Please use this identifier to cite or link to this item: https://doi.org/10.1007/s12284-008-9017-4
Title: The promoter signatures in rice LEA genes can be used to build a co-expressing LEA gene network
Authors: Meier, S.
Gehring, C.
MacPherson, C.R.
Kaur, M.
Maqungo, M.
Reuben, S. 
Muyanga, S.
Shih, M.-D.
Wei, F.-J.
Wanchana, S.
Mauleon, R.
Radovanovic, A.
Bruskiewich, R.
Tanaka, T.
Mohanty, B.
Itoh, T.
Wing, R.
Gojobori, T.
Sasaki, T.
Swarup, S. 
Hsing, Y.-i.
Bajic, V.B.
Keywords: Co-expression
Co-regulation
Transcription regulation
Issue Date: Dec-2008
Source: Meier, S., Gehring, C., MacPherson, C.R., Kaur, M., Maqungo, M., Reuben, S., Muyanga, S., Shih, M.-D., Wei, F.-J., Wanchana, S., Mauleon, R., Radovanovic, A., Bruskiewich, R., Tanaka, T., Mohanty, B., Itoh, T., Wing, R., Gojobori, T., Sasaki, T., Swarup, S., Hsing, Y.-i., Bajic, V.B. (2008-12). The promoter signatures in rice LEA genes can be used to build a co-expressing LEA gene network. Rice 1 (2) : 177-187. ScholarBank@NUS Repository. https://doi.org/10.1007/s12284-008-9017-4
Abstract: Coordinated transcriptional modulation of large gene sets depends on the combinatorial use of cis-regulatory motifs in promoters. We postulate that promoter content similarities are diagnostic for co-expressing genes that function coherently during specific cellular responses. To find the coexpressing genes we propose an ab initio method that identifies motif families in promoters of target gene groups, map these families to the promoters of all genes in the genome, and determine the best matches of each of the target group gene promoters with all other promoters. When the method was tested in rice starting from a group of co-expressing Late Embryogenesis Abundant (LEA) genes, we obtained a promoter similarity-based network that contained candidate genes that could plausibly complement the function of LEA genes. Importantly, 73.36% of 244 genes predicted by our method were experimentally confirmed to co-express with the LEA genes inmaturing rice embryos,making thismethodology a promising tool for biological systems analyses. © The Author(s) 2008.
Source Title: Rice
URI: http://scholarbank.nus.edu.sg/handle/10635/50741
ISSN: 19398425
DOI: 10.1007/s12284-008-9017-4
Appears in Collections:Staff Publications

Show full item record
Files in This Item:
There are no files associated with this item.

SCOPUSTM   
Citations

12
checked on Dec 5, 2017

WEB OF SCIENCETM
Citations

12
checked on Nov 14, 2017

Page view(s)

38
checked on Dec 9, 2017

Google ScholarTM

Check

Altmetric


Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.