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Matched Annotation from NCBI and EMBL-EBI (MANE)

Definition
AI-generated

MANE is a collaboration between NCBI and EMBL-EBI that selects a single high-quality transcript pair—a RefSeq “Select” and a matching Ensembl transcript—for each human protein-coding gene where possible.

Topics
Post-GWAS
Synonyms
MANE Select
URL
https://www.ncbi.nlm.nih.gov/refseq/MANE/
Related
Canonical Transcript Ensembl GENCODE

Why it matters in GWAS

Gene- and transcript-level tests, TWAS models, and reporting often implicitly pick one isoform; MANE gives a standardized choice that aligns RefSeq and Ensembl IDs. Using MANE (or explicitly stating the transcript set) improves comparability across studies and clinical translation.

Example usage

"We reported variant consequences on MANE Select transcripts to match both RefSeq-based clinical resources and Ensembl-based GWAS annotation."

Canonical Transcript Ensembl GENCODE Genome Annotation RefSeq Transcriptome-Wide Association Study (TWAS) Variant Annotation
Related-term network

Click any node to open that term page.

Node order. The current term is first. Next come every page linked from Related terms, in the same top-to-bottom order as that list. Then new terms appear in two-hop layers: for each of those direct neighbors (in that same order), their related terms are appended if not already listed. A third pass does the same for two-hop nodes. The walk stops when a fixed maximum number of nodes is reached.

References

  • Morales J, et al. (2022). A joint NCBI and EMBL-EBI transcript set for clinical genomics and research. Nature.
  • Ji HJ, Pertea M, Salzberg SL. (2026). Annotating genomes at increased scale and resolution. Nat Rev Genet. https://doi.org/10.1038/s41576-026-00937-3
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