260955_at
type: EFO_0005072
part of: A-AFFY-2

ATACA2
type: EnsemblDatabaseReference

AT4G01700
type: EnsemblDatabaseReference

AT1G24140 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.57741157733451
p value: 0.00249179982780952
refers to: AT1G24140
refers to: 264866_at
t statistic: 10.129289810112

AT1G29310
type: EnsemblDatabaseReference

AT1G56060
type: EnsemblDatabaseReference

PDR12
type: EnsemblDatabaseReference

AIR12 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.20265044061292
p value: 0.0256499143058873
refers to: AIR12
refers to: 259018_at
t statistic: 5.113331200291

PDR12 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.13241412728395
p value: 0.0120252115163552
refers to: PDR12
refers to: 261763_at
t statistic: 6.44831372006174

WRKY54
type: EnsemblDatabaseReference

Arabidopsis thaliana
type: OBI_0100026

PLA-I{beta]2
type: EnsemblDatabaseReference

(Assay) Diamond_A-2-Diamo-met_SLD
type: Assay
has participant: A-AFFY-2

AT1G19020 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.55219770819732
p value: 0.00249179982780952
refers to: 259479_at
refers to: AT1G19020
t statistic: 10.0253035609137

AT3G60420
type: EnsemblDatabaseReference

(Assay) Diamond_A-3-Diamo-fum_SLD
type: Assay
has participant: A-AFFY-2

AT3G22600 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.75115376928137
p value: 0.00899143780528483
refers to: 256933_at
refers to: AT3G22600
t statistic: 7.15015596187486

246366_at
type: EFO_0005072
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ATACA2
type: EnsemblDatabaseReference

AT3G48640
type: EnsemblDatabaseReference

AT1G50590
type: EnsemblDatabaseReference

BIP3 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 3.79749993837419
p value: 1.13308963122467E-4
refers to: BIP3
refers to: 264648_at
t statistic: 18.921482490317

AT2G28710
type: EnsemblDatabaseReference

266983_at
type: EFO_0005072
part of: A-AFFY-2

PDR12
type: EnsemblDatabaseReference

F3H DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.09822715249278
p value: 0.00556642947710771
refers to: F3H
refers to: 252123_at
t statistic: -8.33266813246716

F3H
type: EnsemblDatabaseReference

251705_at
type: EFO_0005072
part of: A-AFFY-2

AT3G60420
type: EnsemblDatabaseReference

260083_at
type: EFO_0005072
part of: A-AFFY-2

(Factor value) GROWTH_CONDITION/control
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property type: GROWTH_CONDITION
property value: control

257636_at
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245447_at
type: EFO_0005072
part of: A-AFFY-2

AT3G48640
type: EnsemblDatabaseReference

AT1G26380
type: EnsemblDatabaseReference

ATERF6
type: EnsemblDatabaseReference

(Assay) Diamond_A-3-Diamo-met_SLD
type: Assay
has participant: A-AFFY-2

AT1G50590
type: EnsemblDatabaseReference

CRK7 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.00793781604628
p value: 0.0482932396922524
refers to: CRK7
refers to: 254271_at
t statistic: 4.19757770919021

AT2G28710
type: EnsemblDatabaseReference

AT2G32190 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.03004661084675
p value: 0.0108143836042364
refers to: AT2G32190
refers to: 265674_at
t statistic: 6.8003373692329

261876_at
type: EFO_0005072
part of: A-AFFY-2

ATHPP2C5 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.0920504620012
p value: 0.0358606329395455
refers to: ATHPP2C5
refers to: 263378_at
t statistic: 4.58702508365529

251950_at
type: EFO_0005072
part of: A-AFFY-2

AT2G32190
type: EnsemblDatabaseReference

F3H
type: EnsemblDatabaseReference

AT1G56060 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 2.18972167880366
p value: 1.18600163501604E-4
refers to: AT1G56060
refers to: 262085_at
t statistic: 16.9169936927696

264648_at
type: EFO_0005072
part of: A-AFFY-2

AT3G53600 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.23013563424042
p value: 0.0324198253483141
refers to: 251950_at
refers to: AT3G53600
t statistic: 4.71074844804512

BIP3
type: EnsemblDatabaseReference

(Sample) organism/Arabidopsis thaliana
type: Arabidopsis thaliana
property type: organism
property value: Arabidopsis thaliana

259479_at
type: EFO_0005072
part of: A-AFFY-2

256647_at
type: EFO_0005072
part of: A-AFFY-2

262118_at
type: EFO_0005072
part of: A-AFFY-2

AT4G01700 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.58480402398968
p value: 0.00153183406652556
refers to: AT4G01700
refers to: 255595_at
t statistic: -10.923915929725

ATHPP2C5
type: EnsemblDatabaseReference

ATSAR1
type: EnsemblDatabaseReference

AT3G48640 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.16309195685342
p value: 0.00581613774557952
refers to: 252345_at
refers to: AT3G48640
t statistic: -7.99944075527772

ATERF6
type: EnsemblDatabaseReference

264866_at
type: EFO_0005072
part of: A-AFFY-2

AIR12
type: EnsemblDatabaseReference

AT3G13650/MMM17_4 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.01341820567172
p value: 0.0129580767272313
refers to: AT3G13650/MMM17_4
refers to: 256781_at
t statistic: 6.32559307302567

AT2G32190
type: EnsemblDatabaseReference

260896_at
type: EFO_0005072
part of: A-AFFY-2

252123_at
type: EFO_0005072
part of: A-AFFY-2

BIP3
type: EnsemblDatabaseReference

251400_at
type: EFO_0005072
part of: A-AFFY-2

265674_at
type: EFO_0005072
part of: A-AFFY-2

ATHPP2C5
type: EnsemblDatabaseReference

ATSAR1
type: EnsemblDatabaseReference

ATSAR1 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.11436618803027
p value: 8.26223634824885E-4
refers to: ATSAR1
refers to: 264252_at
t statistic: 12.0476040173861

AIR12
type: EnsemblDatabaseReference

JAZ7
type: EnsemblDatabaseReference

262085_at
type: EFO_0005072
part of: A-AFFY-2

AT1G50590 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.30722911095359
p value: 0.0237624096263914
refers to: AT1G50590
refers to: 261876_at
t statistic: 5.25987875054558

CYP71B22 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 2.00364098181681
p value: 0.00845729679418764
refers to: 257636_at
refers to: CYP71B22
t statistic: 7.3349960296352

(Assay) Diamond_A-4-Diamo-met_SLD
type: Assay
has participant: A-AFFY-2

AT2G28710 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.33390267620099
p value: 0.0163096057035475
refers to: 263411_at
refers to: AT2G28710
t statistic: 5.99005799116862

BGLU11
type: EnsemblDatabaseReference

263411_at
type: EFO_0005072
part of: A-AFFY-2

F6'H1
type: EnsemblDatabaseReference

GLP9
type: EnsemblDatabaseReference

CRK7
type: EnsemblDatabaseReference

AT2G39400 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.2246980884967
p value: 0.0422445208514286
refers to: 266983_at
refers to: AT2G39400
t statistic: 4.3738701239567

AT2G23910
type: EnsemblDatabaseReference

BGLU11 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.05797077869238
p value: 0.0163096057035475
refers to: 262118_at
refers to: BGLU11
t statistic: -5.99520647848328

JAZ7
type: EnsemblDatabaseReference

251422_at
type: EFO_0005072
part of: A-AFFY-2

256933_at
type: EFO_0005072
part of: A-AFFY-2

AT1G63220 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.12416742928641
p value: 0.0260541821162813
refers to: 260083_at
refers to: AT1G63220
t statistic: 5.07929724893641

(Assay) Diamond_A-4-Diamo-fum_SLD
type: Assay
has participant: A-AFFY-2

Analysis of 'fumonisin B1' vs 'control'
type: MicroarrayDifferentialExpressionAnalysis

256781_at
type: EFO_0005072
part of: A-AFFY-2

AT1G63220
type: EnsemblDatabaseReference

BGLU11
type: EnsemblDatabaseReference

PLA-I{beta]2 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.74043601031592
p value: 0.0120252115163552
refers to: PLA-I{beta]2
refers to: 245447_at
t statistic: 6.48279587519557

A-AFFY-2
type: EFO_0000269

245567_at
type: EFO_0005072
part of: A-AFFY-2

F6'H1
type: EnsemblDatabaseReference

GLP9
type: EnsemblDatabaseReference

CRK7
type: EnsemblDatabaseReference

AT2G23910
type: EnsemblDatabaseReference

AT2G22620
type: EnsemblDatabaseReference

262229_at
type: EFO_0005072
part of: A-AFFY-2

AT1G19020
type: EnsemblDatabaseReference

266901_at
type: EFO_0005072
part of: A-AFFY-2

AT3G60540 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.02576095587555
p value: 0.0203958477058763
refers to: AT3G60540
refers to: 251422_at
t statistic: 5.67184138479901

265572_at
type: EFO_0005072
part of: A-AFFY-2

265260_at
type: EFO_0005072
part of: A-AFFY-2

WRKY54 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.78313872226682
p value: 8.26223634824885E-4
refers to: WRKY54
refers to: 257382_at
t statistic: -11.9506859411125

ATACA2 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.646047939678
p value: 0.00556642947710771
refers to: ATACA2
refers to: 265572_at
t statistic: 8.33956718321809

(Assay) Diamond_A-1-Diamo-fum_SLD
type: Assay
has participant: A-AFFY-2

259018_at
type: EFO_0005072
part of: A-AFFY-2

AT1G63220
type: EnsemblDatabaseReference

GLP9 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.08556137456907
p value: 0.0120252115163552
refers to: GLP9
refers to: 245567_at
t statistic: 6.444215983743

AT1G51850
type: EnsemblDatabaseReference

AT2G39400
type: EnsemblDatabaseReference

261021_at
type: EFO_0005072
part of: A-AFFY-2

AT1G24140
type: EnsemblDatabaseReference

261763_at
type: EFO_0005072
part of: A-AFFY-2

AT2G22620
type: EnsemblDatabaseReference

AT1G19020
type: EnsemblDatabaseReference

(Assay) Diamond_A-2-Diamo-fum_SLD
type: Assay
has participant: A-AFFY-2

CYP71B22
type: EnsemblDatabaseReference

AT2G22620 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.04539408915273
p value: 0.0203958477058763
refers to: AT2G22620
refers to: 265350_at
t statistic: 5.71885840142606

AT3G13650/MMM17_4
type: EnsemblDatabaseReference

AT1G29310 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.04269975588804
p value: 0.00506925978942377
refers to: AT1G29310
refers to: 260896_at
t statistic: 8.54304506386018

AT3G22600
type: EnsemblDatabaseReference

266578_at
type: EFO_0005072
part of: A-AFFY-2

F6'H1 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.0957012038199
p value: 0.0119220224401408
refers to: F6'H1
refers to: 256647_at
t statistic: -6.58341117122466

WRKY70
type: EnsemblDatabaseReference

(Sample) ecotype/Landsberg erecta
type: EFO_0005154
property type: ecotype
property value: Landsberg erecta

AT1G26380 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.81791375837698
p value: 0.0273444140013208
refers to: AT1G26380
refers to: 261021_at
t statistic: 5.03457516989984

AT1G51850
type: EnsemblDatabaseReference

AT2G39400
type: EnsemblDatabaseReference

ATERF6 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.31708490038384
p value: 0.0163096057035475
refers to: ATERF6
refers to: 245250_at
t statistic: 5.99861677052302

AT3G60540
type: EnsemblDatabaseReference

AT1G24140
type: EnsemblDatabaseReference

UGT89C1 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.01301642712326
p value: 0.00899143780528483
refers to: 260955_at
refers to: UGT89C1
t statistic: -7.19214190286522

CYP71B22
type: EnsemblDatabaseReference

AT1G26380
type: EnsemblDatabaseReference

anac042
type: EnsemblDatabaseReference

AT3G13650/MMM17_4
type: EnsemblDatabaseReference

AT1G51850 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.24895487993637
p value: 0.0119220224401408
refers to: AT1G51850
refers to: 246366_at
t statistic: -6.5224519307145

AT3G22600
type: EnsemblDatabaseReference

AT3G53600
type: EnsemblDatabaseReference

WRKY70 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.62568738951619
p value: 1.18600163501604E-4
refers to: WRKY70
refers to: 251705_at
t statistic: -16.5769771058276

WRKY70
type: EnsemblDatabaseReference

AT3G60420 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.50718718794172
p value: 5.17391566575163E-4
refers to: 251400_at
refers to: AT3G60420
t statistic: -13.4272190785486

anac042 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.55743426664297
p value: 0.0138394835963646
refers to: anac042
refers to: 265260_at
t statistic: 6.2178442518265

AT3G60540
type: EnsemblDatabaseReference

245250_at
type: EFO_0005072
part of: A-AFFY-2

254271_at
type: EFO_0005072
part of: A-AFFY-2

UGT89C1
type: EnsemblDatabaseReference

anac042
type: EnsemblDatabaseReference

AT3G53600
type: EnsemblDatabaseReference

CXE6
type: EnsemblDatabaseReference

(Assay) Diamond_A-1-Diamo-met_SLD
type: Assay
has participant: A-AFFY-2

257382_at
type: EFO_0005072
part of: A-AFFY-2

AT2G23910 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.25712186671068
p value: 0.00928333263343198
refers to: AT2G23910
refers to: 266578_at
t statistic: -7.05510982325532

(Factor value) GROWTH_CONDITION/fumonisin B1
type: EFO_0000001
property type: GROWTH_CONDITION
property value: fumonisin B1

265350_at
type: EFO_0005072
part of: A-AFFY-2

UGT89C1
type: EnsemblDatabaseReference

AT4G01700
type: EnsemblDatabaseReference

263378_at
type: EFO_0005072
part of: A-AFFY-2

CXE6 UP in 'fumonisin B1' vs 'control'
type: IncreasedDifferentialExpressionRatio
fold change: 1.14823522759432
p value: 0.0320098669907875
refers to: CXE6
refers to: 262229_at
t statistic: 4.75358095822504

CXE6
type: EnsemblDatabaseReference

E-GEOD-5735
type: microarray 1colour mrna differential
RO_0002162: Arabidopsis thaliana
description: PCD is a highly organised process that is involved in development and in an organisms response to biotic stresses (toxins and avirulent pathogens) and abiotic stresses (such as temperature, water availability, etc.). It is a genetically regulated form of cellular suicide, however in plants the underlying process is poorly understood. Although PCD may occur in response to different stimuli; we believe once it is triggered, one core mechanism is responsible for the cellular demise. It is our aim to identify the elements of this mechanism. We will do this by expanding on the work of a previous user of GARNet's GeneChip microarray facility, Dr. Jodi Swidzinski. She utilised an Arabidopsis cell suspension system; performing microarray analysis on both senescing, and heat shock induced PCD samples. This resulted in data showing that a large number of genes were upregulated (or downregulated) in response to both treatments. We are working under the premise that some of the genes that were similarly regulated under both treatments must be core PCD genes. However because of the large amount of data generated it is difficult to choose appropriate candidate genes (with any degree of confidence that they are core genes) for further study. We propose to use a third PCD-inducing treatment, involving a mycotoxin, to generate another population of microarray results. The mycotoxin we intend to use is Fumonisin B1 (FB1). This is an extremely potent compound that induces PCD by disrupting ceramide synthesis. We have found Arabidopsis protoplasts to be much more sensitive than cells to the toxin at low concentrations. Protoplasts are treated with 20mM FB1 and RNA is extracted at time points when 0%, 20% and 40% of protoplasts have died. This RNA is then pooled. RNA from methanol treated protoplasts is used as a control. We intend for these RNA samples to be subjected to GeneChip microarray analysis. This would identify genes differentially regulated due to FB1 treatment, which would b…

AT1G29310
type: EnsemblDatabaseReference

AT1G56060
type: EnsemblDatabaseReference

WRKY54
type: EnsemblDatabaseReference

PLA-I{beta]2
type: EnsemblDatabaseReference

264252_at
type: EFO_0005072
part of: A-AFFY-2

JAZ7 DOWN in 'fumonisin B1' vs 'control'
type: DecreasedDifferentialExpressionRatio
fold change: -1.9974144484646
p value: 0.00597554286114403
refers to: JAZ7
refers to: 266901_at
t statistic: -7.84891904914009

252345_at
type: EFO_0005072
part of: A-AFFY-2

255595_at
type: EFO_0005072
part of: A-AFFY-2