How to cite VectorBase


Cite VectorBase most recent paper

Giraldo-Calderón GI, Emrich SJ, MacCallum RM, Maslen G, Dialynas E, Topalis P, Ho N, Gesing S, VectorBase Consortium, Madey G, Collins FH, Lawson D. 2015. VectorBase: an updated bioinformatics resource for invertebrate vectors and other organisms related with human diseases. Nucleic Acids Research 43(Database issue):D707-13.

Reference a species geneset

VectorBase, (VectorBase most recent paper), <Species_name><isolate/strain> <Assembly, Gene set>.

Worked example

For example if you want to reference your usage of the Anopheles gambiae AgamP4.4 set of predictions you would use:

VectorBase, (Giraldo-Calderón et al 2015), Anopheles gambiae PEST, AgamP4.4.

Gene annotations

Providing in your publication VectorBase gene IDs allows for the easiest, most convenient and unequivocal strategy to identify the genes of interest. More information about the gene IDs can be found in this FAQ, Gene identifiers or gene IDs (e.g., AGAP + 6 digit number). In addition to provide the genes metadata, symbol (or name) and functional description, please make sure to submit this information (and the gene manual annotations if necessary) to upate VectorBase records and allow other users to find your genes with text searches too. Instructions for metadata submission for a few genes or in bulk can be found in the bottom portion Web Apollo's page and this related FAQ, How do I batch submit annotation metadata to VectorBase? We also strongly encourage you to work with the journal to provide the genome browser gene page link for each gene as shown in the example below.

Samples from the literature

Table 1. Summary of Ae. aegypti, An. gambiae and Cx. quinquefasciatus opsin genes.
Gene NCBI accession no. VectorBase gene ID Supercontig or Scaffold Base pair range on Supercontig/Scaffold No. amino acids No. exons Expression evidence (transcript, peptide) Predicted wavelength sensitivity range
Ae. aegypti
AaGPRop1 XM_001651947.2 AAEL006498 1.208 1,715,269–1,716,390 373 1 t, - Long
An. gambiae
Cx. quinquefasciatus


(...) The opsin protein sequences were submitted to VectorBase and comprise the official gene set for each species. Proposed gene names and putative functional annotations were also adopted by the database.'

Fragments extracted from: Giraldo-Calderoón GI, Zanis MJ, Hill CA. 2017. Retention of duplicated long-wavelength opsins in mosquito lineages by positive selection and differential expression. BMC Evolutionary Biology. 17:84

Of the canonical clock genes, period (agPER, AGAP001856), timeless (agTIM, AGAP008288), the transcriptional repressor cryptochrome 2 (agCRY2, AGAP004261), PAR-domain protein 1 (agPDP1, AGAP006376), and cycle (agCYC, AGAP005655) were found to be rhythmically expressed under LD and DD in both heads and bodies, consistent with findings in Ae. aegypti and Cx. quinquefasciatus (Fig. 2A, Fig. S5A, and Dataset S1) (18, 19).

Fragment extracted from: Rund SS, Hou TY, Ward SM, Collins FH, Duffield GE. 2011. Genome-wide profiling of diel and circadian gene expression in the malaria vector Anopheles gambiae. Proc Natl Acad Sci U S A. 108(32):E421-30.