afpCOOL: A tool for antifreeze protein prediction
| العنوان: | afpCOOL: A tool for antifreeze protein prediction |
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| المؤلفون: | Abbasali Emamjomeh, Javad Zahiri, Reza H. Sajedi, Ramin Shirali Hossein Zade, Morteza Eslami, Ghasem Mahdevar, Zeinab Takalloo |
| المصدر: | Heliyon, Vol 4, Iss 7, Pp e00705-(2018) Heliyon |
| بيانات النشر: | Elsevier, 2018. |
| سنة النشر: | 2018 |
| مصطلحات موضوعية: | 0301 basic medicine, Computer science, Bioinformatics, Transgenic technology, 010402 general chemistry, 01 natural sciences, Biochemistry, Article, Computational biology, 03 medical and health sciences, Antifreeze protein, Feature (machine learning), Mathematical biosciences, lcsh:Social sciences (General), lcsh:Science (General), Test setup, Multidisciplinary, Comparison results, digestive system diseases, 0104 chemical sciences, Support vector machine, 030104 developmental biology, lcsh:H1-99, Biological system, lcsh:Q1-390 |
| الوصف: | Various cold-adapted organisms produce antifreeze proteins (AFPs), which prevent the freezing of cell fluids by inhibiting the growth of ice crystals. AFPs are currently being recognized in various organisms, living in extremely low temperatures. AFPs have several important applications in increasing freeze tolerance of plants, maintaining the tissue in frozen conditions and producing cold-hardy plants by applying transgenic technology. Substantial differences in the sequence and structure of the AFPs, pose a challenge for researchers to identify these proteins. In this paper, we proposed a novel method to identify AFPs, using supportive vector machine (SVM) by incorporating 4 types of features. Results of the two used benchmark datasets, revealed the strength of the proposed method in AFP prediction. According to the results of an independent test setup, our method outperformed the current state-of-the-art methods. In addition, the comparison results of the discrimination power of different feature types revealed that physicochemical descriptors are the most contributing features in AFP detection. This method has been implemented as a stand-alone tool, named afpCOOL, for various operating systems to predict AFPs with a user friendly graphical interface. |
| اللغة: | English |
| تدمد: | 2405-8440 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b2dd91e3df14cd4dc58c2d68e3c5fdd9 http://www.sciencedirect.com/science/article/pii/S2405844018329451 |
| Rights: | OPEN |
| رقم الانضمام: | edsair.doi.dedup.....b2dd91e3df14cd4dc58c2d68e3c5fdd9 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 24058440 |
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