ELAP-seq: Transcriptome-Wide Pseudouridine Modifications in Human Cell Lines

Pseudouridine (Ψ) is one of the most abundant chemical modifications in RNA. The ELAP-seq method identified thousands of candidate Ψ sites from human HeLa and HEK 293T cell transcripts, validating known sites and reporting new ones. This 2.4 MB dataset by Yuru Wang, last updated in May 2026, provides a method to detect Ψ sites and functional alterations.

Use Cases

• Training models to predict pseudouridine modification sites based on transcriptomic data.
• Analyzing global changes in RNA modifications in response to cellular stimuli, such as type-I interferon stimulation.
• Benchmarking new RNA modification detection methods against a set of validated and candidate Ψ sites.

Strengths

• Dataset is associated with a novel method (ELAP-seq) enabling Ψ detection at single base resolution with low sequencing and computational costs.
• Data includes validation of previously identified sites and reports of new candidate Ψ sites.
• License is CC-BY-4.0, permitting broad reuse with attribution.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Primary file format is DOCX, which may require conversion for computational analysis.

Provenance

Source

figshare, authored by Yuru Wang.

Collection Method

Generated using the ELAP-seq method, which leverages an enzyme to label and enrich Ψ-modified transcripts.

Time Range

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Freshness

Last updated 2026-05-14 07:04:36; freshness should be verified.

Geography

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