View Region
Regulatory Graph
The Regulatory Graph displays information about regulatory regions within the genomic coordinates you’re viewing.
Table Columns:
| Column | Description |
|---|---|
| Region | Genomic coordinates of the regulatory region (clickable for more details) |
| Biochemical Activity | The type of biochemical activity in this region |
| Biochemical Activity Description | Detailed description of the biochemical activity |
| Type | Classification of the regulatory region |
| Source | Origin of the data |
| Source URL | Link to the original data source (clickable) |
Interacting with the Table:
- Click on column headers to sort the table by that column
- Use the search box above the table to filter results
- Adjust the number of rows displayed using the dropdown menu
- Navigate between pages using the “Previous” and “Next” buttons
Biosample Table
The Biosample Table provides information about biological samples associated with the regulatory regions in your selected genomic coordinates.
Table Columns:
| Column | Description |
|---|---|
| Activity Score | Numerical score indicating the level of activity (higher is more active) |
| Source | Origin of the biosample data (clickable link) |
| Chromosome, Region Start, Region End | Location of the associated regulatory region |
| Region Name, Region Type | Identifiers for the regulatory region |
| Biochemical Activity, Activity Description | Details about the biochemical activity in the region |
| Biosample Name | Name of the biological sample |
| Term ID | Unique identifier for the biosample |
| Description | Detailed description of the biosample |
| Biosample Source | Origin of the biosample |
| Subontology | Subclassification of the biosample, if applicable |
Enhancer-Gene Prediction(s)
This table reports whether the query region contains predicted enhancers from the ENCODE-rE2G model, and their target genes and cell types. Each row reports one predicted enhancer, target gene, and cell type.
| Column | Description |
|---|---|
| Cell Type | Cell type in which the enhancer is predicted to regulate the gene |
| Target Gene | Gene predicted to be regulated by the enhancer |
| Score | Strength of the prediction (range: 0 to 1, higher indicates a more confident prediction) |
| Dataset | Source dataset |
| Model | Predictive model. Currently: ENCODE-rE2G |
| Variant-Gene Distance | Genomic distance between the variant and gene body |
Currently, this table includes predictions from the ENCODE-rE2G model across 1700+ ENCODE biosamples (see Gschwind et al. bioRxiv 2023)
The table is initially sorted by Score in descending order, showing the strongest predictions first.
View Region
Regulatory Graph
The Regulatory Graph displays information about regulatory regions within the genomic coordinates you’re viewing.
Table Columns:
| Column | Description |
|---|---|
| Region | Genomic coordinates of the regulatory region (clickable for more details) |
| Biochemical Activity | The type of biochemical activity in this region |
| Biochemical Activity Description | Detailed description of the biochemical activity |
| Type | Classification of the regulatory region |
| Source | Origin of the data |
| Source URL | Link to the original data source (clickable) |
Interacting with the Table:
- Click on column headers to sort the table by that column
- Use the search box above the table to filter results
- Adjust the number of rows displayed using the dropdown menu
- Navigate between pages using the “Previous” and “Next” buttons
Biosample Table
The Biosample Table provides information about biological samples associated with the regulatory regions in your selected genomic coordinates.
Table Columns:
| Column | Description |
|---|---|
| Activity Score | Numerical score indicating the level of activity (higher is more active) |
| Source | Origin of the biosample data (clickable link) |
| Chromosome, Region Start, Region End | Location of the associated regulatory region |
| Region Name, Region Type | Identifiers for the regulatory region |
| Biochemical Activity, Activity Description | Details about the biochemical activity in the region |
| Biosample Name | Name of the biological sample |
| Term ID | Unique identifier for the biosample |
| Description | Detailed description of the biosample |
| Biosample Source | Origin of the biosample |
| Subontology | Subclassification of the biosample, if applicable |
Enhancer-Gene Prediction(s)
This table reports whether the query region contains predicted enhancers from the ENCODE-rE2G model, and their target genes and cell types. Each row reports one predicted enhancer, target gene, and cell type.
| Column | Description |
|---|---|
| Cell Type | Cell type in which the enhancer is predicted to regulate the gene |
| Target Gene | Gene predicted to be regulated by the enhancer |
| Score | Strength of the prediction (range: 0 to 1, higher indicates a more confident prediction) |
| Dataset | Source dataset |
| Model | Predictive model. Currently: ENCODE-rE2G |
| Variant-Gene Distance | Genomic distance between the variant and gene body |
Currently, this table includes predictions from the ENCODE-rE2G model across 1700+ ENCODE biosamples (see Gschwind et al. bioRxiv 2023)
The table is initially sorted by Score in descending order, showing the strongest predictions first.