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MicroRNAs (miRNAs) are newly discovered endogenous small non-coding RNAs (21-25nt) that are thought to regulate expression of target genes by direct interaction with mRNAs. MicroRNAs have been identified through both experimental and computational methods, and microRNA secondary structure prediction is important and essential. Generally, there are two(More)
MicroRNAs (miRNAs) are newly discovered endogenous small non-coding RNAs (21-25nt) that target their complementary gene transcripts for degradation or translational repression. The biogenesis of a functional miRNA is largely dependent on the secondary structure of the miRNA precursor (pre-miRNA). Recently, it has been shown that miRNAs are present in the(More)
The biogenesis of a functional microRNA is largely dependent on the secondary structure of the microRNA precursor (pre-miRNA). Recently, it has been shown that microRNAs are present in the genome as the form of polycistronic transcriptional units in plants and animals. It will be important to design efficient computational methods to predict such structures(More)
An accurate prediction of the pre-microRNA secondary structure is important in miRNA informatics. Based on a recently proposed model, nucleotide cyclic motifs (NCM), to predict RNA secondary structure, we propose and implement a Modified NCM (MNCM) model with a physics-based scoring strategy to tackle the problem of pre-microRNA folding. Our microRNAfold is(More)
At present, multi-electrode array (MEA) approach and optical recording allow us to acquire plant electrical activity with higher spatio-temporal resolution. To understand the dynamic information flow of the electrical signaling system and estimate the effective connectivity, we proposed a solution to combine the two casualty analysis approaches, i.e.(More)
(1) Background: Plant electrical signals are important physiological traits which reflect plant physiological state. As a kind of phenotypic data, plant action potential (AP) evoked by external stimuli—e.g., electrical stimulation, environmental stress—may be associated with inhibition of gene expression related to stress tolerance. However, plant AP is a(More)
Nutrient fluxes associated with legume-rhizobia symbioses are poorly understood and little is known regarding the influence of abiotic stresses on development and maintenance of N-fixing nodules and root system architecture (RSA). We examined effects of Zn on nodule development and structure, root architecture, and expression of nodulation-related miRNAs in(More)
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