Section 6 RElyser

6.1 Interface

Input

• Step 1: Enter a list of genomic regions (formatted as chr:start-end based on GRCm38/mm10).

• Step 2: Use genomic proximity or enhancer-promoter datasets to identify linked genes.

• Step 3: Select from a list of supported ontologies.

• More Controls: Use additional parameters to fine-tune the steps described above.

• SUBMIT: click the SUBMIT button to execute the analysis.

Output

• Example Output includes interactive tables and high-quality figures for enrichment results. A summary of input data and the runtime (computed on the server side) is also provided for reference.

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FIGURE 6.1: The interface of RElyser. The Show/Hide Info toggle button contains the instructions on how to use it, including inputs, outputs, and other relevant information.

6.2 Results

• Under the Input: Region Information tab, An interactive table lists user-input genomic regions.

FIGURE 6.2: The user-input data displayed under the Input: Region Information tab for exploration.

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• Under the Output: Linked Genes tab, An interactive table lists genes linked from the input genomic regions.

FIGURE 6.3: An interactive table listing genes linked from the input genomic regions under the Output: Linked Genes tab.

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• Under the Output: Enriched Terms tab, An interactive table lists enriched ontology terms.

FIGURE 6.4: An interactive table listing enriched ontology terms displayed under the Output: Enriched Terms tab.

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• Under the Output: Dotplot tab, A dotplot illustrates enriched ontology terms. A downloadable pdf file is also provided.

FIGURE 6.5: A dotplot illustrating enriched ontology terms displayed under the Output: Dotplot tab.

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• Under the Output: Forest Plot tab, A forest plot illustrates enriched ontology terms. A downloadable pdf file is also provided.

FIGURE 6.6: A forest plot illustrating enriched ontology terms displayed under the Output: Forest Plot tab.