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2017 ; 8
(44
): 77121-77136
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MLACP: machine-learning-based prediction of anticancer peptides
#MMPMID29100375
Manavalan B
; Basith S
; Shin TH
; Choi S
; Kim MO
; Lee G
Oncotarget
2017[Sep]; 8
(44
): 77121-77136
PMID29100375
show ga
Cancer is the second leading cause of death globally, and use of therapeutic
peptides to target and kill cancer cells has received considerable attention in
recent years. Identification of anticancer peptides (ACPs) through wet-lab
experimentation is expensive and often time consuming; therefore, development of
an efficient computational method is essential to identify potential ACP
candidates prior to in vitro experimentation. In this study, we developed support
vector machine- and random forest-based machine-learning methods for the
prediction of ACPs using the features calculated from the amino acid sequence,
including amino acid composition, dipeptide composition, atomic composition, and
physicochemical properties. We trained our methods using the Tyagi-B dataset and
determined the machine parameters by 10-fold cross-validation. Furthermore, we
evaluated the performance of our methods on two benchmarking datasets, with our
results showing that the random forest-based method outperformed the existing
methods with an average accuracy and Matthews correlation coefficient value of
88.7% and 0.78, respectively. To assist the scientific community, we also
developed a publicly accessible web server at www.thegleelab.org/MLACP.html.