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ToppMiR: ranking microRNAs and their mRNA targets based on biological functions and context
2014
Nucleic Acids Research
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However, current miR-mRNA target prediction platforms rank miR targets based on estimated strength of physical interactions and lack the ability to rank interactants as a function of their potential to ...
Identifying functionally significant microRNAs (miRs) and their correspondingly most important messenger RNA targets (mRNAs) in specific biological contexts is a critical task to improve our understanding ...
Prioritization of miRs by expression and biological functional relevance After the analysis and prioritization of mRNAs, ToppMiR ranks the miRs based on their putative regulations to their target mRNAs ...
doi:10.1093/nar/gku409
pmid:24829448
pmcid:PMC4086116
fatcat:xfiekqshmne4roqwleqep3bc6y
miTALOS v2: Analyzing Tissue Specific microRNA Function
2016
PLoS ONE
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A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2017; you can also visit the original URL.
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MicroRNAs are involved in almost all biological processes and have emerged as regulators of signaling pathways. ...
We incorporated the most recent and highest quality miRNA targeting data (TargetScan and StarBase), RNAseq based gene expression data (EBI Expression Atlas) and multiple new pathway data sources to increase ...
Functional analysis of miRNAs depends on accurate identification of gene targets in a given biological context [2] . ...
doi:10.1371/journal.pone.0151771
pmid:26998997
pmcid:PMC4801359
fatcat:aou3asi6hjakbauoflllphwpwu
mirDIP 4.1—integrative database of human microRNA target predictions
2017
Nucleic Acids Research
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A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2018; you can also visit the original URL.
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Even with modern high-throughput technologies, it is laborious and expensive to detect all possible microRNA targets. ...
For this reason, several computational microRNA-target prediction tools have been developed, each with its own strengths and limitations. ...
Ranks and associated precisions were log-transformed and their relationship was fitted by the quadratic function, imposing the rank as an independent variable. ...
doi:10.1093/nar/gkx1144
pmid:29194489
pmcid:PMC5753284
fatcat:4avz62zhafdvjen3c3tsgwtr3q
LncRNA VPS9D1-AS1 promotes cell proliferation in acute lymphoblastic leukemia through modulating GPX1 expression by miR-491-5p and miR-214-3p evasion
2020
Bioscience Reports
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Then, both miR-491-5p and miR-214-3p that was downregulated in ALL cells were affirmed to target GPX1. ...
Functional assays further revealed that the proliferation was obstructed and the apoptosis was facilitated in ALL cells with silenced GPX1. ...
ToppMiR: ranking microRNAs and their mRNA 463 targets based on biological functions and context. Nucleic Acids Res. Yu T, Wang LN, Li W, Zuo QF, Li MM, Zou QM, et al. ...
doi:10.1042/bsr20193461
pmid:32808668
pmcid:PMC7536331
fatcat:ro3in3q75nfhdpierxvvwevxx4