Immunai has curated high-quality public single-cell RNA-Seq (scRNA-Seq) studies from a wide spectrum of different research areas of biopharmaceutical research. In line with the curation of bulk-tissue data, the curation of scRNA-seq data is characterized by the use of controlled vocabularies, peer-reviewing by domain experts and stringent quality control. In addition, state-of-the-art methods for cell clustering, batch effect removal and cell-type identification and annotation were applied to provide researchers with consistent and analysis-ready data compendia. Our compendia consist of human and mouse scRNA-Seq data and are available in different data formats to be explored with your prefered analysis tools.
GENEVESTIGATOR® now enables the analysis of deeply curated single-cell RNA-Seq (scRNA-Seq) data from public repositories using its user-friendly visualization tools. Its unique collections of high quality and deeply curated data enable researchers to understand molecular mechanisms of development and disease, and to uncover cellular heterogeneity in normal and diseased tissue. The consistent processing, curation, clustering, cell type identification and harmonization of studies within compendia allow the user to save time and resources and to focus on addressing exciting questions spanning different therapeutic areas.
Get inspired by some key applications for curated scRNA-Seq gene expression data:
- Obtain high-resolution views of single-cell heterogeneity on a global scale
- Reveal complex and rare cell populations
- Track the trajectories of distinct cell lineages in development or in response to stimuli
- Uncover regulatory relationships on the cell-type level for improved target discovery
- Identify cell-type specific disease associations for biomarker development
- Unbiased data-driven decision making
Curated compendia
Compendia consist of human and mouse scRNA-Seq data and are available in different data formats to be explored with your prefered analysis tools.
Single-cell RNA-Seq studies in GENEVESTIGATOR® are available as extra data subscriptions for chosen focus areas. Currently, data are available for the following areas, each containing baseline seminal studies and more specific studies:
- Cardiovascular System
- Digestive and Endocrine Systems
- Immune System
- Nervous System
- Oncology
- Reproductive and Renal Systems
- Respiratory System
- Various Systems (currently with data from osteoarthritis, dermatology and others)
To get a more detailed overview of single-cell studies in these areas or in another area of interest, please write to info@nebion.com. For an overview of all scRNA-Seq offerings, including curation and scouting services, see here.
scRNA-Seq data are available in GENEVESTIGATOR® at two levels of resolution: Single-cell level: Data from Smart-Seq libraries are featured as 1 sample = 1 cell. Aggregate level: Data from droplet-based libraries are featured as 1 sample = 1 aggregate, where an aggregate is a group of cells from the same biosample that have shared attributes, e.g. cell type and cell state. Detailed information on the composition of each aggregate is available in the tooltip. With the 2020 autumn update, all users with a valid GENEVESTIGATOR® license get full access to two public scRNA-Seq data sets: MM-01243 (multiple sclerosis study on a single-cell level) and HS-03428 (COVID-19 study on an aggregate level). For a brief introduction on where to find single-cell studies in GENEVESTIGATOR® and what types of visualizations are available, see the following video tutorial:
To access all deeply curated scRNA-Seq studies in GENEVESTIGATOR®, create a new account or login to your existing account and activate your free trial.
0+
Curated studies
0+
Cell types
0+
Million cells
0+
Aggregates
Data resolution
Explore two free data sets
See also example analyses on these two datasets:
7 days Free trial