Expanding automated gene summaries for Caenorhabditis and parasitic nematode species in WormBase

TL;DR

This paper introduces a new software module that expands automated gene summaries in WormBase for multiple nematode species, including both Caenorhabditis and parasitic species.

Contribution

The novel contribution is a new software module that generates gene summaries for previously unsupported nematode species in WormBase.

Findings

The software module successfully generated gene summaries for C. elegans and nine other nematode species.

This expansion increases the genome coverage of automated summaries in WormBase.

The method includes four Caenorhabditis species and four parasitic nematode species.

Abstract

WormBase and the Alliance of Genome Resources provide several types of gene data including annotations to ontology terms and controlled vocabularies. These are used to automatically generate text summaries to give users a cogent view of gene function. However, automated summaries are not available for genes that lack curated annotations. To increase the genome coverage of the summaries in WormBase, we developed a new software module that generates additional gene summaries for
C. elegans
and new gene summaries for nine other nematode species: four
Caenorhabditis
species (
C. brenneri, C. briggsae, C. japonica, C. remanei
),
P. pacificus
, and four parasitic species (
B. malayi, O. volvulus, S. ratti and T. muris
).

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