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Current bioinformatics workflows for PIWI-interacting RNA (piRNA) analysis focus primarily on germline-derived piRNAs and piRNA-clusters...
Read More »WIND (Workflow for pIRNAs aNd beyonD): a strategy for in-depth analysis of small RNA-seq data
Featured RNA-Seq Job – Assistant Research Scientist Position in Bioinformatics
These multi-disciplinary studies will include the comprehensive analysis of RNA-seq and small RNA sequencing data. In addition to expertise in NGS data analysis, Ideal candidates will have extensive experience in Drosophila genetics. The successful candidate...
Read More »piRNA analysis from small RNA-Seq data
With the increasing number of studies focusing on PIWI-interacting RNA (piRNAs), it is now pertinent to develop efficient tools dedicated towards piRNA analysis. Researchers at the National Institute of...
Read More »unitas – the universal tool for annotation of small RNAs
Next generation sequencing is a key technique in small RNA biology research that has led to the discovery of functionally different classes of small non-coding RNAs in the past years. However, reliable annotation of the extensive amounts of small non-coding ...
Read More »Small RNA sequencing reveals metastasis-related microRNAs in lung adenocarcinoma
The majority of lung cancer deaths are caused by metastatic disease. MicroRNAs (miRNAs) are posttranscriptional regulators of gene expression and miRNA dysregulation can contribute to metastatic progression. Here, researchers from Aarhus University used small RNA sequencing to profile the miRNA ...
Read More »TEtools – facilitates big data expression analysis of transposable elements
Over recent decades, substantial efforts have been made to understand the interactions between host genomes and transposable elements (TEs). The impact of TEs on the regulation of host genes is well known, with TEs acting as platforms of regulatory sequences. ...
Read More »Fighting veterinary drug abuse with RNA-Seq
Worldwide growth and performance-enhancing substances are used in cattle husbandry to increase productivity. In certain countries however e.g., in the EU, these practices are forbidden to prevent the consumers from potential health risks of substance residues in food. To maximize ...
Read More »piPipes – a set of pipelines for piRNA and transposon analysis via small RNA-seq, RNA-seq, degradome- and CAGE-seq, ChIP-seq and genomic DNA sequencing
PIWI-interacting RNAs (piRNAs), 23-36 nt small silencing RNAs, repress transposon expression in the metazoan germ line, thereby protecting the genome. Although high-throughput sequencing has made it possible to examine the genome and transcriptome at unprecedented resolution, extracting useful information from ...
Read More »piClust: A density based piRNA clustering algorithm
Piwi-interacting RNAs (piRNAs) are recently discovered, endogenous small non-coding RNAs. piRNAs protect the genome from invasive transposable elements (TE) and sustain integrity of the genome in germ cell lineages. Small RNA-sequencing data can be used to detect piRNA activations in ...
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