Hydra 105 v3: Custom Repeat Annotations for Head Regeneration Study

Hydra vulgaris strain 105 genome v3, with NCBI RefSeq GCF_022113875.1, was analyzed for transposable elements. The dataset includes a custom repeat library from RepeatModeler and GTF-format annotations from RepeatMasker, created by Aide Macias and last updated in May 2026. The 155.4 MB dataset was used in a study on dynamic transposable element expression during Hydra head regeneration.

Use Cases

• Identify and classify transposable element families in the Hydra genome based on the custom repeat library.
• Analyze the genomic localization of transposable elements using the provided GTF annotation file.
• Study changes in transposable element expression during Hydra head regeneration, as referenced in the associated publication.
• Prepare input files for tools like TElocal to quantify transposable element expression at specific loci.

Strengths

• Dataset is associated with a specific, peer-reviewed research study on Hydra head regeneration.
• Provides a custom repeat library (DB-families.fa) tailored for the Hydra 105 v3 genome.
• Includes a GTF file (Hydra_105_TE.gtf) ready for use in downstream genomic analyses.
• Released under a permissive CC-BY-4.0 license, facilitating reuse and redistribution.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment for certain analyses.
• The dataset's specific utility is tied to the Hydra 105 v3 genome assembly; applicability to other assemblies is limited.

Provenance

Source

figshare, author Aide Macias.

Collection Method

Outputs generated from the Hydra vulgaris strain 105 genome v3 using RepeatModeler and RepeatMasker software.

Freshness

Last updated 2026-05-18 17:23:28; freshness should be verified.