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FlyBase 2.0: the next generation
J Thurmond, JL Goodman, VB Strelets… - Nucleic acids …, 2019 - academic.oup.com
FlyBase (flybase. org) is a knowledge base that supports the community of researchers that
use the fruit fly, Drosophila melanogaster, as a model organism. The FlyBase team curates …
use the fruit fly, Drosophila melanogaster, as a model organism. The FlyBase team curates …
Toward a fully resolved fungal tree of life
In this review, we discuss the current status and future challenges for fully elucidating the
fungal tree of life. In the last 15 years, advances in genomic technologies have …
fungal tree of life. In the last 15 years, advances in genomic technologies have …
OrthoDB v11: annotation of orthologs in the widest sampling of organismal diversity
OrthoDB provides evolutionary and functional annotations of genes in a diverse sampling of
eukaryotes, prokaryotes, and viruses. Genomics continues to accelerate our exploration of …
eukaryotes, prokaryotes, and viruses. Genomics continues to accelerate our exploration of …
Integrating gene annotation with orthology inference at scale
Annotating coding genes and inferring orthologs are two classical challenges in genomics
and evolutionary biology that have traditionally been approached separately, limiting …
and evolutionary biology that have traditionally been approached separately, limiting …
BUSCO: assessing genome assembly and annotation completeness
Genomics drives the current progress in molecular biology, generating unprecedented
volumes of data. The scientific value of these sequences depends on the ability to evaluate …
volumes of data. The scientific value of these sequences depends on the ability to evaluate …
Unified rational protein engineering with sequence-based deep representation learning
Rational protein engineering requires a holistic understanding of protein function. Here, we
apply deep learning to unlabeled amino-acid sequences to distill the fundamental features …
apply deep learning to unlabeled amino-acid sequences to distill the fundamental features …
OrthoVenn2: a web server for whole-genome comparison and annotation of orthologous clusters across multiple species
OrthoVenn is a powerful web platform for the comparison and analysis of whole-genome
orthologous clusters. Here we present an updated version, OrthoVenn2, which provides new …
orthologous clusters. Here we present an updated version, OrthoVenn2, which provides new …
OrthoDB v10: sampling the diversity of animal, plant, fungal, protist, bacterial and viral genomes for evolutionary and functional annotations of orthologs
Abstract OrthoDB (https://www. orthodb. org) provides evolutionary and functional
annotations of orthologs. This update features a major scaling up of the resource coverage …
annotations of orthologs. This update features a major scaling up of the resource coverage …
BUSCO applications from quality assessments to gene prediction and phylogenomics
Genomics promises comprehensive surveying of genomes and metagenomes, but rapidly
changing technologies and expanding data volumes make evaluation of completeness a …
changing technologies and expanding data volumes make evaluation of completeness a …
[HTML][HTML] A genome-scale phylogeny of the kingdom Fungi
Phylogenomic studies using genome-scale amounts of data have greatly improved
understanding of the tree of life. Despite the diversity, ecological significance, and …
understanding of the tree of life. Despite the diversity, ecological significance, and …