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Series GSE39048 Query DataSets for GSE39048
Status Public on Nov 14, 2013
Title Genome-wide analysis rice transcriptional change during the early stages of false smut formation caused by Ustilaginoidea virens [2011].
Organism Oryza sativa Indica Group
Experiment type Expression profiling by high throughput sequencing
Summary Rice false smut is a common fungal disease caused by Ustilaginoidea virens. As it only scatter occured in panicle at florescence, little information is known about this crop disease. In the previous study, 3 uninterrupted infecting stages were divided and each stage was monitored by Solexa/Illumina’s digital gene expression (DGE) system, and all data were submitted to NCBI (GSE32010). As the disease was greatly affected by environment and to eliminate environment factor, an experimental replication was done in 2011. Samples collection and analysis were described in GSE32010. Our results contribute to the knowledge of understanding rice molecular mechanism in response to U. virens infection.
 
Overall design Four samples including one control (CK) and three infected (S1, S2, S3) were analyzed.
 
Contributor(s) Chao J, Zhu Y
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Jul 02, 2012
Last update date May 15, 2019
Contact name Chao Jin Quan
E-mail(s) tianwang208@163.com
Organization name Wuhan University
Department College of Life Sciences
Lab State Key lab of Hybrid Rice
Street address Bayi Road,Wuchang
City Wuhan
State/province Hubei
ZIP/Postal code 430072
Country China
 
Platforms (1)
GPL14553 Illumina HiSeq 2000 (Oryza sativa Indica Group)
Samples (4)
GSM954711 Spike_control (2011CK)
GSM954712 Spike_infected_stage 1 (2011S1)
GSM954713 Spike_infected_stage 2 (2011S2)
This SubSeries is part of SuperSeries:
GSE39049 Genome-wide analysis rice transcriptional change during the early stages of false smut formation caused by Ustilaginoidea virens
Relations
BioProject PRJNA169661
SRA SRP013982

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE39048_CK-VS-S1.GeneDiffExpFilter.txt.gz 250.7 Kb (ftp)(http) TXT
GSE39048_CK-VS-S2.GeneDiffExpFilter.txt.gz 227.4 Kb (ftp)(http) TXT
GSE39048_CK-VS-S3.GeneDiffExpFilter.txt.gz 328.9 Kb (ftp)(http) TXT
GSE39048_RAW.tar 1.8 Gb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Processed data provided as supplementary file
Processed data are available on Series record
Raw data are available in SRA

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