RNA-Seq Blog Transcriptome Research & Industry News
Fusion genes are both useful cancer biomarkers and important drug targets. Finding relevant fusion genes is challenging due to genomic instability resulting in a high number of passenger events...
Read More »FUNGI – Fusion Gene Integration Toolset
Diagnosis of fusion genes using targeted RNA sequencing
Fusion genes are a major cause of cancer. Their rapid and accurate diagnosis can inform clinical action, but current molecular diagnostic assays are restricted in resolution and throughput...
Read More »confFuse – high-confidence fusion gene detection
Fusion genes play an important role in the tumorigenesis of many cancers. Next-generation sequencing (NGS) technologies have been successfully applied in fusion gene detection for the last several years, and a number of NGS-based tools have been developed for identifying ...
Read More »GFusion – an Effective Algorithm to Identify Fusion Genes from Cancer RNA-Seq Data
Fusion gene derived from genomic rearrangement plays a key role in cancer initiation. The discovery of novel gene fusions may be of significant importance in cancer diagnosis and treatment. Meanwhile, next generation sequencing technology provide a sensitive and efficient way ...
Read More »Researchers identify first familially-inherited fusion gene based on RNA-seq data
SplicingCodes.com’s scientists, in collaboration with colleagues from USA and China, have identified the KANSARL fusion gene as the first familially-inherited cancer susceptible fusion gene specific to the population of European ancestry origin. The KANSARL fusion gene is also the cancer ...
Read More »hppRNA – a Snakemake-based handy parameter-free pipeline for RNA-Seq analysis of numerous samples
RNA-Seq technology has been gradually becoming a routine approach for characterizing the properties of transcriptome in terms of organisms, cell types and conditions and consequently a big burden has been put on the facet of data analysis, which calls for ...
Read More »InFusion – Discovery of Fusion Genes and Chimeric Transcripts from Deep RNA-Sequencing Data
Analysis of fusion transcripts has become increasingly important due to their link with cancer development. Since high-throughput sequencing approaches survey fusion events exhaustively, several computational methods for the detection of gene fusions from RNA-seq data have been developed. This kind ...
Read More »ChimPipe – Accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data
Chimeric transcripts are commonly defined as transcripts linking two or more different genes in the genome, and can be explained by various biological mechanisms such as genomic rearrangement, read-through or trans-splicing, but also by technical or biological artefacts. Several studies ...
Read More »Spliced synthetic genes as internal controls in RNA sequencing experiments
RNA sequencing (RNA-seq) can be used to assemble spliced isoforms, quantify expressed genes and provide a global profile of the transcriptome. However, the size and diversity of the transcriptome, the wide dynamic range in gene expression and inherent technical biases ...
Read More »Transcriptome Sequencing for the Detection of Chimeric Transcripts
The occurrence of chimeric transcripts has been reported in many cancer cells and seen as potential biomarkers and therapeutic targets. Modern high-throughput sequencing technologies offer a way to investigate individual chimeric transcripts and the systematic information of associated gene expressions ...
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