Data Access

Download

The complete piRNAome dataset is available as bulk flat files and a ready-to-query SQLite database, plus a no-authentication REST API for programmatic access.

Data files

piRNAome_hg38_sequences.fa.gz

All 9,718,659 non-redundant piRNA sequences integrated from seven source databases (piRBase, piRNABank, piRNAdb, piRNAQuest, NCBI, piOxiDB, piRNAclusterDB), in FASTA format. Headers carry the canonical ID, display ID, length, and quality tier.

FASTA gzip 213 MB

md5 9e7af4343f7c4aadf5eb20d2e1bc734d

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piRNAome_hg38_annotation.tsv.gz

Full annotation table, one row per piRNA: sequence, verified coordinates, quality, anchor, motif, isoform family, ping-pong partners, TE / gene / miRNA overlap, SNV interpretation and quality flags, and all source-database aliases.

TSV gzip 1.2 GB

md5 361f07bc2a276db00b089ff05d32df67

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piRNAome_hg38_coordinates.bed.gz

BED6 of all verified genomic loci (VERIFIED + REALIGNED entries), covering 9,655,926 located piRNAs. Compatible with the UCSC genome browser, IGV, and bedtools.

BED6 gzip hg38 138 MB

md5 2e5e992270fa8aba2bfefdd9204ba58f

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piRNAome_hg38.db.gz

The complete SQLite database used by this website. Tables: pirna, aliases, loci, clusters, denovo_clusters, junction_candidates, ping_pong. FTS5 full-text indexed; queryable with any SQLite client.

SQLite gzip 6.2 GB FTS5

md5 473b10b6cdc0fae04140eb3120177419

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Integrity

Checksums

Verify each download against the published md5 sums. A combined manifest is provided at CHECKSUMS.md5; check a file with md5sum -c CHECKSUMS.md5.

CHECKSUMS.md5

API access (available now)

REST API

All data is accessible programmatically through the REST API. No authentication required; responses are JSON.

GET /api/entry/{canonical_id} Full record for one piRNA

GET /api/search?q={query}&quality={tier}&chr={chr} Search with filters, paginated

GET /api/family/{family_id} All members of a piRNA family

GET /api/stats Database-wide summary statistics

GET /api/ppseed/{seed} All piRNAs sharing a ping-pong seed

Use & citation

License

piRNAome is freely available for academic and non-commercial research. Final licensing terms accompany the manuscript release; until then, please contact the authors before redistribution.

How to cite

If you use piRNAome in your work, please cite:

[Authors]. piRNAome: a unified human piRNA database with isoform-family integration and SNV-level annotation. Nucleic Acids Research (2026). DOI: to be assigned upon publication.