Blog
Welcome to the Basepair blog, your go-to source for the latest news and insights in genomics research. Our team of experts regularly publish articles and case studies on a wide range of topics, from new technologies and emerging trends to best practices and tips for successful genomic analysis. Whether you’re a seasoned researcher or just starting out in the field, our blog is designed to keep you informed and up-to-date with the latest developments in genomics.
Large projects with hundreds of samples? Try these fully automated upload options on Basepair
Basepair has an easy-to-use upload page that is ideal for the majority of our users. Select the samples you want to upload from your local computer, specify the sample metadata, and start the upload. Samples upload as fast as your internet connection allows. But what...
Trimming for RNA-Seq data
Quality trimming decreases the overall number of reads, but increases to the total and proportion of uniquely mapped reads. Thus, you get more useful data for downstream analyses. Too aggressive quality trimming can negatively impact downstream analysis (in our example, estimation of gene expression). Hence, our own findings and that of the research community motivate the incorporation of a light amount of trimming in RNA-seq data (we use a Q threshold of 10).
Basepair Awarded $300,000 Grant for Development of Software Platform for Pre-Implantation Genetic Testing
The Eunice Kennedy Shriver National Institute of Child Health & Human Development recently awarded Basepair a $300,000 Small Business Innovation Research grant for the development of a software platform for pre-implantation genetic testing of aneuploidy (PGT-A). ...
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...