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Status
Public on May 07, 2014
Title
Affymetrix AGRONOMICS Tiling Array [CDF: agronomics1_TAIRG_15.0.0]
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Arabidopsis thaliana Manufacturer
Affymetrix
Manufacture protocol
In collaboration with Affymetrix, the European AGRON-OMICS project has developed a new array including probes representing both strands of the entire Arabidopsis genome. Performance comparison with the ATH1 array indicates that both microarrays yield data of comparable quality, but that the new tiling array yields expression information for significantly more genes, since the ATH1 array profiles only about 65% of >33.000 TAIR9 annotated genes. The AGRONOMICS1 arrays also carry all of the original ATH1 sense probes, thereby streamlining the integration with ATH1-based results.
Submission date
May 07, 2014
Last update date
May 14, 2014
Contact name
GEO admin
E-mail(s)
geo@ncbi.nlm.nih.gov Organization name
NCBI/NLM/NIH
Street address
9000 Rockville Pike
City
Bethesda
State/province
MD
ZIP/Postal code
20892
Country
USA
Samples (48)
GSM1382285 , GSM1382286 , GSM1382287 , GSM1382288 , GSM1382289 , GSM1382290
GSM1382291 ,
GSM1382292 ,
GSM1382293 ,
GSM1382294 ,
GSM1382295 ,
GSM1382296 ,
GSM1382297 ,
GSM1382298 ,
GSM1382299 ,
GSM1382300 ,
GSM1382301 ,
GSM1382302 ,
GSM1382303 ,
GSM1382304 ,
GSM1382305 ,
GSM1382306 ,
GSM1382307 ,
GSM1382308 ,
GSM1382309 ,
GSM1382310 ,
GSM1382311 ,
GSM1382312 ,
GSM1382313 ,
GSM1382314 ,
GSM1382315 ,
GSM1382316 ,
GSM1382317 ,
GSM1382318 ,
GSM1382319 ,
GSM1382320 ,
GSM1382321 ,
GSM1382322 ,
GSM1382323 ,
GSM1382324 ,
GSM1382325 ,
GSM1382326 ,
GSM1382327 ,
GSM1382328 ,
GSM1382329 ,
GSM1382330 ,
GSM1382331 ,
GSM1382332 Series (1)
GSE57416 Combinatorial activities of SHORT VEGETATIVE PHASE and FLOWERING LOCUS C define distinct modes of flowering regulation in Arabidopsis
Relations Alternative to
GPL13479
Data table header descriptions ID ORF Description
Data table ID ORF Description AT1G01010_at
AT1G01010
Symbols: ANAC001, NAC001 | NAC domain containing protein 1 | chr1:3631-5899 FORWARD LENGTH=1688
AT1G01020_at
AT1G01020
Symbols: ARV1 | Arv1-like protein | chr1:5928-8737 REVERSE LENGTH=1623
AT1G01030_at
AT1G01030
Symbols: NGA3 | AP2/B3-like transcriptional factor family protein | chr1:11649-13714 REVERSE LENGTH=1905
AT1G01040_at
AT1G01040
Symbols: DCL1, CAF, SUS1, SIN1, ASU1, EMB76, EMB60, ATDCL1 | dicer-like 1 | chr1:23146-31227 FORWARD LENGTH=6251
AT1G01046_at
AT1G01046
Symbols: MIR838A | MIR838a; miRNA | chr1:28500-28706 FORWARD LENGTH=207
AT1G01050_at
AT1G01050
Symbols: AtPPa1, PPa1 | pyrophosphorylase 1 | chr1:31170-33153 REVERSE LENGTH=976
AT1G01060_at
AT1G01060
Symbols: LHY | Homeodomain-like superfamily protein | chr1:33967-37871 REVERSE LENGTH=2722
AT1G01070_at
AT1G01070
Symbols: | nodulin MtN21 /EamA-like transporter family protein | chr1:38752-40927 REVERSE LENGTH=1433
AT1G01080_at
AT1G01080
Symbols: | RNA-binding (RRM/RBD/RNP motifs) family protein | chr1:45296-47019 REVERSE LENGTH=1319
AT1G01090_at
AT1G01090
Symbols: PDH-E1 ALPHA | pyruvate dehydrogenase E1 alpha | chr1:47485-49286 REVERSE LENGTH=1627
AT1G01100_at
AT1G01100
Symbols: | 60S acidic ribosomal protein family | chr1:50075-51199 REVERSE LENGTH=631
AT1G01110_at
AT1G01110
Symbols: IQD18 | IQ-domain 18 | chr1:52239-54692 FORWARD LENGTH=1782
AT1G01115_at
AT1G01115
Symbols: | unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: endomembrane system; Has 0 Blast hits to 0 proteins in 0 species (source: NCBI BLink). | chr1:56624-56740 FORWARD LENGTH=117
AT1G01120_at
AT1G01120
Symbols: KCS1 | 3-ketoacyl-CoA synthase 1 | chr1:57269-59167 REVERSE LENGTH=1899
AT1G01130_at
AT1G01130
Symbols: | CONTAINS InterPro DOMAIN/s: CBL-interacting protein kinase (InterPro:IPR020660), Calcium/calmodulin-dependent protein kinase-like (InterPro:IPR020636); BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT5G47170.1); Has 176 Blast hits to 176 proteins in 20 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 176; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink). | chr1:61905-63811 REVERSE LENGTH=375
AT1G01140_at
AT1G01140
Symbols: CIPK9, PKS6 | CBL-interacting protein kinase 9 | chr1:64167-67625 REVERSE LENGTH=1694
AT1G01150_at
AT1G01150
Symbols: | Homeodomain-like protein with RING/FYVE/PHD-type zinc finger domain | chr1:70115-72138 REVERSE LENGTH=1178
AT1G01160_at
AT1G01160
Symbols: GIF2 | GRF1-interacting factor 2 | chr1:72339-74096 FORWARD LENGTH=1045
AT1G01170_at
AT1G01170
Symbols: | Protein of unknown function (DUF1138) | chr1:73931-74731 REVERSE LENGTH=503
AT1G01180_at
AT1G01180
Symbols: | S-adenosyl-L-methionine-dependent methyltransferases superfamily protein | chr1:75583-76758 FORWARD LENGTH=1176
31004 4677 Kbytes .Supplementary file Size Download File type/resource GPL18660_AGRONOMICS1_At_TAIRG_15.0.0.cdf.gz
20.6 Mb
(ftp) (http) CDF
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