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We invite you to visit the Aedes aegypti Gene Expression Profile at UC Irvine, presenting microarray experiments, functional annotation, and tools to explore gene expression in the dengue vector mosquito.

Welcome to the Anopheles gambiae Gene Expression Database at UC Irvine. Presented here is a relational database that combines data from microarray experiments, functional annotation, and the An. gambiae genome project to provide insight into gene expression and regulation in this mosquito vector of human malaria.

Microarray analyses included in this site were based on the Affymetrix GeneChip Plasmodium/Anopheles Genome Array. Abundance of specific mRNAs represented in the array were determined for larvae (3rd and 4th instars), adult males (3 days post emergence), non-blood fed females (3 days post emergence) and females at 3, 24, 48, 72, and 96 hours following a blood meal, and females aged 18 days with or without a bloodmeal. Functional annotation integrated into the site for keyword searching combines keywords indexed in the ENSEMBL Mosquito Genome database, NCBI non-redundant databases and conserved motifs databases (GO, PFAM, SMART). Sequence data was captured from the ENSEMBL Mosquito Genome database.

The database was updated 12/16/08 with new parameters to link Affymetrix Anopheles/Plasmodium array probeset IDs with associated gene IDs. Alignments of probe sequences to the An. gambiae genome (Ensembl 49) were kindly provided by Vectorbase (Nathan Johnson, Ensembl group, EBI). Probesets containing probes that align to multiple genes, and probesets with >=2 probes with more than one mismatch were not included. With these criteria, 10,832 An. gambiae probesets were accepted, representing 8,661 genes. An Excel spreadsheet documenting the new associations between probeset IDs and geneIDs can be downloaded while the publication is available below.

PUBLICATIONS
Dissanayake, S., Marinotti, O., Ribeiro, J.M.C., & James, A.A. (2006) angaGEDUCI: Anopheles gambiae
           gene expression database with integrated comparative algorithms for identifying conserved DNA motifs in
           promoter sequences. BMC Genomics 7:116. [ PDF | Abstract ]
Marinotti, O., Calvo, E., Nguyen, Q. K., Dissanayake, S., Ribeiro, J. M. C., & James, A. A. (2006)
           Genome-wide analysis of gene expression in adult Anopheles gambiae. Insect Mol Biol 15 (1), 1-12.
           doi: 10.1111/j.1365-2583.2006.00610.x [ PDF | Supplemental Data ]
Marinotti, O., Nguyen, Q. K., Calvo, E., James, A. A., & Ribeiro, J. M. C. (2005) Microarray analysis
           of genes showing variable expression following a blood meal in Anopheles gambiae. Insect Mol Biol
           14 (4), 365-373. [ PDF | Supplemental Data ]
Sieglaff, D. H., Dunn, W. A., Xie, X. S., Megy, K., Marinotti, O., and A. A. James. (2009) Comparative
           genomics allows the discovery of cis-regulatory elements in mosquitoes. Proc Natl Acad Sci 106 (9), 3053-3058.
           [ PDF | Abstract ]


SITE DESCRIPTION
View database Displays all An. gambiae transcripts contained in the Affymetrix GeneChip. Each link invokes a gene entry page displaying a corresponding transcript's developmental expression profile and functional annotation.
Filter database Data-mining interface for use in selecting gene sets that meet tissue- and stage-specific expression criteria, keywords contained within gene functional annotation, and sequences of interest within promoter, 3' untranslated, or coding regions. Once a gene set is selected, users can invoke promoter analysis to search for conserved DNA sequence motifs that occur within the promoter regions of the genes in the gene set.
Import gene set Pre-defined gene sets can be imported into the data-mining interface, or alternatively, gene lists can be entered for importation. In addition, users can submit their own gene sets for immediate listing as a pre-defined gene set.
Documentation User manual providing detailed examples of how the site may be used in a question and answer format.
Contact Short form to get in touch with the site authors.