E-GEOD-8432 - Transcription profiling of soybean soybean line PI200492 resistant to P. pachyrhizi

Status
Submitted on 10 July 2007, released on 16 June 2008, last updated on 2 May 2014
Organism
Glycine max
Samples (27)
Array (1)
Protocols (7)
Description
Affymetrix soybean genome arrays were used to identify genes differentially expressed in the immune resistance response at 6, 12, 24, and 48 hours after inoculation with Phakopsora pachyrhizi isolates TW72-1 or HW94-1; soybean + HW94-1 = resistant; soybean + TW72-1 = susceptible Experiment Overall Design: For each of 4 time points (6, 12, 24 and 48 hours post inoculation) a soybean PI200492 plant was inoculated with 2 treatments: HW94-1, or TW72-1. A mock inoculation was performed and sampled at time 0. There were three biological replicates of the entire experiment, for a total of 27 samples. During data analysis two samples failed the quality control metrics and were removed from the analysis, leaving 25 samples in the final data set.
Experiment types
transcription profiling by array, unknown experiment type
Contact
Citation
A microarray analysis for differential gene expression in the soybean genome using Bioconductor and R. W Gregory Alvord, Jean A Roayaei, Octavio A Quiñones, Katherine T Schneider. Brief Bioinformatics 8(6):415-31 (2007)
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-8432.idf.txt
Sample and data relationshipE-GEOD-8432.sdrf.txt
Raw data (1)E-GEOD-8432.raw.1.zip
Processed data (1)E-GEOD-8432.processed.1.zip
Array designA-AFFY-59.adf.txt
R ExpressionSetE-GEOD-8432.eSet.r
Links