E-MTAB-2037 - Transcription profiling by RNA-seq of seven tissues from Oryza sativa japonica Nipponbare

Status
Released on 21 December 2011, last updated on 2 May 2014
Organism
Oryza sativa Japonica Group
Samples (7)
Protocols (4)
Description
Expression in seven tissues from Oryza sativa L. ssp japonica Nipponbare was profiled using RNA-sequencing: callus, leaf, root, seed, shoot, panicle before flowering, and panicle after flowering. The original experiment examined gene expression in the seven tissues, and utilized the data both to compare gene expression patterns between retrogenes and their parents and to compare patterns of expression divergence between RNA-based duplicates and DNA-based duplicates Note: All samples in SRA were assigned the same sample accession (DRS000668). This is incorrect as there are different samples, hence “Source Name” was replaced with new values. Comment[ENA_SAMPLE] contains the original SRA sample accessions.
Experiment types
RNA-seq of coding RNA, organism part comparison design
Contacts
Maria C Keays <mkeays@ebi.ac.uk>, National Institute of Agrobiological Sciences, Brandon S Gaut <bgaut@uci.edu>
Citation
Retrogenes in rice (Oryza sativa L. ssp. japonica) exhibit correlated expression with their source genes. Sakai H, Mizuno H, Kawahara Y, Wakimoto H, Ikawa H, Kawahigashi H, Kanamori H, Matsumoto T, Itoh T, Gaut BS. , Europe PMC 22042334
MINSEQE
Exp. designProtocolsFactorsProcessedSeq. reads
Files
Investigation descriptionE-MTAB-2037.idf.txt
Sample and data relationshipE-MTAB-2037.sdrf.txt
Links