From yeast to mice to chicks to stem cells – 4 ways RNA-Seq analysis sheds light on the world around us (a four part series)- Part II

In my previous blog post, I had walked you through a yeast paper where the authors had mapped its mitochondrial trancriptome. They had used the RNA-Seq analysis tool from Avadis NGS in clever ways to figure out details about the transcriptome that played a key role in piecing together the final map. In this week’s … Continue reading “From yeast to mice to chicks to stem cells – 4 ways RNA-Seq analysis sheds light on the world around us (a four part series)- Part II”

From yeast to mice to chicks to stem cells – 4 ways RNA-Seq analysis sheds light on the world around us (a four part series) – Part I

Last month, as in my wont, I was taking a look at publications that had very recently used our software for analysis of NGS data. Of these, four were by groups who had used the RNA-Seq workflow from the Avadis NGS suite to run the analysis of their data. Intrigued by the fact that this … Continue reading “From yeast to mice to chicks to stem cells – 4 ways RNA-Seq analysis sheds light on the world around us (a four part series) – Part I”

A Sneak Peak at Avadis NGS Version 1.5’s New Features!

The release date for the next version of Avadis NGS is just around the corner. Not only does the software include a lot of refinements in some of the older features, but it also boasts of a number of cool new ones! So here is a sneak peak at some of these features in version … Continue reading “A Sneak Peak at Avadis NGS Version 1.5’s New Features!”

Benford’s Law and NGS Gene Counts

This may be a piece of trivia more than anything else, but anyway, let’s begin with the surprising part. Take any RNASeq sample and assign to each gene a count corresponding to the number of reads aligning to that gene (what we call Quantification in Avadis NGS). For the purposes of this post, ignore all … Continue reading “Benford’s Law and NGS Gene Counts”

Welcome to our blog

Our goal for this blog is to be a distraction that is useful for you as well as for us. We will use this venue to express our bewilderment and discoveries as we traverse the genome. Mostly, we’ll geek out over puzzling challenges in bioinformatics, but we may also delve into other relevant topics – … Continue reading “Welcome to our blog”