Submitted by ggiraldo on Thu, 2018-04-19 12:03
Answer:
No genes have been experimentally validated by VectorBase, but automatic predictions of the initial gene sets are done using two approaches:
Submitted by ggiraldo on Thu, 2018-04-19 07:43
Submitted by ggiraldo on Sat, 2017-08-26 22:14
Answer:
This a Search query for all genes in VectorBase (click on the image to enlarge):
Submitted by jallen on Mon, 2017-03-27 10:49
Ortholog metrics are calculated for some groups of species, and these are used to classify a "high confidence" set of orthologs.
Answer:
Ortholog metrics are calculated for some groups of species, and these are used to classify a "high confidence" set of orthologs.
Submitted by jallen on Fri, 2017-02-17 06:08
Answer:
A large proportion of the RNA genes in VectorBase are annotated in a completely automated way. There are some exceptions to this rule, where we import genes from other sources, or have been supplied with manual annotations for particular classes of RNA.
VectorBase automated annotation
VectorBase uses three sources for RNA gene annotation:
Submitted by ggiraldo on Tue, 2016-11-29 11:33
Answer:
This a gene set table (click on the image to enlarge):
Submitted by jallen on Wed, 2016-08-31 12:10
Answer:
The data in VectorBase is available for download in a variety of formats.
Submitted by ggiraldo on Thu, 2016-08-04 12:45
Answer:
Currently all VectorBase genomes, with the exception of Anopheles gambiae PEST, are available only as supercontigs. For some species, the genome papers and other publications have achieved to locate a subset of the supercontigs.
Submitted by ggiraldo on Wed, 2016-08-03 12:06
Answer:
KEEG
KEGG is a database to understand high-level functions and utilities of biological systems, from molecular-level information. One of its data-oriented entry points is KEGG pathway, a collection of manually drawn pathway maps representing knowledge on the molecular interaction and reaction networks among proteins and other molecules. These curated pathways include six of our hosted genomes, these species are Aedes aegypti, Anopheles gambiae, Culex quinquefasciatus, Ixodes scapularis, Musca domestica and Pediculus humans.
Submitted by jallen on Wed, 2016-02-17 07:08
Some of the species in VectorBase have been annotated more extensively than others, and it is useful to propagate gene descriptions to closely related species. Gene descriptions (but not gene names) are propagated based on orthology.
If there is one-to-one or one-to-many orthology between a gene in a source (i.e. well annotated) species and a target species, then the description is propagated from the source to the target if the following conditions are met:
Answer:
Some of the species in VectorBase have been annotated more extensively than others, and it is useful to propagate gene descriptions to closely related species. Gene descriptions (but not gene names) are propagated based on orthology.
If there is one-to-one or one-to-many orthology between a gene in a source (i.e. well annotated) species and a target species, then the description is propagated from the source to the target if the following conditions are met:
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