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Go back to [http://wiki.plantontology.org:8080/index.php/TIPS_Fall_2010 TIPS paper page] ==[https://www.genevestigator.com/gv/index.jsp Genevestigator]== Organisms: High quality sources only: '''''Arabidopsis thaliana''''' source expts: * '''AG 8K array''', 90 expts NASC (72), GEO (18) * '''ATH1: 22K array:''' 5760 expts -Gruissem lab (18), NSAC (326), FGCZ (55), GEO (2731), ArrayExpress (1679), AtGenExpress (876), TAIR (38), other (37) '''''Oryza sativa''''' source expts: *'''Os_51K''' [http://www.affymetrix.com/browse/products.jsp?productId=131497&navMode=34000&navAction=jump&aId=productsNav#1_1 Rice Genome Array 51K]: 162 expts: GEO (151), PlexDB (11) ==[http://onlinelibrary.wiley.com/doi/10.1111/j.1365-313X.2009.04100.x/full Rice Gene Expression Atlas (Wang et al, 2010)]== *[http://www.affymetrix.com/browse/products.jsp?productId=131497&navMode=34000&navAction=jump&aId=productsNav#1_1 Affymetrics GeneChip® Rice Genome Array ] -contains 57,381 probe sets in total, of which 1347 represent 1260 transcripts of an indica variety and 54 168 represent 48 564 transcripts of a japonica variety. *31 tissues/organs from throughout the plant life cycle,from two ''indica'' varieties; Zhenshan 97 and Minghui 63. *8 (callus) samples spanning the tissue culture process of genetic transformation were also included, *Total number of tissues were 39- this is actually only 15 different tissues/organs, but some were taken at different developmental stages ( ). -germinating seed -plumule (2) -radicle (2) -seedling (5) -leaf sheath (2) -stem (2) -leaf (4) -palea + lemma -stamen -spikelet -endosperm (3) -panicle (5) -root -shoot -Callus (8) Data was deposited in the database CREP [http://crep.ncpgr.cn Collections of Rice Expression Profiling]. -It can be searched by querying single gene or multiple genes using gene sequences, gene names, or the probe identifications, for items like quantified expression values, the co-expressed genes, the tissues and varieties in which they are expressed. ==Other sources of micorarray data:== UC Davis [http://ricearray.org/index.shtml Ricearray.org] GEO [http://www.ncbi.nlm.nih.gov/geo/ Gene Expression Omnibus] CREP Database (wang et al, 2010) [http://crep.ncpgr.cn Collections of Rice Expression Profiling] PlexDB [http://www.plexdb.org/ Plant Expression Database]

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