Delineating the impact of machine learning elements in pre-microRNA detection
نویسندگان
چکیده
Gene regulation modulates RNA expression via transcription factors. Post-transcriptional gene regulation in turn influences the amount of protein product through, for example, microRNAs (miRNAs). Experimental establishment of miRNAs and their effects is complicated and even futile when aiming to establish the entirety of miRNA target interactions. Therefore, computational approaches have been proposed. Many such tools rely on machine learning (ML) which involves example selection, feature extraction, model training, algorithm selection, and parameter optimization. Different ML algorithms have been used for model training on various example sets, more than 1,000 features describing pre-miRNAs have been proposed and different training and testing schemes have been used for model establishment. For pre-miRNA detection, negative examples cannot easily be established causing a problem for two class classification algorithms. There is also no consensus on what ML approach works best and, therefore, we set forth and established the impact of the different parts involved in ML on model performance. Furthermore, we established two new negative datasets and analyzed the impact of using them for training and testing. It was our aim to attach an order of importance to the parts involved in ML for pre-miRNA detection, but instead we found that all parts are intricately connected and their contributions cannot be easily untangled leading us to suggest that when attempting ML-based pre-miRNA detection many scenarios need to be explored.
منابع مشابه
Fault Detection of Anti-friction Bearing using Ensemble Machine Learning Methods
Anti-Friction Bearing (AFB) is a very important machine component and its unscheduled failure leads to cause of malfunction in wide range of rotating machinery which results in unexpected downtime and economic loss. In this paper, ensemble machine learning techniques are demonstrated for the detection of different AFB faults. Initially, statistical features were extracted from temporal vibratio...
متن کاملA Hybrid Machine Learning Method for Intrusion Detection
Data security is an important area of concern for every computer system owner. An intrusion detection system is a device or software application that monitors a network or systems for malicious activity or policy violations. Already various techniques of artificial intelligence have been used for intrusion detection. The main challenge in this area is the running speed of the available implemen...
متن کاملComparative Analysis of Machine Learning Algorithms with Optimization Purposes
The field of optimization and machine learning are increasingly interplayed and optimization in different problems leads to the use of machine learning approaches. Machine learning algorithms work in reasonable computational time for specific classes of problems and have important role in extracting knowledge from large amount of data. In this paper, a methodology has been employed to opt...
متن کاملUsing Machine Learning Algorithms for Automatic Cyber Bullying Detection in Arabic Social Media
Social media allows people interact to express their thoughts or feelings about different subjects. However, some of users may write offensive twits to other via social media which known as cyber bullying. Successful prevention depends on automatically detecting malicious messages. Automatic detection of bullying in the text of social media by analyzing the text "twits" via one of the machine l...
متن کاملAssessment of the Efficiency of Climatic factors and geomorphometry in predicting vegetation percentages based on machine learning processes
Introduction: Rangelands are natural ecosystems having large genetic resources. Since plant vegetation is the bed of life on earth and changes under the influence of surrounding environmental elements, using environmental element can highly contribute to estimate vegetation percent more accurately. Two effective elements which can contribute to estimate the vegetation distribution are climatic ...
متن کامل