Figure 1Classification accuracy (%) of CFS for high-ranking features. KNN = k-nearest-neighbor; PSO, particle swarm optimization; SVM, support vector machine.
Figure 2Classification accuracy (%) with Chi-square feature selection. KNN = k-nearest-neighbor; SVM, support vector machine.
Figure 3Classification accuracy (%) with information gain feature selection. KNN = k-nearest-neighbor; SVM, support vector machine.
Figure 4Classification accuracy (%) with gain ratio feature selection. KNN = k-nearest-neighbor; SVM, support vector machine.
Figure 5Classification accuracy (%) with Pearson's correlation feature selection. KNN = k-nearest-neighbor; SVM, support vector machine.
Figure 6Classification accuracy (%) of four feature selection methods with support vector machine classifier.
Table 1Information on feature selection method.
Attribute evaluator |
Search method |
Correlation-based feature selector |
Re-ranking |
Best first |
Particle swarm optimization |
Tabu |
Pearson's correlation |
Ranker search |
Chi-square |
|
Information gain |
|
Gain ratio |
|
Table 2The number of the samples for each cancer type.
Cancer type |
Number of tumor samples |
Colon |
10 |
Pancreas |
9 |
Uterus |
10 |
B cell ALL |
26 |
T cell ALL |
18 |
Total |
73 |
Table 3Classification accuracy (%) for support vector machine classifier.
Relationshipa
|
Information gain |
Chi-square |
1:1 or n:1 |
89.04 |
89.04 |
1:n |
52.05 |
50.68 |
m:n |
94.52 |
93.14 |
Table 4Ten high-ranking miRNAs selected by the information gain method.
Probe ID |
Target sequence |
MiRNA name |
EAM250 |
AUGACCUAUGAAUUGACAGAC |
hsa-miR-215 |
EAM330 |
UGUAAACAUCCUCGACUGGAAGC |
hsa-miR-30a-5p |
EAM105 |
UCCCUGAGACCCUAACUUGUGA |
hsa-miR-125b |
EAM348 |
CAUCAAAGUGGAGGCCCUCUCU |
mmu-miR-291-5p |
EAM190 |
UACCCUGUAGAACCGAAUUUGU |
hsa-miR-10b |
EAM288 |
CCCUGUAGAACCGAAUUUGUGU |
mmu-miR-10b |
EAM366 |
UUCAGCUCCUAUAUGAUGCCUUU |
mmu-miR-337 |
EAM261 |
AUCACAUUGCCAGGGAUUACCAC |
hsa-miR-23b |
EAM260 |
AUCACAUUGCCAGGGAUUUCC |
hsa-miR-23a |
EAM381 |
UCGAGGAGCUCACAGUCUAGUA |
rno-miR-151* |
Table 5Ten high-ranking miRNAs selected by the Chi-square method.
Probe ID |
Target sequence |
cMiRNA name |
EAM250 |
AUGACCUAUGAAUUGACAGAC |
hsa-miR-215 |
EAM190 |
UACCCUGUAGAACCGAAUUUGU |
hsa-miR-10b |
EAM288 |
CCCUGUAGAACCGAAUUUGUGU |
mmu-miR-10b |
EAM105 |
UCCCUGAGACCCUAACUUGUGA |
hsa-miR-125b |
EAM366 |
UUCAGCUCCUAUAUGAUGCCUUU |
mmu-miR-337 |
EAM381 |
UCGAGGAGCUCACAGUCUAGUA |
rno-miR-151* |
EAM303 |
UACAGUAGUCUGCACAUUGGUU |
hsa-miR-199a* |
EAM336 |
AGGCAGUGUAGUUAGCUGAUUGC |
hsa-miR-34c |
EAM339 |
CACCCGUAGAACCGACCUUGCG |
hsa-miR-99b |
EAM260 |
AUCACAUUGCCAGGGAUUUCC |
hsa-miR-23a |
Table 6Seventeen low-ranking miRNAs selected by the information gain method.
Probe ID |
Target sequence |
MiRNA name |
EAM247 |
UAACAGUCUCCAGUCACGGCC |
hsa-miR-212 |
EAM252 |
UACUGCAUCAGGAACUGAUUGGAU |
hsa-miR-217 |
EAM254 |
UGAUUGUCCAAACGCAAUUCU |
hsa-miR-219 |
EAM259 |
UGUCAGUUUGUCAAAUACCCC |
hsa-miR-223 |
EAM283 |
UUCCCUUUGUCAUCCUUUGCCU |
mmu-miR-211 |
EAM293 |
CAUCCCUUGCAUGGUGGAGGGU |
hsa-miR-188 |
EAM306 |
UACUCAGUAAGGCAUUGUUCU |
mmu-miR-201 |
EAM308 |
UGGAAUGUAAGGAAGUGUGUGG |
hsa-miR-206 |
EAM309 |
GCUUCUCCUGGCUCUCCUCCCUC |
mmu-miR-207 |
EAM328 |
CAGUGCAAUAGUAUUGUCAAAGC |
hsa-miR-301 |
EAM331 |
UGUAAACAUCCUUGACUGGA |
hsa-miR-30e |
EAM337 |
CAAAGUGCUGUUCGUGCAGGUAG |
hsa-miR-93 |
EAM340 |
CUAUACGACCUGCUGCCUUUCU |
mmu-let-7d* |
EAM341 |
CAAAGUGCUAACAGUGCAGGUA |
mmu-miR-106a |
EAM346 |
CUCAAACUAUGGGGGCACUUUUU |
mmu-miR-290 |
EAM352 |
AAAGUGCUUCCCUUUUGUGUGU |
mmu-miR-294 |
EAM361 |
CCUCUGGGCCCUUCCUCCAGU |
hsa-miR-326 |
Table 7Seventeen low-ranking miRNAs selected by the Chi-square method.
Probe ID |
Target sequence |
MiRNA name |
EAM247 |
UAACAGUCUCCAGUCACGGCC |
hsa-miR-212 |
EAM252 |
UACUGCAUCAGGAACUGAUUGGAU |
hsa-miR-217 |
EAM254 |
UGAUUGUCCAAACGCAAUUCU |
hsa-miR-219 |
EAM259 |
UGUCAGUUUGUCAAAUACCCC |
hsa-miR-223 |
EAM283 |
UUCCCUUUGUCAUCCUUUGCCU |
mmu-miR-211 |
EAM290 |
UGGACGGAGAACUGAUAAGGGU |
hsa-miR-184 |
EAM293 |
CAUCCCUUGCAUGGUGGAGGGU |
hsa-miR-188 |
EAM308 |
UGGAAUGUAAGGAAGUGUGUGG |
hsa-miR-206 |
EAM309 |
GCUUCUCCUGGCUCUCCUCCCUC |
mmu-miR-207 |
EAM324 |
CAUUGCACUUGUCUCGGUCUGA |
hsa-miR-25 |
EAM328 |
CAGUGCAAUAGUAUUGUCAAAGC |
hsa-miR-301 |
EAM331 |
UGUAAACAUCCUUGACUGGA |
hsa-miR-30e |
EAM337 |
CAAAGUGCUGUUCGUGCAGGUAG |
hsa-miR-93 |
EAM340 |
CUAUACGACCUGCUGCCUUUCU |
mmu-let-7d* |
EAM341 |
CAAAGUGCUAACAGUGCAGGUA |
mmu-miR-106a |
EAM346 |
CUCAAACUAUGGGGGCACUUUUU |
mmu-miR-290 |
EAM352 |
AAAGUGCUUCCCUUUUGUGUGU |
mmu-miR-294 |