The promoter signatures in rice LEA genes can be used to build a co-expressing LEA gene network

Vista sencilla de ítem
dc.creatorMeier, Stuart
dc.creatorGehring, Chris
dc.creatorMacPherson, Cameron Ross
dc.creatorKaur, Mandeep
dc.creatorMaqungo, Monique
dc.creatorReuben, Sheela
dc.creatorMuyanga, Samson
dc.creatorShih, Ming-Der
dc.creatorWei, Fu-Jin
dc.creatorWanchana, Samart
dc.creatorMauleon, Ramil
dc.creatorRadovanovic, Aleksandar
dc.creatorBruskiewich, Richard
dc.creatorTanaka, Tsuyoshi
dc.creatorMohanty, Bijayalaxmi
dc.creatorItoh, Takeshi
dc.creatorWing, Rod
dc.creatorGojobori, Takashi
dc.creatorSasaki, Takuji
dc.creatorSwarup, Sanjay
dc.creatorHsing, Yue-ie
dc.creatorBajic, Vladimir B.
dc.date2008-12
dc.date2024-12-19T12:56:02Z
dc.date2024-12-19T12:56:02Z
dc.date.accessioned2026-06-27T04:16:09Z
dc.descriptionCoordinated 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 co-expressing 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 in maturing rice embryos, making this methodology a promising tool for biological systems analyses.
dc.identifierhttps://hdl.handle.net/10568/166246
dc.identifier.urihttp://hdl.handle.net/123456789/27166
dc.languageen
dc.publisherSpringer
dc.rightsOpen Access
dc.sourceMeier, Stuart; Gehring, Chris; MacPherson, Cameron Ross; Kaur, Mandeep; Maqungo, Monique; Reuben, Sheela; Muyanga, Samson; Shih, Ming-Der; Wei, Fu-Jin; Wanchana, Samart; Mauleon, Ramil; Radovanovic, Aleksandar; Bruskiewich, Richard; Tanaka, Tsuyoshi; Mohanty, Bijayalaxmi; Itoh, Takeshi; Wing, Rod; Gojobori, Takashi; Sasaki, Takuji; Swarup, Sanjay; Hsing, Yue-ie and Bajic, Vladimir B. 2008. The promoter signatures in rice LEA genes can be used to build a co-expressing LEA gene network. Rice, Volume 1 no. 2 p. 177-187
dc.subjectgenes
dc.subjectgene expression
dc.subjectgenetic regulation
dc.subjecttranscription
dc.subjectpromoters
dc.titleThe promoter signatures in rice LEA genes can be used to build a co-expressing LEA gene network
dc.typeJournal Article

Archivos

Colecciones

Instituto Internacional de Investigación del Arroz (IRRI)