Cupid: simultaneous reconstruction of microRNA-target and ceRNA networks
نویسندگان
چکیده
منابع مشابه
Intrinsic Noise of microRNA-Regulated Genes and the ceRNA Hypothesis
MicroRNAs are small noncoding RNAs that regulate genes post-transciptionally by binding and degrading target eukaryotic mRNAs. We use a quantitative model to study gene regulation by inhibitory microRNAs and compare it to gene regulation by prokaryotic small non-coding RNAs (sRNAs). Our model uses a combination of analytic techniques as well as computational simulations to calculate the mean-ex...
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Marcella Cesana and George Q. Daley Stem Cell Transplantation Program, Division of Pediatric Hematology/Oncology, Boston Children’s Hospital and Dana Farber Cancer Institute, Boston, MA 02115; Harvard Stem Cell Institute, Boston, MA 02115; Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115; Manton Center for Orphan Disease Research, Boston, M...
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MicroRNAs (miRNAs) are small non-coding RNAs which regulate gene expression by binding to the 3 UTR of the corresponding messenger RNAs. We construct miRNA co-target networks for 22 different species using a target prediction database, MicroCosm Tagets. The miRNA pairs of individual species having one or more common target genes are connected and the number of co-targets are assigned as the wei...
متن کاملDetection of Simultaneous Group Effects in MicroRNA Expression and Related Target Gene Sets
Expression levels of mRNAs are among other factors regulated by microRNAs. A particular microRNA can bind specifically to several target mRNAs and lead to their degradation. Expression levels of both, mRNAs and microRNAs, can be obtained by microarray experiments. In order to increase the power of detecting microRNAs that are differentially expressed between two different groups of samples, we ...
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Crosstalk between RNAs mediated by shared microRNAs (miRNAs) represents a novel layer of gene regulation, which plays important roles in development. In this study, we analyzed time series expression data for coding genes and long non-coding RNAs (lncRNAs) to identify thousands of interactions among competitive endogenous RNAs (ceRNAs) in four rhesus tissues. The ceRNAs exhibited dynamic expres...
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ژورنال
عنوان ژورنال: Genome Research
سال: 2014
ISSN: 1088-9051,1549-5469
DOI: 10.1101/gr.178194.114