1ATAC-Seq Data Support

Import your ATAC-Seq results from all supported species to correlate against all other types of data.

Sample Import Files using synthetic human hg19 data are available on the Import Data page. Required columns are chromosome, start, stop coordinates. For optimal ranking results provide a recommended or custom statistical column.

2Import API extended to all datatypes

The programmatic ingest of data through the Import API has been extended beyond gene expression to include all supported datatypes in Correlation Engine – Methylation, CNV, protein-DNA binding, SNP/GWAS, Somatic Mutation, Protein Expression, miRNA Expression, and ATAC-Seq.

Contact customercare@illumina.com to add Correlation Engine API's to your toolkit.

3Interactive help is here to guide you through BaseSpace Correlation Engine

Interactive Help contains a set of 15 succinct Training exercises that are linked one to the next. You get quick snapshots into the applications that act as a springboard for you to gain 'data driven' insights applied to your research.

Select Interactive Help next to the user icon at the top right of any page.

4Bioset pathway view

Visualize gene lists in Pathway Viewer by Elsevier and find relevant Canonical Pathways. Visually explore the interactions among your results in the context of Elsevier's literature-derived knowledgebase of published biological relationships linked to the corresponding literature..

5Biosets data filters

Filter and export features by fold change, rank and more. Narrow down your results list with the application of data filters based on custom fold changes and direction of activity. Apply cut-offs to limit results to highest ranked, strongest p-values or test and control gene activities. Filtered gene lists can be used for bioset export, to create a new bioset, or to pass onto Pathway Viewer.

Correlation Engine: Explore the apps.

QuickView

Not sure where to begin? Get a comprehensive overview of everything Correlation Engine can tell you about your query term or imported dataset.

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials

Correlation Engine: Explore the apps.

Curated Studies

Access our continuously growing library of curated public genomic data. Query this app to see how your query term or imported dataset correlate with thousands of curated public studies.

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials

Correlation Engine: Explore the apps.

Body Atlas

Compare gene expression levels across hundreds of human and mouse tissues, cell types, cell lines, and stem cells.

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials

Correlation Engine: Explore the apps.

Disease Atlas

Find diseases that are significantly correlated to a gene or imported dataset.

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials

Correlation Engine: Explore the apps.

Pharmaco Atlas

Discover drugs and compounds whose genetic signature includes a particular gene or is enriched in an imported dataset.

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials

Correlation Engine: Explore the apps.

Knockdown Atlas

Perform knockdown, knockout, or overexpression experiments in reverse: See which genetic perturbations affect a gene or imported dataset, and how.

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials

Correlation Engine: Explore the apps.

Genetic Markers

Discover genes & SNPs found to be significant across multiple studies of a disease, compound, or tissue.

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials

Correlation Engine: Explore the apps.

Biogroups

Find pathways, molecular functions, protein families, and biological processes that involve a gene or are enriched in an imported dataset.

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials

Correlation Engine: Explore the apps.

Literature

Do a classic PubMed literature search, or search hundreds of biology- and health-related news sources.

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials

Correlation Engine: Explore the apps.

Clinical Trials

Find clinical trials that interest you (including actively recruiting studies).

• QuickView
• Curated Studies
• Body Atlas
• Disease Atlas
• Pharmaco Atlas
• Knockdown Atlas
• Genetic Markers
• Biogroups
• Literature
• Clinical Trials