Strand NGS-Calling narrow and broad peaks from ChIP-Seq data

Know about the state-of-the-art algorithms implemented in Strand NGS for detecting the binding sites of transcription factor (narrow peaks) and enriched regions of histone modification (broad peaks) from ChIP-Seq data. Read the benchmarking study on Calling narrow and broad peaks from ChIP-Seq data in Strand NGS by Rohit Gupta and Anita Sathyanarayanan. For more information, … Continue reading “Strand NGS-Calling narrow and broad peaks from ChIP-Seq data”

Strand NGS v2.5 Release Announced – Know what’s new in it?

Happy to share the release of Strand NGS v2.5. This release comes with many new exciting features and enhancements. Some of the major enhancements include new workflow for MeDIP-Seq analysis, split read alignment, new structural variant caller using split reads, additional RNA QC plots, enhanced RNA-Seq workflow to handle large-scale projects, correlation analysis, meta-data analysis, new … Continue reading “Strand NGS v2.5 Release Announced – Know what’s new in it?”

Live webinar on Copy Number Detection in Inherited Disorders and Somatic Cancer

Copy number variants constitute a significant fraction of genomic alterations responsible for cancer and various inherited disorders. In a clinical setting, performing focused NGS testing based on a panel of relevant genes is both economical and provides faster results. Thus the ability to detect CNVs from gene panel based NGS tests increases the diagnostic yield … Continue reading “Live webinar on Copy Number Detection in Inherited Disorders and Somatic Cancer”

Interesting findings by ChIP-Seq and DNA-Seq analysis using Strand NGS

The year 2014 was a great year with exciting features and enhancements updated in Strand NGS. We take this opportunity to thank our clientele and well-wishers for their support and feedback. We wish you all a happy and prosperous new year and look forward to a more fruitful engagement in 2015. In this blog on … Continue reading “Interesting findings by ChIP-Seq and DNA-Seq analysis using Strand NGS”

Webinar on Integrated Biology Solution with Strand NGS and GeneSpring

Webinar on Integrated Biology Solution with Strand NGS and GeneSpring – Case Study on 19 and 20 November Presented by ‘Agilent Technologies’ and ‘Strand Life Sciences’ Abstract Integrating Next Generation Sequencing data with other omics- studies is now possible with release of GeneSpring 13 and Strand NGS 2.1, opening up newer avenues for analysis and … Continue reading “Webinar on Integrated Biology Solution with Strand NGS and GeneSpring”

Configuring SNP detection pipelines for accurate analysis of clinical samples

Webinar of the Month Series: Configuring SNP detection pipelines in Avadis NGS for accurate analysis of clinical samples Presenter:  Dr Vamsi Veeramachaneni, Vice President, Strand Life Sciences Abstract: Running a SNP detection pipeline and identifying high quality variant calls quickly is challenging. This is especially true in the case of clinical labs where multiple panels … Continue reading “Configuring SNP detection pipelines for accurate analysis of clinical samples”

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!”

The Need for Realignment to dbSNP

We’ve been using Avadis NGS to analyze a number of clinical samples and ran into an interesting case for InDel detection that could lead to false interpretation unless handled properly. The case at hand involves a child who suffered from Pulmonary Hypertension, Pulmonary Infections, and a few other abnormalities, all at birth or in the … Continue reading “The Need for Realignment to dbSNP”