Special micro array data related to plants infected by pathogens.
http://www.genomics.agilent.com/ProductFinder.aspx?PageType=Platform&SubPageType=PlatformProductFinder&PageID=288&GroupId=120
(You can go Custom synthesis, too).
http://www.affymetrix.com/support/technical/byproduct.affx?cat=exparrays
You need to know, microarray IS NOT the cutting edge anymore. For almost two years now, RNAseq is considered frontier technique. It provides the advantage over microarray, that you mass-sequence the expression libraries containing transcripts of both, your pathogen AND invaded plant. By this, you can easier hypothesize on gene-for-gene resistance, pathogen recognition, and resistance mechanisms.
To answer your question specifically:
http://en.wikipedia.org/wiki/Microarray_databases
Right now GEO provide these facility for data analysis. Even you can get R code for whole process. There is an option "Analyze with GEO2R" in GEO. Just read GEO2R manual and play with some data, in will help you.
Chk this link
http://www.ncbi.nlm.nih.gov/geo/
for ex: ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SOFT/GDS_full/GDS3627_full.soft.gz
Dr. Marcin Nowicki, Nitish Mishra, Shreeram Kushwaha ..thank you very much for your valuable reply. I will go through the above mentioned tools and database and hope i will come out ..with a good result. Especially I really thankful to Dr. Marcin Nowicki...for proving new ideas about the RNA sequencing of the infected..plants...
UCSC genome browser has alot of insilico expression data, all the best!
Esther, please follow me and join the Journal Club initiative. We need scientists like yourself. I have followed your work closely over the years. Very best.
Dear Dr. Fatih Uckun,
I would like to join in your journal club. I have gone through your profile..it seems you are much accustomed..with these kind of data. Please let me know how to join...
Bioconductor will be one good tool to analyse micrroarray data http://www.bioconductor.org/help/workflows/oligo-arrays/
Well you will also need to analyze the data after you obtained it. From that point of view, i strongly prefer R/bioconductor to obtain the data ( it's also easy, once you know it) and its also easy to analyze the data after you have downloaded it locally.
The Multiple Experiment Viewer (MeV) provides a nice interface and many methods for analysis, see http://www.tm4.org/mev/.
You may find the data of several thousand microarray experiments in ArrayExpress (http://www.ebi.ac.uk/arrayexpress/).
To get experiments from arrayexpress related to plants you may follow this link: http://www.ebi.ac.uk/arrayexpress/browse.html?keywords=plants+infected+pathogens
Good luck!
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