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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
  1. (A) Spearman’s and Kendall’s correlation coefficients to assess an association between the presence/absence of hexanucleotide sequences corresponding to the inhibitory codon pairs in 3’ UTR regions. The UTR annotations are based on a study by Snyder and colleagues [17]. P values obtained according to Kim [16] and those based on permutation tests are shown. (B) Same as (A) but for UTR annotations based on a study by Steinmetz and colleagues [18]