Mammalian Annotation Database for improved annotation and functional classification of Omics datasets from less well-annotated organisms.

ABSTRACT: Next-generation sequencing technologies and the availability of an increasing number of mammalian and other genomes allow gene expression studies, particularly RNA sequencing, in many non-model organisms. However, incomplete genome annotation and assignments of genes to functional annotation databases can lead to a substantial loss of information in downstream data analysis. To overcome this, we developed Mammalian Annotation Database tool (MAdb, https://madb.ethz.ch) to conveniently provide homologous gene information for selected mammalian species. The assignment between species is performed in three steps: (i) matching official gene symbols, (ii) using ortholog information contained in Ensembl Compara and (iii) pairwise BLAST comparisons of all transcripts. In addition, we developed a n

SUBMITTER: Bick JT 

PROVIDER: S-EPMC6661403 | biostudies-literature | 2019 Jan

REPOSITORIES: biostudies-literature