Article-Journal

Assessing the impact of exact reads on reducing the error rate of read mapping

Background

Nowadays, according to valuable resources of high-quality genome sequences, reference-based assembly methods with high …

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Dimensionality Reduction of Binding Site Sequence Data on Human Genome Using a Deep Autoencoder Neural Network
The use of genomic nucleotide sequences as biochemical signals in machine learning methods is possible by converting these sequences …
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S-FLN: A sequence-based hierarchical approach for functional linkage network construction
The functional linkage network (FLN) construction is a primary and important step in drug discovery and disease gene prioritization …
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The effect of stochasticity on repair of DNA double strand breaks throughout non-homologous end joining pathway
DNA double strand breaks (DSBs) are the most lethal lesions of DNA induced by ionizing radiation, industrial chemicals and a wide …
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PSOMF: An algorithm for pattern discovery using PSO
The task of transcription factor binding sites discovery from the upstream region of gene, without any prior knowledge of what look …
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Evaluating the quality of SHAPE data simulated by k-mers for RNA structure prediction
Finding an effective measure to predict a more accurate RNA secondary structure is a challenging problem. In the last decade, an …
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Transcription Factor Binding Sites Prediction Based on Histone Acetylations using Neural Networks
Histone acetylation is one of the most important epigenetic processes that regulate gene expression. In other words, chromatin exposes …
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RNA design using simulated SHAPE data
It has long been established that in addition to being involved in protein translation, RNA plays essential roles in numerous other …
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Evolutionary algorithm for RNA secondary structure prediction based on simulated SHAPE data

Background

Non-coding RNAs perform a wide range of functions inside the living cells that are related to their structures. Several …

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Evaluating the Accuracy of Splice Site Prediction based on Integrating Jensen-Shannon Divergence and a Polynomial Equation of Order 2
Advances in DNA sequencing technology have caused generation of the vast amount of new sequence data. It is essential to understand the …
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