Reads to Discovery

Reduce the SNP annotation time by up to 95%

Explore the new script ‘Create Targeted VAL’ in Strand NGS for creating subset of dbSNP database with target regions of interest and run your analysis. This feature reduces your SNP annotation time by up to 95% depending on the target regions of interest. Strand NGS v2.7 has more exciting features. Listed below are few:

Strand NGS v2.7 released

We are excited to share the release of Strand NGS v2.7. This new version comes with several exciting features and enhancements. Listed below are few major enhancements:

Review of selected publications citing Strand NGS

In 2015, we brought in many new features and improvements based on your requirements and feedback. We expanded the Strand NGS epigenomics toolkit by adding the MeDIP-Seq workflow in the v2.5 release. We also added new features like the alignment workflow and SV detection for split reads (watch the webinar), a browser-based copy number variation (CNV) view … Continue reading “Review of selected publications citing Strand NGS”

Webinar on Strand NGS Pipeline Manager for streamlining large scale analysis

This webinar, will highlight the Strand NGS Pipeline Manager feature. In this webinar, you will learn how to customize pipelines and share them with other Strand NGS users. This webinar will give a brief glimpse of an elaborate pipeline that aligns reads, filters poor-quality matches, computes coverage metrics, identifies variants, checks for sample cross-contamination, and … Continue reading “Webinar on Strand NGS Pipeline Manager for streamlining large scale analysis”

Meet us at ASHG 2015!

We are excited to be a part of the Annual Meeting of The American Society of Human Genetics (ASHG) again, this time in Baltimore, Maryland from 6- 10 October 2015. Come and meet us to learn more about our best-in-class next-generation sequencing (NGS) data analysis software Strand NGS and Agilent Technologies state-of-the-art multi-omics analysis software GeneSpring. You can … Continue reading “Meet us at ASHG 2015!”

Webinar on Detection of Structural Variants in Targeted Sequencing

Live Webinar on Detection of Structural Variants in Targeted Sequencing Structural Variants (SVs) have long been implicated in many human diseases such as cancer, making their detection important in clinical genomics. Strand NGS 2.5 includes a new workflow step for detecting these variants based on split reads that span the breakpoints corresponding to the variants. … Continue reading “Webinar on Detection of Structural Variants in Targeted Sequencing”

Live Webinar on Calling narrow and broad peaks from ChIP-Seq data

Live Webinar on Calling narrow and broad peaks from ChIP-Seq data on 26 Aug 2015 In this month’s webinar, we will demonstrate and assess the algorithms in StrandNGS for both narrow and broad peak calling. Specifically, results from using ‘MACS’ algorithm for detecting the FOXA1 transcription factor binding sites and from ‘Find Enriched Regions’ approach … Continue reading “Live Webinar on Calling narrow and broad peaks from ChIP-Seq data”

Integrative RNA and ChIP-Seq analysis of regulatory T-cells

Integrative RNA and ChIP-Seq analysis of regulatory T-cells , a Strand NGS application note describes how integrated multi-omics functionality in Strand NGS was used to find the regulatory role of FoxP3 in T-regulatory and T-helper cells. Learn how the gene expression profiles from RNA-Seq and FoxP3 DNA-protein binding sites from ChIP-Seq are integrated. For mor … Continue reading “Integrative RNA and ChIP-Seq analysis of regulatory T-cells”

Integrated mRNA and microRNA transcriptome analysis in Strand NGS

Using a nasopharyngeal carcinoma case study, this paper highlights the integrated transcriptome analysis capabilities of Strand NGS demonstrating the identification of miRNA – mRNA interactions in regulatory networks. Read the application note on Integrated mRNA and microRNA transcriptome analysis in Strand NGS by Veena Hedatale and Rohit Gupta. For more information, please contact us

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”