Blog
Introducing Basepair’s differential alternative splicing pipeline
We are pleased to announce the release of our new pipeline for investigating changes in alternative splicing (AS) in RNA-seq. As a quick reminder, a gene may have many forms (isoforms) depending on which exons and transcription...
Introducing our significantly upgraded single cell RNA-seq pipeline
Key features We are pleased to announce the release of Basepair's significantly updated single cell RNA-seq (scRNA-seq) pipeline. It brings many improvements in new features, efficiency, and user friendliness: 1. Seurat version 3 Version 3 of the scRNA-seq software we...
How EpiCypher Accelerated Assay Development with Basepair’s Custom NGS Analysis Solutions
Sometimes popular NGS analysis pipelines aren’t enough, and your team needs a custom solution. EpiCypher, a biotech company that develops cutting-edge technologies for epigenetic and chromatin biology, needed a specialized pipeline built for their internal team and...
Life Before & After Basepair
Our team of bioinformaticians and developers have spent over 15 years conducting NGS data analysis before starting Basepair. During the ol' manual NGS data analysis days, there were some good times... and there was also plenty of frustration. Much of NGS data analysis...
How Memorial Sloan Kettering Cancer Center analyzed 200 NGS samples, without a line of code
When Dr. Omar Abdel-Wahab at Memorial Sloan Kettering Cancer Center decided to undertake a project exploring the molecular mechanisms of ASXL2 - a frequently mutated gene in acute myeloid leukemia patients with the AML1-ETO fusion oncoprotein - he had three choices:...
Preparing your NGS data for reproducibility and auditing
Audits are probably the most dreaded aspect of NGS data analysis, and like specters, they come in many forms to haunt you. You might need to publish results from several years back, only to realize that the open source tools you used have dramatically changed, forcing...