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Motif Finding in upstream regulatory regions of co-expressed genes using Cuckoo optimization Algorithm and Simulated Annealing
In this paper, a novel hybrid algorithm is represented named SA-COAMF by using cuckoo optimization algorithm, simulated annealing and …
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Evaluating the accuracy of protein design using native secondary sub-structures

Background

According to structure-dependent function of proteins, two main challenging problems called Protein Structure Prediction …

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WCOACH: Protein complex prediction in weighted PPI networks
Protein complexes are aggregates of protein molecules that play important roles in biological processes. Detecting protein complexes …
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RNA secondary structure prediction based on SHAPE data in helix regions

RNA molecules play important and fundamental roles in biological processes. Frequently, the functional form of single-stranded RNA …

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A genetic approach to accurately predict RNA secondary structure
RNA molecule plays important and fundamental roles in many biological processes. In the most times, activities of RNAs are determined …
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Using temperature effects to predict the interactions between two RNAs

Motivation: Interaction of two RNA molecules is considered as an important factor that regulates gene expression post-transcriptional …

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RNA-RNA interaction prediction using genetic algorithm

Background

RNA-RNA interaction plays an important role in the regulation of gene expression and cell development. In this process, an …

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Transcription factor binding sites prediction based on modified nucleosomes
In computational methods, position weight matrices (PWMs) are commonly applied for transcription factor binding site (TFBS) prediction. …
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Inverse RNA folding solution based on multi-objective genetic algorithm and Gibbs sampling method
In living systems, RNAs play important biological functions. The functional form of an RNA frequently requires a specific tertiary …
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PreRkTAG: Prediction of RNA Knotted Structures Using Tree Adjoining Grammars

Background

RNA molecules play many important regulatory, catalytic and structural roles in the cell, and RNA secondary structure …

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