Blog

We blog about genomics. We also make a platform for open-source analysis of next generation data in the cloud. Hello.

Spatial Transcriptomics on the Seven Bridges Platform

As our understanding of biology deepens, many researchers are moving away from bulk gene expression analyses to single-cell analyses. However, current RNA-Seq methods that assay pooled RNA from tissue samples, or even from single cells, fail to conserve the spatial distribution of gene expression within the original tissue. In addition, …

Written by Michele Mattioni

Smart Variant Filtering

The variant filtering process consists of selecting highly confident variants and removing the ones that are falsely called. Secondary genomic DNA analysis is mainly oriented toward alignment and variant calling, assuming the accuracy of these two would provide major influence on the overall quality. The variant filtering step used to …

Written by Vladimir Kovacevic

Circulating Tumor DNA Analysis on the Seven Bridges Platform

Next Generation Sequencing (NGS) has brought significant improvements in all areas of biotechnology and healthcare — and cancer screening is no exception. The latest game-changer is liquid biopsy, a novel and challenging NGS application. By directly measuring and analyzing circulating tumor DNA (ctDNA) in blood, liquid biopsy is a promising, …

Written by Sanja Mijalkovic, Luka Topalovic, Ognjen Milicevic

Try Edico DRAGEN pipelines on Seven Bridges today

Want to try Edico DRAGEN V2 Pipelines on Seven Bridges? Sign up for our trial before February 19th! Seven Bridges will provide 2-week trial access to our platform for you to try Edico DRAGEN V2 Pipelines. You will receive: Hands-on training with our technical team Up to $20 in credits …

Written by Erik Lehnert

DRAGEN on Seven Bridges: Ultra-Rapid NGS in the Cloud

Seven Bridges recently announced its partnership with Edico to provide Edico’s DRAGENTM genomic analysis pipelines on our secure, collaborative biomedical data platform. Please join us on January 24th, 1-2 PM ET for a webinar covering the DRAGENTM Germline V2, Somatic V2, and RNA Gene Fusion Detection pipelines now available on …

Written by Erik Lehnert

The GA4GH Workflow Execution Challenge: evaluating reproducibility and portability across platforms

Large-scale, geographically distributed genomics analysis efforts, such as the PanCancer Analysis of Whole Genomes (PCAWG) project, highlight a trend in our community towards moving compute to where data resides. For PCAWG, this was out of necessity as the genomes for ~2,800 cancer donors were stored across 8 different locations around …

Written by Guest Author: Brian O’Connor

The Cancer Genomics Cloud: collaborative, reproducible, democratized (and now citable!)

Last week we published our paper The Cancer Genomics Cloud: Collaborative, Reproducible, and Democratized—A New Paradigm in Large-Scale Computational Research in Cancer Research as part of their special issue on computer resources. Congratulations to everyone who’s worked on the Cancer Genomics Cloud, and many many thanks to the team at …

Written by Nick

Develop, test and scale reproducible bioinformatics workflows with Rabix

Rabix: the toolkit for reproducible bioinformatics This summer, our development team announced the public launch of Rabix: the open source toolkit for creating and running reproducible computational workflows. Rabix was founded to overcome the challenges inherent in running reproducible bioinformatics analyses at scale. Here we show how the combination of software containers, workflow language and Rabix gives bioinformaticians the […]

Written by Nick

Big data for big results in childhood cancer

Last week Seven Bridges CEO Brandi Davis-Dusenbery joined an expert panel to discuss how data contributes to the fight against childhood cancer. Hosted by The Atlantic, the Children and Cancer forum sought to address the practical realities of pediatric cancer and identify ways to improve outcomes for these patients. You …

Written by Nick

We are always engaged in research and development, working to build the future of genomics, science, and health. Let's work together. We'd love to hear about your projects and challenges, so drop us a line. get in touch