Transcriptome sequencing (RNA-Seq) produces big amounts of valuable information on all transcribed elements in the genome. With RNA-Seq, researchers can interrogate the transcriptome to profile gene expression, uncover alternative splicing, and identify novel and discard aberrant transcripts and coding variants, among others. The resulting BAM Files are the source of information for all proceeding step
Why Differential Expression Analysis with Single-cell RNA-seq data? The differential expression (DE) analysis has been used in bulk RNA-seq analysis for many years. It statistically measures changes in gene expression levels between different groups. With bulk RNA-seq analysis many cells are sequenced at the same time, so gene expression levels are commonly measured at the tissue level. Thus, the differences
Specific tools for a new generation of sequencing Third Generation Sequencing (TGS) is getting a notable increase in relevance by surpassing some of the limitations of NGS technologies. In that sense, the main feature of TGS is the capacity to produce much longer reads than NGS. These long reads facilitate the assembly of complex genomes and the study of alternative
Transcriptome analysis is a challenging bioinformatic problem. In eukaryotic transcriptomes, alternative splicing and alternative polyadenylation are the most complex issues. Genome-wide analysis of alternative splicing has been studied with short-read RNA sequencing for a while. Nevertheless, this technology needs a subsequent assembly, which is difficult to be resolved in ambiguities in complex loci.
New BioBam Scholarship Supported Project – with OmicsBox. BioBam’s central mission is to provide the scientific community with accessible and user-friendly bioinformatics solutions to accelerate biological research.
This project shows how OmicsBox was used to functional annotate Moringa oleifera and to better understand the genome of the plant.
This project shows how OmicsBox was used to functional annotate Moringa oleifera and to better understand the genome of the plant.
We are proud to announce that we have received a grant from the Valencian Innovation Agency – AVI Our I+D+i project “EVOLUTION OF THE COMPANY’S CLOUD SYSTEM TOWARDS AN ADVANCED ELASTIC PLATFORM FOR HIGH-PERFORMANCE COMPUTING AND MASSIVE SEQUENCING DATA PROCESSING” has received a grant from the Valencian Innovation Agency (AVI) in the line L3 Industrial Doctorate (innodocto) to support
Introduction RNA-seq data from metatranscriptomics NGS projects contains both coding and non-coding types of RNAs. Before any gene expression or taxonomic analysis, it is important to separate reads in families of messenger RNAs and ribosomal RNAs (rRNAs). SortMeRNA, first released in 2012, is a fast and accurate tool for filtering ribosomal RNAs in metatranscriptomics datasets. The core algorithm is based
