Promoter profiling and coexpression data analysis identifies 24 novel genes that are coregulated with AMPA receptor genes, GRIAs.
We identified a set of transcriptional elements that are conserved and overrepresented within the promoters of human, mouse, and rat GRIAs by comparing these promoters against a collection of 10,741 gene promoters. Cells regulate functional groups of genes by coordinating the transcriptional and/or posttranscriptional mRNA levels of interacting genes. As such, it is expected that functional groups of genes share the same transcriptional features within their promoters. We found 47 genes whose promoters contain the same combination of transcriptional elements that are overrepresented within the promoters of the GRIA gene family. Coexpressed genes may be transcriptionally coregulated, which in turn suggests that these genes may play complementary roles within a particular functional context. Using microarray expression data, we found 24 (of the 47) genes that share not only a similar promoter profile with GRIAs but also a well-correlated gene expression profile and, thus, we believe these to be coregulated with GRIAs.
Chong
Allen
A
Molecular Bioinformatics Group, Institute for Infocomm Research, 21 Heng Mui Keng Terrace, Singapore 119613, Singapore. chongallen@yahoo.com
Zhang
Zhuo
Z
Choi
Kwok Pui
KP
Choudhary
Vidhu
V
Djamgoz
Mustafa B A
MB
Zhang
Guanglan
G
Bajic
Vladimir B
VB
D000818:Animals; D001665:Binding Sites; D001921:Brain / Q000378:metabolism; D019295:Computational Biology; D005786:Gene Expression Regulation; D006801:Humans; D051379:Mice; D020411:Oligonucleotide Array Sequence Analysis; D011401:Promoter Regions, Genetic; D051381:Rats; D018091:Receptors, AMPA / Q000235:genetics*; D050436:Regulatory Elements, Transcriptional; D014158:Transcription, Genetic
D018091:Receptors, AMPA