RNA-Seq Blog Transcriptome Research & Industry News
Omics-profiling is a collection of increasingly prominent approaches that result in large-scale biological datasets, for instance capturing an organism’s behavior and response in an...
Read More »ShinyOmics – collaborative exploration of omics-data
A benchmark of batch-effect correction methods for single-cell RNA sequencing data
Large-scale single-cell transcriptomic datasets generated using different technologies contain batch-specific systematic variations that present a challenge to batch-effect removal and data integration. With continued growth expected in scRNA-seq...
Read More »ideal – an R/Bioconductor package for Interactive Differential Expression Analysis
RNA-sequencing is nowadays the standard experimental approach for accurate transcriptome profiling. A key factor to help a wide range of...
Read More »SCDC – bulk gene expression deconvolution by multiple single-cell RNA sequencing references
Recent advances in single-cell RNA sequencing (scRNA-seq) enable characterization of transcriptomic profiles with single-cell resolution and circumvent averaging artifacts associated with traditional bulk RNA sequencing (RNA-seq) data...
Read More »BISR-RNAseq – an efficient and scalable RNAseq analysis workflow with interactive report generation
RNA sequencing has become an increasingly affordable way to profile gene expression patterns. Here researchers from the Ohio State University introduce a workflow implementing several open-source softwares that can be run on a high...
Read More »Direct-from-blood RNA sequencing identifies a pathogen that would not have been identified by other common techniques
Antibiotic resistance is rising at disturbing rates and contributes to the deaths of millions of people yearly. Antibiotic resistant infections disproportionately affect those with immunocompromising conditions...
Read More »Massively multiplex chemical transcriptomics at single-cell resolution
The sci-Plex technique holds promise for cell biology research in cancer, infectious diseases, autoimmune disorders, prenatal medicine and many other medical and basic science areas. Results from proof-of-concept testing are reported today in Science...
Read More »Visualize, analyze and manage Seurat and Scanpy single-cell objects in an interactive platform
While single-cell RNA sequencing is a fast-growing technology and helping to resolve tissue heterogeneity and cellular transitional states at high resolution, not all the scientists can explore their data by themselves due to the large data size, on matrices with ...
Read More »Spatially resolved transcriptomics reveals plant host responses to pathogens
Thorough understanding of complex model systems requires the characterisation of processes in different cell types of an organism. This can be achieved with high-throughput spatial transcriptomics at a large scale. However, for plant model systems...
Read More »DIRECT – RNA contact predictions by integrating structural patterns
It is widely believed that tertiary nucleotide-nucleotide interactions are essential in determining RNA structure and function. Currently, direct coupling analysis (DCA) infers nucleotide contacts...
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