MiRNA target identification using degradome sequencing
miRA: adaptable novel miRNA identification in plants using small RNA sequencing data
... Computational miRNA identification Computational miRNA identification based on next- generation sequencing (NGS) data involves identifying the genomic location of miRNA ...
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Identification of Dirofilaria immitis miRNA using illumina deep sequencing
... of miRNA in growth and development, and their ability to regulate infection of mammalian ...the miRNA profiles of ...deep sequencing. A total of 1063 conserved miRNA candidates, including 68 ...
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Identification of distinct miRNA target regulation between breast cancer molecular subtypes using AGO2 PAR CLIP and patient datasets
... of miRNA targets, mainly focusing on targets that exhibit a negative correlation between their re- spective regulating miRNAs to derive thresholds for miRNA and mRNA abundance and negative or positive ...
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Endogenous siRNA and miRNA Targets Identified by Sequencing of the Arabidopsis Degradome
... Direct sequencing of degradome tags derived from the 5 0 ends of uncapped mRNAs delivered an empirical overview of cleaved miRNA and ta-siRNA targets without computational predictions or ...small-RNA ...
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Degradome sequencing reveals an endogenous microRNA target in C. elegans
... of target mRNAs, resulting in translational repression through mRNA destabi- ...High-throughput sequencing of RNA cleavage fragments was performed to directly detect miRNA-directed cleavage targets ...
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An improved method of constructing degradome library suitable for sequencing using Illumina platform
... predicted using computational approaches [9, ...such target predictions is high, therefore experi- mental validation is ...13], degradome [14] and GMUCT (genome-wide mapping of uncapped and cleaved ...
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miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data
... RNAseq-based miRNA computational tools, we provide the first truly intuitive and most user-friendly tool that has a graphics display output showing the RNAseq reads relative to the pre-miRNA secondary ...
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Decreasing miRNA sequencing bias using a single adapter and circularization approach
... understanding miRNA biology and for development of new biomarkers and therapeutic ...preparing miRNA sequencing libraries, RealSeq®-AC, that involves ligating the miRNAs with a single adapter and ...
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Identification of TBX2 and TBX3 variants in patients with conotruncal heart defects by target sequencing
... rare heterozygous variants of TBX2 and TBX3 in 13 patients from 588 sporadic patients with CTDs using target sequencing that included p.R608W, p.T249I, and p.R616Q variants of TBX2 and p.A192T, ...
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Original Article Identification of a novel miRNA-target gene regulatory network in osteosarcoma by integrating transcriptome analysis
... of miRNA and mRNA expression data to explore the dysregulation of miRNA and miRNA-target gene regulatory network underlying ...OS miRNA expression data sets available. Using ...
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Enrichment of miRNA targets in REST-regulated genes allows filtering of miRNA target predictions
... A tool for simple benchmarking could be offered with ChIP-seq and differential ex- pression data or a list of true positives as input. It is conceivable to assist in the choice of a proper peak-gene association method ...
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Identification of tumor suppressor miRNAs by integrative miRNA and mRNA sequencing of matched tumor–normal samples in lung adenocarcinoma
... of miRNA and mRNA sequencing data for matched tumor–normal samples from 109 Korean female patients with non-small-cell lung adenocarcinoma ...produced miRNA sequencing (miRNA-Seq) and ...
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Dissecting the biological relationship between TCGA miRNA and mRNA sequencing data using MMiRNA-Viewer
... three target pre- diction databases (TargetProfiler [10], TargetScan [11], and miRanda [12]) for prediction results of both tumor and norm ...mature miRNA from target prediction database, we ignored ...
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Identification of colorectal cancer-restricted microRNAs and their target genes based on high-throughput sequencing data
... Especially, miRNA-let-7f-1-3p was also downregulated in the current study, whose correlation with CRC has not been recorded in previous ...However, miRNA- let-7 has already been considered as a growth ...
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Analysis options for high throughput sequencing in miRNA expression profiling
... for miRNA expression profiling using high-throughput ...a miRNA expression profile that allows referencing to existing knowledge including the genomic origin of the ...functional target of ...
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Finding the association of mRNA and miRNA using Next Generation Sequencing data of Kidney renal cell carcinoma
... regulating target gene expression via repress- ing translation or promoting messenger RNAs (mRNA) ...and miRNA expression profiling could help us in getting a deeper insight into the can- cer ...
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Identification of functional miRNA interactions in Malignant Melanoma progression
... template using natural 2′-deoxynucleotides (dNTPs) and termination of that synthesis using 2′,3′-dideoxynucleotides ...generation sequencing (NGS) technologies are based on the same principle or on ...
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Building Profiles for miRNA Target Prediction
... 2 Abstract MicroRNAs are very short non-coding RNAs. Since microRNAs play important roles in many biological process, the research of microRNAs is a burgeoning field with much promise. Due to the high cost of ...
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Computational miRNA Target Prediction in Animals
... potential target sites of a given miRNA ...compliment miRNA sequence 3‘ to 5‘ as a query sequence and blasted it against a selectable ...real target gene. We retrieved the potential ...
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Identification of novel tumor suppressor proteases by degradome profiling of colorectal carcinomas
... Proteolytic enzymes play important roles during tumor development and progression through their ability to promote cell growth or by facilitating the invasion of surrounding tissues. The human genome contains more than ...
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