Latest Publications In The miRNA Field:

by Christoph on September 2, 2009

in Publications

Novel Biomarkers for Drug-induced Liver Injury

by Christoph on December 12, 2014

in Publications

MicroRNAs have emerged as promising biomarkers of organ damage including injury of the liver. In this study the new generation of high-throughput sequencing technology was applied to detect circulating  miRNAs in serum from patients with accidental acetaminophen overdose and identified a set of 33 known miRNAs and 3 novel miRNA-like small RNAs that are functionally associated with liver-specific biological processes and relevant to acetaminophen toxic mechanisms. The study suggests a profile of circulating miRNAs in human serum that might provide additional biomarker candidates for drug-induced liver injury and possibly adds mechanistic information relevant to liver injury.


circulating miRNAs of drug-induced liver injury Figure: Serum levels of liver-associated miRNAs after acetaminophen overdose. The liver associated miRNAs miR-122 and miR-192 were detected in serum from acetaminophen-overdosed patients. The graph represents serum levels, based on normalized sequencing reads, of the liver-associated miRNA hsa-miR-122 (A) and hsa-miR-192 (B) in control and acetaminophen-overdosed samples.


For the full article:

Krauskopf J, Caiment F, Claessen SM, Johnson KJ, Warner RL, Schomaker SJ, Burt DA, Aubrecht J, Kleinjans JC. Application of High-Throughput Sequencing to Circulating microRNAs Reveals Novel Biomarkers for Drug-induced Liver Injury. Toxicol Sci. 2014 Oct 29. pii: kfu232. [Epub ahead of print] PubMed PMID: 25359176.


miRWalk 2.0 available

by Christoph on December 2, 2014

in Software, Web Based Tools

miRWalk-2-logomiRWalk2.0 ( which is a significantly improved and upgraded version of miRWalk database is now available for the scientific community.

miRWalk2.0 was developed with the aim of providing a regularly updated, freely accessible, comprehensive archive to supply the biggest available collection of predicted and experimentally verified miRNA-target interactions with various novel and unique features to greatly assist the scientific community. About 858,750,070 interactions between 11,748 miRNAs and 308,700 genes are documented in miRWalk2.0 with 5,077,757 different kinds of identifiers to offer a one-stop site to collect an abundance of information.

miRWalk2.0 not only documents miRNA binding sites within the complete sequence of a gene, but also combines this information with a comparison of binding sites [click to continue…]


Date: Tuesday Sept 30, 2014

LC SciencesIn the past, differential profiling and functional studies of microRNA (miRNA) has been performed mainly using tissues samples collected by invasive methods. However, in a clinical setting, more convenient and non-invasive methods are required, such as collection of peripheral blood or other bodily fluids. Recently, it has been demonstrated that miRNAs are present in circulating blood plasma, both free circulating and within exosomes, as well as within other biofluids such as cerebral spinal fluid, urine and even breast milk. These circulating miRNAs represent a potential new approach for diagnostic screening. [click to continue…]


Implication of Sperm RNA in Transgenerational Inheritance of the Effects of Early Trauma in Mice

Recent studies have suggested that early-life stressors and traumatic experiences can cause heritable changes in gene expression in future generations. Researchers at the University of Zurich’s Brain Research Institute hypothesized that early-life stressors in male mice may cause heritable changes in the small, non-coding RNA content (including miRNAs) in the sperm of traumatized mice and that this may induce behavioral changes in future progeny. Using RNA-Seq, global miRNA content in male sperm of controls and a model system of males subjected to unpredictable maternal separation combined with unpredictable maternal stress (MSUS) had significantly altered expression patterns. Additionally, miRNA in the sperm of MSUS mice exhibited altered miRNA expression in the serum and hippocampus. The changes in miRNA expression were similar in the serum and the hippocampus of F2 progeny of the MSUS males compared to control. However, the miRNA expression levels in F2 sperm were similar to normal controls. Despite this, F2 and F3 progeny exhibited [click to continue…]


mrSNP: Software to detect SNP effects on microRNA binding

March 18, 2014

mrSNP is a highly adaptable and performing web based tool for predicting the effect a 3′UTR SNP will have on miRNA binding. This tool has advantages over existing algorithms because it can assess the effect of novel SNPs on miRNA binding without requiring significant hands on time. Project home page: License: Free for commercial […]

Read the full article →

Workshop: “NGS and non-coding RNA data analysis”

March 5, 2014

The organizers are happy to announce the upcoming “NGS and non-coding RNA data analysis” workshop II (2014) 15-16 May, Plovdiv, Bulgaria The SeqAhead COST action BM1006 is organizing a 2 day workshop with presentations on non-coding RNA (ncRNA) research, bioinformatics, data analysis and stimulating discussions between biologists and bioinformaticians. The registration for this COST WS is now […]

Read the full article →

Discussion of miRNA Gene Expression Normalization Strategies

March 5, 2014

Researchers at the University of Oxford and the Scripps Research Institute recently published an article evaluating the use of several different RT-qPCR normalization strategies when profiling miRNA gene expression in mouse serum. In their research article entitled “Assessment of RT-qPCR Normalization Strategies for Accurate Quantification of Extracellular microRNAs in Murine Serum,” Roberts et. al. compare […]

Read the full article →

MicroRNA 491-3p & Pharmacogenetics: Regulation of UDP-Glucuronosyltransferase 1A1 Expression and Activity

February 10, 2014

The goal of pharmacogenetics is to better understand human response to both environmental toxins and drug treatment. Recently, several laboratories have investigated the hypothesis that microRNA regulation of drug metabolizing enzymes may influence their expression and ultimately effect enzymatic activity and patient drug toxicities. Researchers at the Pennsylvania State Hershey College of Medicine and Washington […]

Read the full article →

starBase update: deciphering Pan-Cancer patterns of miRNAs, lncRNAs, ceRNAs and RNA-binding proteins from TCGA 14 cancer types

February 8, 2014

StarBase has been updated to explore Pan-Cancer pattern of lncRNAs, miRNAs, RNA-binding proteins (RBP) and their regulatory networks (ceRNA, coexpression) by mining expression profiles of miRNAs, lncRNAs and mRNAs across 14 cancer types (>6000 samples) from The Cancer Genome Atlas (TCGA) Data Portal (all data available without limitations). StarBase provides the following Pan-Cancer Analysis Services: […]

Read the full article →

DiamiR Reports Validation of Two Families of Brain-Enriched microRNAs as Highly Promising Blood-Based Biomarkers of Mild Cognitive Impairment

January 2, 2014

MONMOUTH JUNCTION, NJ–(Marketwired – January 02, 2014) - DiamiR, LLC, a molecular diagnostics company focused on the development and commercialization of innovative blood-based tests for detection and monitoring of neurodegenerative diseases and cancer, announced today the publication entitled “Plasma microRNA biomarkers for detection of mild cognitive impairment: biomarker validation study” in Aging. Mild Cognitive Impairment is a […]

Read the full article →