The Dfam community resource of transposable element families, sequence models, and genome annotations

• Main Authors: Jessica Storer, Robert Hubley, Jeb Rosen, Travis J. Wheeler, Arian F. Smit
• Format: Article
• Language: English
• Published: BMC 2021-01-01
• Series: Mobile DNA
• Online Access: https://doi.org/10.1186/s13100-020-00230-y

Abstract Dfam is an open access database of repetitive DNA families, sequence models, and genome annotations. The 3.0–3.3 releases of Dfam ( https://dfam.org ) represent an evolution from a proof-of-principle collection of transposable element families in model organisms into a community resource for a broad range of species, and for both curated and uncurated datasets. In addition, releases since Dfam 3.0 provide auxiliary consensus sequence models, transposable element protein alignments, and a formalized classification system to support the growing diversity of organisms represented in the resource. The latest release includes 266,740 new de novo generated transposable element families from 336 species contributed by the EBI. This expansion demonstrates the utility of many of Dfam’s new features and provides insight into the long term challenges ahead for improving de novo generated transposable element datasets.