ChopStitch – exon annotation and splice graph construction using transcriptome assembly and whole genome sequencing data

January 5, 2018 Leave a comment 4,739 Views

Sequencing studies on non-model organisms often interrogate both genomes and transcriptomes with massive amounts of short sequences. Such studies require de novo analysis tools and techniques...

The exon quantification pipeline (EQP) – a comprehensive approach to the quantification of gene, exon and junction expression from RNA-seq data

June 17, 2016 Leave a comment 8,525 Views

The quantification of transcriptomic features is the basis of the analysis of RNA-seq data. Researchers at the Novartis Institutes for Biomedical Research have developed an integrated alignment workflow and a simple counting-based approach to derive estimates for gene, exon and ...

The hidden treasure in RNA-seq

July 6, 2015 1 Comment 6,196 Views

from Phys.org Michael Stadler and his team at the Friedrich Miescher institute for Biomedical Research (FMI) have developed a novel computational approach to analyze RNA-seq data. By comparing intronic and exonic RNA reads, this approach allows discerning the contribution of ...

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Tag Archives: exons

ChopStitch – exon annotation and splice graph construction using transcriptome assembly and whole genome sequencing data

The exon quantification pipeline (EQP) – a comprehensive approach to the quantification of gene, exon and junction expression from RNA-seq data

The hidden treasure in RNA-seq

MATQ_Drop – Multiple-Annealing-and-Tailing-based Quantitative scRNA-seq in Droplets

Featured RNA-Seq Job – Research Technician II – Single Cell RNA Sequencing

IMMUcan scDB – a fully integrated scRNA-seq database exclusively dedicated to human cancer

Correspondence analysis for dimension reduction, batch integration, and visualization of single-cell RNA-seq data

Mutant KRAS signaling drives alternative splicing in lung cancer cells

Single cell RNA-sequencing identifies cause for loss of smell in long COVID patients

ESPRESSO – robust discovery and quantification of transcript isoforms from error-prone long-read RNA-seq data