5 papers
Reconstruction of the deep history of "Parent-Daughter" relationships among vertebrate paralogs
Haiming Tang, Angela Wilkins
Gene duplication is a major mechanism through which new genetic material is generated. Although numerous methods have been developed to differentiate the ortholog and paralogs, ver…
TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations
Haiming Tang, Robert D Finn, Paul D Thomas
Summary: TreeGrafter is a new software tool for annotating protein sequences using annotated phylogenetic trees. Cur-rently, the tool provides annotations to Gene Ontology terms, a…
Automation of gene function prediction through modeling human curators' decisions in GO phylogenetic annotation project
Haiming Tang, Paul D Thomas, Huaiyu Mi
The Gene Ontology Consortium launched the GO-PAINT project (Phylogenetic Annotation and INference Tool) 9 years ago and is currently being used in the GO Reference Genome Annotatio…
Reconstruction of the evolutionary history of gene gains and losses since the last universal common ancestor
Haiming Tang, Paul Thomas, Haoran Xia
Gene gains and losses have shaped the gene repertoire of species since the universal last common ancestor to species today. Genes in extant species were gained at different histori…
GOTaxon: Representing the evolution of biological functions in the Gene Ontology
Haiming Tang, Christopher J Mungall, Huaiyu Mi +1
The Gene Ontology aims to define the universe of functions known for gene products, at the molecular, cellular and organism levels. While the ontology is designed to cover all aspe…