in this category that have an identified human homolog.


FUNCTIONAL ANALYSIS: The known functions of the mRNAs identified for each translational control category, in the human and in the human-mouse "activation" groups, were analyzed with the Ontologizer tool (Grossmann, 2006) based on the functional annotations provided by the Gene Ontology project (Ashburner et al., 2000).



H.sapiens
activation group vs. total
 H.sapiens - M.musculus homologs
activation group vs. total
Gene Ontology analysis
 [table] [fig] [table] [fig]