Blog

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

Biomedical Datasets for Large Scale Analysis

Biomedical data is growing at astonishing rates with the broadening of access to next-generation sequencing (NGS) and single-cell solutions. Not only is more data being generated, but it is also being generated with improvements in base-calling accuracy, read length and the generation of reads from each end of the library …

Written by Manisha Ray

Pan-Genome Analysis Takes Center Stage

The concept of a pan-genome reference is straightforward: a reference structure that represents all the known genetic variation for a particular population or species. The representation of the human reference genome as a linear haploid DNA sequence poses limitations when trying to incorporate the known genetic diversity of human populations. …

Written by Devin Locke

Sentieon Multi-instance Whole Genome Workflow

Organizations have adopted the use of Next Generation Sequencing (NGS) as a one of the primary tools of their discovery, diagnostic and clinical efforts. Simultaneously — the number of tools available for NGS analysis has ballooned, with each tool having different capabilities for speed, accuracy, cost, etc. Seven Bridges offers …

Written by Vladimir Kovacevic, Ana Popic, Luka Topalovic, Milan Kovacevic, Aleksandar Minic, Stefan Risteski

Data Cruncher Public Interactive Analyses

We are excited to announce a suite of public interactive analyses readily available for researchers to use with their own data. Data Cruncher Interactive Analyses is a public project created with the goal of enhancing end-to-end bioinformatics analysis on the Platform. The suite is currently comprised of five interactive analyses …

Written by Marko Milanovic, Nemanja Vucic, Milan Kovacevic, Boris Majic & Ana Damljanovic

Taxonomic profiling of metagenomics samples: Get to know your loyal residents

Numerous colonies of different organisms live virtually everywhere on Earth, even in and on our bodies. They are called microbes and we all know about them. But do we really? Actually, the human race knew nothing about microbes before the 17th century. There were some assumptions and hypotheses, but their …

Written by Aleksandar Danicic, Nemanja Vucic, Srdjan Kasapovic and Vesna Pajic

Differential Methylation Analysis

With few exceptions, every human cell is composed of an identical DNA sequence. However, there are around 200 different cell types in our bodies. What is the underlying reason? Each different cell type represents a specific gene expression pattern. One of the main mechanisms that enables this is epigenetics. Epigenetics …

Written by Milos Nikolic, Tamara Stankovic, Milan Domazet, Sanja Mijalkovic

Optimized Workflow for Bisulfite Sequencing Data Analysis

Epigenetics is an extra layer of information that is not encoded in the primary sequence of an organism’s DNA. While several mechanisms of epigenetic regulation exist, DNA methylation is one of the most commonly studied ones. Typically, the presence of methylated cytosines within a promoter region represses gene expression. The …

Written by Vesna Pajic, Tamara Jovanovic, Ana Damljanovic

3-hour Whole Genome Analysis with GATK4

In the pursuit of accelerating next generation sequencing data processing for clinical applications,  Seven Bridges has developed a configurable GATK4 workflow 3.0 times faster than previous iterations. Following up on our initial push of the GATK4 workflow in 2017, and our recent update with the Broad’s Best Practices, we’ve worked …

Written by Vladimir Kovacevic, Teodora Aleksic, Jack DiGiovanna, Stefan Risteski

Enabling portable, reproducible, and scalable biomedical data analysis using Rabix Composer and CWL v1.0

We are excited to announce the release of version 1.0 of Rabix Composer, our integrated development environment for creating bioinformatics tools and workflows, and of support for Common Workflow Language (CWL) v1.0 on the Seven Bridges Platform! For an introduction to Rabix Composer and CWL, we encourage you to read …

Written by Adrian Sharma & Liz Williams

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