How to discover branching phenotypes?

<p>(Bottom panel) Phenotype data exhibiting various forms of branchiness are not easily discerned from diverse natural language descriptions. (A) Bee hairs are different from most other insect hairs in that they are plumose, which facilitates pollen collection. (B) A mutant of <i>Drosophila melanogaster</i> exhibits forked bristles, due to a variation in <i>mical</i>. (C) In zebrafish larvae (<i>Danio rerio</i>), angiogenesis begins with vessels branching. (D) Plant trichomes take on many forms, including trifurcation. (Top) Phenotypes involving some type of “branched” are easily recovered when they are represented with ontologies. In a semantic graph, free text descriptions are converted into phenotype statements involving an anatomy term from animal or plant ontologies <a href="http://www.plosbiology.org/article/info:doi/10.1371/journal.pbio.1002033#pbio.1002033-Haendel1" target="_blank">[56]</a>,<a href="http://www.plosbiology.org/article/info:doi/10.1371/journal.pbio.1002033#pbio.1002033-Cooper1" target="_blank">[118]</a> and a quality term from a quality ontology <a href="http://www.plosbiology.org/article/info:doi/10.1371/journal.pbio.1002033#pbio.1002033-Gkoutos1" target="_blank">[106]</a>, connected by a logical expression (“inheres_in some”). Anatomy (purple) and quality (green) terms (ontology IDs beneath) relate phenotype statements from different species by virtue of the logic inherent in the ontologies, e.g., plumose, bifurcated, branched, and tripartite are all subtypes of “branched.” Image credits: bumble bee with pollen by Thomas Bresson, seta with pollen by István Mikó, <i>Arabidopsis</i> plants with hair-like structures (trichomes) by Annkatrin Rose, <i>Drosophila</i> photo by John Tann, <i>Drosophila</i> bristles redrawn from <a href="http://www.plosbiology.org/article/info:doi/10.1371/journal.pbio.1002033#pbio.1002033-Hung1" target="_blank">[119]</a>, scanning electron micrograph of <i>Arabidopsis</i> trichome by István Mikó, zebrafish embryos by MichianaSTEM, zebrafish blood vessels from <a href="http://www.plosbiology.org/article/info:doi/10.1371/journal.pbio.1002033#pbio.1002033-Alvarez1" target="_blank">[120]</a>. Figure assembled by Anya Broverman-Wray.