#genomics

Cluster analysis on high dimensional RNA-seq data with applications to cancer research – An evaluation study

Published: 10/12/2019

Clustering of gene expression data is widely used to identify novel subtypes of cancer. Plenty of clustering approaches have been proposed, but there is a lack of knowledge regarding their relative me ... Read more

Source: www.rna-seqblog.com
Researchers systematically test how accurately RNA sequencing can assign cell identity

Published: 10/12/2019

“Being crabby” might have a whole new meaning. A crab’s nervous system could help scientists learn what causes single neurons in the human brain to... Read more

Source: www.rna-seqblog.com
Evaluation of differential splicing tools for RNA-seq studies

Published: 6/12/2019

Differential splicing (DS) is a post-transcriptional biological process with critical, wide-ranging effects on a plethora of cellular activities and disease processes. To date, a number of computation ... Read more

Source: www.rna-seqblog.com

CDSeq – A novel complete deconvolution method for dissecting heterogeneous samples using gene expression data

Published: 5/12/2019

Quantifying cell-type proportions and their corresponding gene expression profiles in tissue samples would enhance understanding of the contributions of individual cell types to the physiological... Read more

Source: www.rna-seqblog.com
Researchers use RNA-Seq to discover potential new treatment for parasite disease

Published: 5/12/2019

Using innovative RNA sequencing techniques, researchers at the University of Maryland School of Medicine (UMSOM) Institute for Genome Sciences identified a promising novel treatment for lymphatic fila ... Read more

Source: www.rna-seqblog.com
Rutgers Study Achieves Highest Precision and Lowest Error Rates in mRNA Discoveries Using a Robust Bioinformatics Tool

Published: 4/12/2019

A new Rutgers School of Public Health study employs a novel statistical method for discovering full-length sequences of messenger RNA molecules, or mRNA transcripts, with accuracy and high confidence. ... Read more

Source: www.rna-seqblog.com

SparK: Publication-Quality NGS plotting tool

Published: 4/12/2019

While there are sophisticated resources available for displaying NGS data, including the Integrative Genomics Viewer (IGV) and the UCSC genome browser, exporting regions and assembling figures for pub ... Read more

Source: www.rna-seqblog.com
Efficient depletion of ribosomal RNA for RNA sequencing in planarians

Published: 4/12/2019

The astounding regenerative abilities of planarian flatworms prompt steadily growing interest in examining their molecular foundation. Planarian regeneration was found to require hundreds of genes and ... Read more

Source: www.rna-seqblog.com
Algorithm first to automate the search for anomalies in RNA-Seq data

Published: 4/12/2019

Computational biologists at Carnegie Mellon University have devised an algorithm to rapidly sort through mountains of gene expression data to find unexpected phenomena that might merit further study. ... Read more

Source: www.rna-seqblog.com

RNA-Seq perspectives to improve clinical diagnosis

Published: 3/12/2019

In recent years, high-throughput next-generation sequencing technology has allowed a rapid increase in diagnostic capacity and precision through different bioinformatics processing algorithms, tools, ... Read more

Source: www.rna-seqblog.com
RNA-Seq reveals autism-related mutations in aging brains of Alzheimer’s patients

Published: 2/12/2019

Significant overlap found between Alzheimer’s-related mutations and those producing autism and related intellectual disabilities, TAU researchers say Researchers believe that autism is caused by ... Read more

Source: www.rna-seqblog.com
Exploring data-driven analysis of spatially resolved transcriptomes in situ and in single cells

Published: 27/11/2019

RNA-sequencing offers the possibility to analyze the expression of all genes in a sample. However, the spatial information of gene expression is lost. In the... Read more

Source: www.rna-seqblog.com

By exploiting RNA-Seq data, researchers expand our understanding of the pathogenesis of leishmaniasis

Published: 27/11/2019

For patients with cutaneous leishmaniasis, a skin infection transmitted by a sand fly that can lead to painful and disfiguring ulcers, treatment can be grueling. The first-line therapy offered to many ... Read more

Source: www.rna-seqblog.com
RNA-Seq Data Analysis Workshop in Berlin (2 – 5 March 2020)

Published: 26/11/2019

RNA-Seq Data Analysis Workshop Quality Control, Read Mapping, Visualization and Downstream Analyses Advance your research. Understand RNA-Seq analyses challenges and solve them yourself. In a nutshell ... Read more

Source: www.rna-seqblog.com
Poly(A) inclusive RNA isoform sequencing (PAIso-seq)

Published: 26/11/2019

Message RNA poly(A) tails are vital for their function and regulation. However, the full-length sequence of mRNA isoforms with their poly(A) tails remains undetermined. Now, researchers from the... Read more

Source: www.rna-seqblog.com

Single-cell RNA-Seq reveals what could be the key to longevity

Published: 26/11/2019

Scientists from the RIKEN Center for Integrative Medical Science (IMS) and Keio University School of Medicine in Japan have used single-cell RNA analysis to find that supercentenarians—meaning people. ... Read more

Source: www.rna-seqblog.com
Structural variant calling – the long and the short of it

Published: 22/11/2019

Recent research into structural variants (SVs) has established their importance to medicine and molecular biology, elucidating their role in various diseases, regulation of gene expression, ethnic... Read more

Source: www.rna-seqblog.com
Researchers uncover multiscale transcriptomic networks and key regulators in Parkinson’s disease

Published: 22/11/2019

Scientists at the Icahn School of Medicine at Mount Sinai have uncovered new molecular drivers of Parkinson’s disease using a sophisticated statistical technique called multiscale gene network analysi ... Read more

Source: www.rna-seqblog.com

A benchmarking of pipelines for detecting ncRNAs from RNA-Seq data

Published: 21/11/2019

Next-Generation Sequencing (NGS) is a high-throughput technology widely applied to genome sequencing and transcriptome profiling. RNA-Seq uses NGS to reveal RNA identities and quantities in a given sa ... Read more

Source: www.rna-seqblog.com
RNA sequencing identifies T cells primed for certain allergies or infections

Published: 21/11/2019

Researchers develop a method to isolate and sequence the RNA of T cells that react to a specific target. When your immune system is exposed to a... Read more

Source: www.rna-seqblog.com
Next-generation sequencing of dsRNA is greatly improved by treatment with the inexpensive denaturing reagent DMSO

Published: 20/11/2019

dsRNA is the genetic material of important viruses and a key component of RNA interference-based immunity in eukaryotes. Previous studies have noted difficulties in determining the sequence of dsRNA.. ... Read more

Source: www.rna-seqblog.com

#genomics

Cluster analysis on high dimensional RNA-seq data with applications to cancer research – An evaluation study

Researchers systematically test how accurately RNA sequencing can assign cell identity

Evaluation of differential splicing tools for RNA-seq studies

CDSeq – A novel complete deconvolution method for dissecting heterogeneous samples using gene expression data

Researchers use RNA-Seq to discover potential new treatment for parasite disease

Rutgers Study Achieves Highest Precision and Lowest Error Rates in mRNA Discoveries Using a Robust Bioinformatics Tool

SparK: Publication-Quality NGS plotting tool

Efficient depletion of ribosomal RNA for RNA sequencing in planarians

Algorithm first to automate the search for anomalies in RNA-Seq data

RNA-Seq perspectives to improve clinical diagnosis

RNA-Seq reveals autism-related mutations in aging brains of Alzheimer’s patients

Exploring data-driven analysis of spatially resolved transcriptomes in situ and in single cells

By exploiting RNA-Seq data, researchers expand our understanding of the pathogenesis of leishmaniasis

RNA-Seq Data Analysis Workshop in Berlin (2 – 5 March 2020)

Poly(A) inclusive RNA isoform sequencing (PAIso-seq)

Single-cell RNA-Seq reveals what could be the key to longevity

Structural variant calling – the long and the short of it

Researchers uncover multiscale transcriptomic networks and key regulators in Parkinson’s disease

A benchmarking of pipelines for detecting ncRNAs from RNA-Seq data

RNA sequencing identifies T cells primed for certain allergies or infections

Next-generation sequencing of dsRNA is greatly improved by treatment with the inexpensive denaturing reagent DMSO