From: Automatic learning of pre-miRNAs from different species
Feature | Feature set | |||||||
---|---|---|---|---|---|---|---|---|
FS1 | FS2 | FS3 | FS4 | FS 5 | FS6 | FS7 | Select | |
Di-nucleotide frequencies (XY, X,Y∈{A,C,U,G}) | x | |||||||
% G+C | x | x | x | |||||
Maximal length of the amino acid string without stop codons (orf) | x | |||||||
Percentage of low complexity regions (dm) | x | |||||||
Triplets | x | x | ||||||
Stacking triplets (X (((,X∈{A,C,G,U}) | x | |||||||
Motifs (s s−substrings) | x | |||||||
Minimum free energy of folding (MFE) | x | |||||||
Randfold (p) | x | |||||||
Normalized MFE (dG) | x | x | x | x | x | |||
MFE index 1 (M F E I 1) | x | x | x | x | x | |||
MFE index 2 (M F E I 2) | x | x | x | x | x | |||
MFE index 3 (M F E I 3) | x | x | x | x | ||||
MFE index 4 (M F E I 4) | x | x | x | |||||
Normalized Ensemble Free Energy (NEFE) | x | x | x | x | ||||
Normalized difference (M F E−E F E) (Diff) | x | x | x | x | ||||
Frequency of the MFE structure (Freq) | x | |||||||
Normalized base-pairing propensity (dP) | x | x | ||||||
Normalized Shannon entropy (dQ) | x | x | x | x | x | |||
Structural diversity (Diversity) | x | x | x | |||||
Normalized base-pair distance (dD) | x | x | ||||||
Average base pairs per stem (Avg_Bp_Stem) | x | x | x | |||||
Normalized A-U pairs counts (|A−U|/L) | x | x | x | |||||
Normalized G-C pairs counts (|G−C|/L) | x | x | x | x | ||||
Normalized G-U pairs counts (|G−U|/L) | x | x | x | x | ||||
Content of A-U pairs per stem (%(A−U)/s t e m s) | x | x | x | |||||
Content of G-C pairs per stem (%(G−C)/s t e m s) | x | x | x | |||||
Content of G-U pairs per stem (%(G−U)/s t e m s) | x | x | x | x | ||||
Cumulative size of internal loops (loops) | x | |||||||
Structure entropy (dS) | x | x | x | x | ||||
Normalized structure entropy (d S/L) | x | x | x | x | ||||
Structure enthalpy (dH) | x | |||||||
Normalized structure enthalpy (d H/L) | x | |||||||
Melting energy of the structure | x | |||||||
Normalized melting energy of the structure | x | |||||||
Topological descriptor (dF) | x | x | x | x | x | |||
Normalized variants (zG, zP and zQ) | x | |||||||
Normalized variants (zD) | x | x | x | |||||
Normalized variants (zF) | x | |||||||
Dimension | 48 | 21 | 7 | 32 | 1300 | 34 | 28 | 13 |
Reference | [21] | [21] | [33] | [23] | [34] | [35] | [19] | [12] |