Table 4 Test for associations of the inhibitory codon pairs in non-coding regions with mRNA decay rate, protein per mRNA, and ribosome occupancy
From: The link between adjacent codon pairs and mRNA stability
(A) Based on UTR annotations by Snyder and colleagues | ||||||
Spearman | Kendall | |||||
ρ | P value | Permutation P value | τ | P value | Permutation P value | |
mRNA decay rate (Cramer 1) | 0.03 | 6.3E-02 | 3.6E-02 | 0.02 | 6.3E-02 | 4.1E-02 |
mRNA decay rate (Cramer 2) | 0.01 | 5.1E-01 | 2.6E-01 | 0.01 | 5.1E-01 | 2.7E-01 |
mRNA decay rate (Gresham) | 0.00 | 9.6E-01 | 4.8E-01 | 0.00 | 9.6E-01 | 4.9E-01 |
mRNA decay rate (Coller) | 0.02 | 2.4E-01 | 1.3E-01 | 0.02 | 2.4E-01 | 1.3E-01 |
Protein per mRNA | −0.01 | 5.9E-01 | 3.0E-01 | −0.01 | 5.9E-01 | 3.0E-01 |
Ribosome occupancy | 0.00 | 9.6E-01 | 4.9E-01 | 0.00 | 9.6E-01 | 4.8E-01 |
(B) Based on UTR annotations by Steinmetz and colleagues | ||||||
Spearman | Kendall | |||||
ρ | P value | Permutation P value | τ | P value | Permutation P value | |
mRNA decay rate (Cramer 1) | 0.01 | 5.2E-01 | 2.7E-01 | 0.01 | 5.2E-01 | 2.7E-01 |
mRNA decay rate (Cramer 2) | 0.00 | 8.9E-01 | 4.4E-01 | 0.00 | 8.9E-01 | 4.5E-01 |
mRNA decay rate (Gresham) | 0.01 | 6.4E-01 | 3.3E-01 | 0.01 | 6.4E-01 | 3.2E-01 |
mRNA decay rate (Coller) | 0.01 | 4.5E-01 | 2.3E-01 | 0.01 | 4.5E-01 | 2.3E-01 |
Protein per mRNA | 0.01 | 6.9E-01 | 3.4E-01 | 0.01 | 6.9E-01 | 3.4E-01 |
Ribosome occupancy | 0.00 | 9.5E-01 | 4.8E-01 | 0.00 | 9.5E-01 | 4.7E-01 |