MicroRNA in disease regulation

A curated human cellular microRNAome based on 196 primary cell types

The paper curates a comprehensive reference of miRNA expression across 196 human primary cell types using public datasets and provides access through a UCSC Genome Browser track and R/Bioconductor package.

MicroRNA childhood Cancer Catalog (M3Cs): A Resource for Translational Bioinformatics Toward Health Informatics in Pediatric Cancer.

The paper presents M3Cs, a curated resource of miRNA studies in pediatric cancers, linking research to clinical and drug domains through data-driven approaches.

A miRNAs Based Exploration of promising Biomarkers in Cervical Cancer using Bioinformatic Methods

The paper identifies six miRNAs over-expressed in metastatic cervical cancer and suggests they could serve as diagnostic and prognostic biomarkers.

RNA uridyl transferases TUT4/7 differentially regulate miRNA variants depending on the cancer cell-type

This study shows that TUT4/7 regulate miRNA variants in a cell-type-specific manner, affecting cancer cell properties and miRNA-mRNA networks.

Explore synergistic and competitive miRNA regulation mechanisms in the miRNA-mRNA regulatory network from the information decomposition perspective

The paper quantifies synergistic and competitive miRNA interactions using multivariate information measurement, finding that neighboring and overlapping binding sites on mRNA lead to synergistic and competitive effects, respectively.

Sequencing of Argonaute-bound miRNA/mRNA hybrids reveals regulation of the unfolded protein response by microRNA-320a

The paper identifies miR-320a as a regulator of the unfolded protein response by analyzing TSS-miRNA targets in colorectal cancer cells using AGO-qCLASH.

isomiRs-specific differential expression is the rule, not the exception: Are we missing hundreds of species in microRNA analysis?

The paper shows isomiRs significantly affect differential expression analysis and highlights the need to consider them instead of relying solely on reference miRNA sequences.

Physiologically relevant miRNAs in mammalian oocytes are rare and highly abundant.

The paper identifies rare, highly abundant miRNAs in mammalian oocytes that resist dilution and efficiently suppress gene expression, supporting the stoichiometric hypothesis.

Exploring cell-specific miRNA regulation with single-cell miRNA-mRNA co-sequencing data

The paper introduces CSmiR, a method to identify cell-specific miRNA-mRNA regulatory networks using single-cell co-sequencing data, revealing unique miRNA regulation in individual cells.

Circulating miRNAs associated with bone mineral density in healthy adult baboons.

The paper identifies five miRNAs associated with bone mineral density in healthy adult baboons, suggesting their role in normal aging and potential disease mechanisms.

A switch in the development: microRNA arm usage screening in zebrafish suggests an important role of arm switching events in ontogenesis

The paper analyzes RNA-seq data from zebrafish to study miRNA arm switching during development, identifying patterns linked to gene regulation and isomiR roles in differential arm usage.

MapToCleave: high-throughput profiling of microRNA biogenesis in living cells

The paper introduces MapToCleave, a method to profile miRNA biogenesis in living cells, showing that stable lower basal stems enhance processing and expression across species.

Linking Diabetes mellitus to SARS-CoV-2 infection through differential targeting of the microRNAs in the Pancreas tissue

The paper identifies five diabetes-associated genes upregulated in SARS-CoV-2-infected pancreatic tissue and hypothesizes that miRNA competition between viral and host genes contributes to diabetes exacerbation in COVID-19.

Analysing and identifying miRNAs from RNA-seq data using miRDeep2 tool in Galaxy, a practical guide.

This paper provides a practical guide on using miRDeep2 in Galaxy to analyze miRNAs from RNA-seq data and process its output for downstream analysis.

Network potential identifies therapeutic miRNA cocktails in Ewings Sarcoma

This paper identifies therapeutic miRNA cocktails for Ewing Sarcoma using a network science-based approach to prioritize miRNA targets and combinations.

Evaluation role of miR-124 in neurodegenerative diseases: literature review and in silico analysis

This study reviews literature and performs in silico analysis to evaluate miR-124's role in neurodegenerative diseases, finding it reduces inflammation and apoptosis by targeting NF-kb and BACE1.

Human 5p-tailed Mirtrons are Processed by RNaseP

The paper identifies RNaseP as essential for processing 5-tailed mirtrons and links their biogenesis to tRNA fragment accumulation.

Reversing the miRNA -5p/-3p stoichiometry reveals physiological roles and targets of miR-140 miRNAs

The paper alters miR-140-5p and -3p stoichiometry in mice to identify their physiological targets and roles in bone development.

miRbiom: Machine-Learning on Bayesian Causal Nets of RBP-miRNA interactions successfully predicts miRNA profiles

miRbiom uses Bayesian causal networks of RBP-miRNA interactions to predict miRNA profiles with high accuracy without requiring separate miRNA profiling experiments.

microRNA-mediated regulation of microRNA machinery controls cell fate decisions

The paper shows that microRNA-182/microRNA-183 repress Ago2 to maintain pluripotency in mESCs, revealing a regulatory circuit involving microRNA machinery.

Integrative analysis allows a global and precise identification of functional miRNA target genes in mESCs

The paper identifies that only 6% of expressed genes are functionally regulated by miRNAs in mESCs using integrative analysis of transcriptome data and miRNA interaction predictions.

CancerMIRNome: an interactive analysis and visualization database for miRNome profiles of human cancer

CancerMIRNome provides an interactive database for analyzing and visualizing miRNA expression data from cancer studies to identify dysregulated miRNAs and develop biomarkers.

Inducible and reversible inhibition of miRNA-mediated gene repression in vivo

This study develops a genetic tool to reversibly inhibit miRNA-mediated gene repression in vivo and shows tissue-specific dependencies on miRNA function for homeostasis and regeneration.

Dicer-to-Argonaute switch controls biogenesis of oncogenic miRNA

The paper identifies a switch from DICER-dependent to Argonaute-mediated miRNA biogenesis in cancer, showing that non-canonical processing of oncogenic miRNAs promotes cancer progression.

IDENTIFICATION OF MIRNA-MRNA-HUB GENE NETWORK PREDICTION IN SQUAMOUS CELL LUNG CARCINOMA VIA STARBASE SERVER AND INSILICO ANALYSIS OF HUB GENES

This study identifies miRNA-mRNA hub genes and natural drug candidates for lung carcinoma using in silico analysis of gene expression data and molecular docking.

XRN2-mediated regulation of tumor suppressor microRNAs is of critical pathophysiological significance in Humans

The paper shows XRN2 degrades specific tumor suppressor miRNAs, affecting cancer cell behavior and patient survival.

Cis regulation within a cluster of viral microRNAs

The paper investigates cis regulation of viral microRNA clusters in KSHV, showing that specific pre-miRNAs influence the expression of the entire cluster and can be targeted to inhibit miRNA production.

HEPG2 EXPRESSION OF MIR-202 & TRIB-1 UNDER METABOLIC AND INFLAMMATORY STRESS.

This study examines miR-202 and trib-1 expression in HepG2 cells under metabolic and inflammatory stress, finding decreased trib-1 and increased miR-202 levels.

Modeling microRNA-driven post-transcriptional regulation by using exon-intron split analysis (EISA) in pigs

The paper uses EISA to distinguish post-transcriptional regulation by miRNAs from transcriptional changes in pig tissues, identifying miRNA-target interactions in muscle and adipose tissues.

Target-Dependent Coordinated Biogenesis Ensure Cascaded Expression of miRNAs in Activated Macrophage

The paper identifies primary miRNAs that coordinate the biogenesis of secondary miRNAs to regulate immune response in activated macrophages.