Next Generation Sequencing

Qlucore Omics Explorer NGS add-on module enables easy, fast and visual workflows for Next Generation Sequencing (NGS) data.

Qlucore Omics Explorer is a D.I.Y next-generation bioinformatics software for research in life science, plant- and biotech industries, as well as academia. The powerful visualization-based data analysis tool with inbuilt powerful statistics delivers immediate results and provides instant exploration and visualization of big data.

ngs

NEXT GENERATION SEQUENCING 

Next-generation sequencing (NGS) technologies promise to transform cancer research by advancing our understanding of cancer pathogenesis and significantly improving the detection, diagnosis, and treatment of these diseases.

The program offers a broad suite of options for what type of Next Generation Sequencing (NGS) data you can analyze and what type of methods you can apply. The NGS module is an add on the the base module and all base module functionality is available.

In the center for the NGS data analysis is the the highly interactive and flexible genome browser with unique dynamic filtering options. Some examples are:

Explore RNA-seq data for deeper insights with the synchronized approach, using both expression levels and genomic information.

Call variants with the inbuilt variant caller and visualize content after applying filters on quality and/or type.

Use external variant data base content to enhance visualization and filter against. Import standard vcf files.

Visualize your NGS data in The Genome Browser in a easy to use environment and control what you see using standard user interface controls – no scripting.

Filter and select based on the content of standard files such as GTF and BED. Freely select and deselect sample groups.

Easy to use filtering using check boxes and sliders which regions to include or exclude. Find and identify variants with a few key-presses.

Analyze regions with a Read Coverage above a slider-defined cutoff or make selections based on the built in variant caller.

The innovative pre-processing, which only takes place once, makes the performance requirements manageable and the NGS module is easy to deploy organizational-wide*. Full interactivity is provided for few or hundreds of samples, both for RNA-seq and DNA-seq data. The module accepts standard file formats such as FASTA, BAM, VCF, GTF and BED and results can be exported as reports or high quality images and reports.

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Features in Qlucore Omics Explorer.

 

Introduction video to the NGS module.

NGS module webinar.

Case studies

RNA-seq case study

RNA-Seq analysis using Qlucore

Performing gene expression analysis based on RNA sequencing data, in Dilated Cardiomyopathy studies.

Stanford University, US

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Using Qlucore in epigenetics research studies

A range of samples including DNA from patient blood, primary tissue from tumors, and cell lines, are studied.

Cancer Genetics Program at the Hospital for Sick Children (SickKids) in Toronto, Canada.

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Qlucore analysis of transcriptomic data

The study includes working with data from more than 400 arrays. Visualization is used in the effort to understand the human growth process.

University of Manchester, UK

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