AT1G80850
type: EnsemblDatabaseReference

WRR4
type: EnsemblDatabaseReference

AT2G47680
type: EnsemblDatabaseReference

ATM
type: EnsemblDatabaseReference

CYC1
type: EnsemblDatabaseReference

AT1G59660
type: EnsemblDatabaseReference

(Factor value) GENOTYPE/wild type genotype
type: EFO_0000001
property type: GENOTYPE
property value: wild type genotype

AGO2 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.54265556666667
p value: 2.83968054630319E-4
refers to: 262548_at
refers to: AGO2
t statistic: -15.1616221595248

AGO2
type: EnsemblDatabaseReference

PARP2
type: EnsemblDatabaseReference

Analysis of 'AtATM3 mutant' vs 'wild type'
type: MicroarrayDifferentialExpressionAnalysis

AT3G45730 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -2.53127233333333
p value: 6.61657968199981E-4
refers to: AT3G45730
refers to: 252539_at
t statistic: -12.9822218452029

AT2G45460
type: EnsemblDatabaseReference

Arabidopsis thaliana
type: OBI_0100026

(Sample) genotype/AtATM3 mutant
type: EFO_0000001
property type: genotype
property value: AtATM3 mutant

AT1G59660 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.75652223333333
p value: 1.67122459296201E-4
refers to: AT1G59660
refers to: 262124_at
t statistic: -16.8369944760129

APP DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -4.880379
p value: 3.35181169499549E-6
refers to: APP
refers to: 255500_at
t statistic: -47.9817574880701

TFIIB
type: EnsemblDatabaseReference

XRI
type: EnsemblDatabaseReference

TSO2
type: EnsemblDatabaseReference

AT3G14560
type: EnsemblDatabaseReference

ARAC7 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.14200473333333
p value: 0.0438385177776335
refers to: ARAC7
refers to: 253757_at
t statistic: -5.07896070258446

258091_at
type: EFO_0005072
part of: A-AFFY-2

GMI1 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.31705513333333
p value: 0.00284222290414915
refers to: GMI1
refers to: 249784_at
t statistic: -9.5786142687077

RCE2 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.15727226666667
p value: 4.96559920558463E-4
refers to: 265926_at
refers to: RCE2
t statistic: -13.7739392019752

WRR4
type: EnsemblDatabaseReference

265449_at
type: EFO_0005072
part of: A-AFFY-2

267246_at
type: EFO_0005072
part of: A-AFFY-2

ATM
type: EnsemblDatabaseReference

CYC1
type: EnsemblDatabaseReference

AT1G59660
type: EnsemblDatabaseReference

AT3G07800
type: EnsemblDatabaseReference

PARP2 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -2.13443853333333
p value: 2.06719703130289E-5
refers to: 264116_at
refers to: PARP2
t statistic: -27.3963281572327

AGO2
type: EnsemblDatabaseReference

AT1G80850 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.0181329
p value: 7.49953708723234E-4
refers to: 257474_at
refers to: AT1G80850
t statistic: -12.6445126472636

ATBRCA1 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -3.41384893333333
p value: 3.98205094097625E-5
refers to: ATBRCA1
refers to: 254443_at
t statistic: -22.7297625150942

AT3G10930
type: EnsemblDatabaseReference

RCE2
type: EnsemblDatabaseReference

(Sample) germplasm/Col-0
type: EFO_0005148
property type: germplasm
property value: Col-0

(Assay) GSM477812
type: Assay
has participant: A-AFFY-2

TSO2
type: EnsemblDatabaseReference

(Assay) GSM477808
type: Assay
has participant: A-AFFY-2

AT3G14560
type: EnsemblDatabaseReference

NRAMP3 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.40245616666667
p value: 0.0218941130957102
refers to: NRAMP3
refers to: 267266_at
t statistic: -5.96764148901764

253757_at
type: EFO_0005072
part of: A-AFFY-2

AT3G07800
type: EnsemblDatabaseReference

AT1G23710 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.5326673
p value: 0.00140656083432468
refers to: AT1G23710
refers to: 265184_at
t statistic: -11.0588967327879

(Assay) GSM477809
type: Assay
has participant: A-AFFY-2

AT3G10930
type: EnsemblDatabaseReference

RCE2
type: EnsemblDatabaseReference

245114_at
type: EFO_0005072
part of: A-AFFY-2

AT4G25580
type: EnsemblDatabaseReference

253051_at
type: EFO_0005072
part of: A-AFFY-2

TRFL3 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -2.23457326666667
p value: 1.01468533544698E-4
refers to: 261086_at
refers to: TRFL3
t statistic: -18.5812021439616

GMI1
type: EnsemblDatabaseReference

ATBRCA1
type: EnsemblDatabaseReference

262548_at
type: EFO_0005072
part of: A-AFFY-2

254565_at
type: EFO_0005072
part of: A-AFFY-2

(Sample) developmental stage/Boyes key 1.04
type: EFO_0000001
property type: developmental stage
property value: Boyes key 1.04

AT3G14560 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.7739494
p value: 0.00297466165427662
refers to: AT3G14560
refers to: 258091_at
t statistic: -9.39633506479411

261086_at
type: EFO_0005072
part of: A-AFFY-2

246994_at
type: EFO_0005072
part of: A-AFFY-2

255500_at
type: EFO_0005072
part of: A-AFFY-2

AT4G25580
type: EnsemblDatabaseReference

GMI1
type: EnsemblDatabaseReference

AT3G45730
type: EnsemblDatabaseReference

261065_at
type: EFO_0005072
part of: A-AFFY-2

ATBRCA1
type: EnsemblDatabaseReference

265926_at
type: EFO_0005072
part of: A-AFFY-2

AT3G07800 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -3.94781156666667
p value: 3.35181169499549E-6
refers to: AT3G07800
refers to: 259224_at
t statistic: -44.1929737022147

anac053 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.54201476666667
p value: 1.48273358773693E-4
refers to: anac053
refers to: 258921_at
t statistic: -17.3458334555464

267266_at
type: EFO_0005072
part of: A-AFFY-2

250914_at
type: EFO_0005072
part of: A-AFFY-2

248668_at
type: EFO_0005072
part of: A-AFFY-2

ATCP1
type: EnsemblDatabaseReference

252539_at
type: EFO_0005072
part of: A-AFFY-2

(Sample) genotype/wild type genotype
type: EFO_0000001
property type: genotype
property value: wild type genotype

264116_at
type: EFO_0005072
part of: A-AFFY-2

TRFL10
type: EnsemblDatabaseReference

AT3G45730
type: EnsemblDatabaseReference

256442_at
type: EFO_0005072
part of: A-AFFY-2

(Assay) GSM477807
type: Assay
has participant: A-AFFY-2

(Sample) organism part/whole organism
type: EFO_0002906
property type: organism part
property value: whole organism

ATCP1 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -3.0036681
p value: 6.14474578133491E-6
refers to: ATCP1
refers to: 248607_at
t statistic: -33.9030528741576

245137_at
type: EFO_0005072
part of: A-AFFY-2

AHP2
type: EnsemblDatabaseReference

257474_at
type: EFO_0005072
part of: A-AFFY-2

ATCP1
type: EnsemblDatabaseReference

NRAMP3
type: EnsemblDatabaseReference

A-AFFY-2
type: EFO_0000269

258921_at
type: EFO_0005072
part of: A-AFFY-2

246744_at
type: EFO_0005072
part of: A-AFFY-2

TRFL10
type: EnsemblDatabaseReference

AT1G17360
type: EnsemblDatabaseReference

CIPK11
type: EnsemblDatabaseReference

WRR4 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.81273963333333
p value: 0.00642858178228767
refers to: WRR4
refers to: 259629_at
t statistic: -7.86163161409202

TRFL3
type: EnsemblDatabaseReference

KCS17 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.23332123333333
p value: 0.00381660200025669
refers to: 253240_at
refers to: KCS17
t statistic: -8.74737245980419

259409_at
type: EFO_0005072
part of: A-AFFY-2

AHP2
type: EnsemblDatabaseReference

AT1G07500
type: EnsemblDatabaseReference

AT4G19130
type: EnsemblDatabaseReference

NRAMP3
type: EnsemblDatabaseReference

TRFL10 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -3.4417783
p value: 6.14474578133491E-6
refers to: TRFL10
refers to: 250914_at
t statistic: -34.2299590676658

264674_at
type: EFO_0005072
part of: A-AFFY-2

AT1G17360
type: EnsemblDatabaseReference

RS31a DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.24327073333333
p value: 0.00359474286325695
refers to: RS31a
refers to: 265449_at
t statistic: -8.89621755211079

CIPK11
type: EnsemblDatabaseReference

(Assay) GSM477811
type: Assay
has participant: A-AFFY-2

RS31a
type: EnsemblDatabaseReference

259224_at
type: EFO_0005072
part of: A-AFFY-2

anac053
type: EnsemblDatabaseReference

KCS17
type: EnsemblDatabaseReference

TRFL3
type: EnsemblDatabaseReference

254443_at
type: EFO_0005072
part of: A-AFFY-2

AT2G47680 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.31789633333333
p value: 0.0070544244322139
refers to: AT2G47680
refers to: 266511_at
t statistic: -7.6473715091033

266511_at
type: EFO_0005072
part of: A-AFFY-2

AT4G25580 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.17688393333333
p value: 0.00359474286325695
refers to: AT4G25580
refers to: 245233_at
t statistic: -8.90677966034136

WRKY25 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.87848913333333
p value: 0.00106836598371221
refers to: WRKY25
refers to: 267246_at
t statistic: -11.8730747123438

AT1G23710
type: EnsemblDatabaseReference

POLD4
type: EnsemblDatabaseReference

253157_at
type: EFO_0005072
part of: A-AFFY-2

257809_at
type: EFO_0005072
part of: A-AFFY-2

AT1G07500
type: EnsemblDatabaseReference

(Assay) GSM477810
type: Assay
has participant: A-AFFY-2

AT4G19130 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -2.4920955
p value: 4.93532005131857E-5
refers to: AT4G19130
refers to: 254565_at
t statistic: -21.3732731409464

AT4G19130
type: EnsemblDatabaseReference

(Factor value) GENOTYPE/AtATM3 mutant
type: EFO_0000001
property type: GENOTYPE
property value: AtATM3 mutant

XRI DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -5.83826173333334
p value: 6.14474578133491E-6
refers to: XRI
refers to: 248668_at
t statistic: -35.0469661851486

CIPK11 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -3.34481476666667
p value: 0.00172365598329661
refers to: CIPK11
refers to: 255872_at
t statistic: -10.6374123533433

ATM DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.08785133333333
p value: 0.00140656083432468
refers to: ATM
refers to: 252350_at
t statistic: -11.066259074386

AT1G07500 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.48229226666667
p value: 0.00284774742497983
refers to: AT1G07500
refers to: 261065_at
t statistic: -9.53473089730355

RecQl3 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.55728113333333
p value: 2.50123972413031E-4
refers to: RecQl3
refers to: 253157_at
t statistic: -15.5844738090553

WRKY25
type: EnsemblDatabaseReference

259915_at
type: EFO_0005072
part of: A-AFFY-2

AT5G27760
type: EnsemblDatabaseReference

RS31a
type: EnsemblDatabaseReference

anac053
type: EnsemblDatabaseReference

KCS17
type: EnsemblDatabaseReference

252770_at
type: EFO_0005072
part of: A-AFFY-2

255872_at
type: EFO_0005072
part of: A-AFFY-2

AT1G72790
type: EnsemblDatabaseReference

POLD4
type: EnsemblDatabaseReference

AT1G23710
type: EnsemblDatabaseReference

261031_at
type: EFO_0005072
part of: A-AFFY-2

RecQl3
type: EnsemblDatabaseReference

APP
type: EnsemblDatabaseReference

AT2G45460 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -3.47273816666667
p value: 6.14474578133491E-6
refers to: AT2G45460
refers to: 245137_at
t statistic: -34.1728193242588

248607_at
type: EFO_0005072
part of: A-AFFY-2

262124_at
type: EFO_0005072
part of: A-AFFY-2

AT5G67460
type: EnsemblDatabaseReference

WRKY25
type: EnsemblDatabaseReference

TFIIB DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.179992
p value: 0.00140656083432468
refers to: 245114_at
refers to: TFIIB
t statistic: -11.0494470081957

AT5G27760
type: EnsemblDatabaseReference

AT3G42860 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -2.13697653333333
p value: 2.13572219235829E-5
refers to: 252770_at
refers to: AT3G42860
t statistic: -26.6949555171383

AT1G72790
type: EnsemblDatabaseReference

AT3G42860
type: EnsemblDatabaseReference

RecQl3
type: EnsemblDatabaseReference

AT1G17360 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -2.3151079
p value: 0.0166559164348479
refers to: AT1G17360
refers to: 261031_at
t statistic: -6.41695238104689

APP
type: EnsemblDatabaseReference

AT5G27760 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.02853933333333
p value: 0.0143650220186841
refers to: AT5G27760
refers to: 246744_at
t statistic: -6.65110913917511

249784_at
type: EFO_0005072
part of: A-AFFY-2

ARAC7
type: EnsemblDatabaseReference

252350_at
type: EFO_0005072
part of: A-AFFY-2

E-GEOD-19252
type: microarray 1colour mrna differential
RO_0002162: Arabidopsis thaliana
description: ATM plays an important role in the response of plants to forms of DNA damage that cause DNA double-strand breaks. Arabidopsis ATM has been shown to be important for the transcriptional induction of several DNA repair genes including AtRAD51 (Garcia et al 2003 Plant Cell 15, 119-132). In our experiment we compare the transcript profiles of wild type and mutant plants exposed to 10Gy X-rays (dose rate ~0.8 Gy/min). Plants will be grown on 0.5*MS + 1%sucrose at 22degC under short (9h) day conditions and treated after 5h light. We will irradiate wild type (Col-0) and atatm-3 mutant (N589805) seedlings at growth stage 1.06 and harvest tissue 1h post irradiation. RNA will be isolated using the SV RNA isolation kit (Promega). Comparison of the transcript profiles will then allow AtATM-dependent X-ray inducible transcripts to be identified. 6 samples (3 wild type, 3 mutant) were used in this experiment.
uses data from: pubmed

AT5G67460
type: EnsemblDatabaseReference

AHP2 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.32809556666667
p value: 0.0237630775357353
refers to: 259409_at
refers to: AHP2
t statistic: -5.82283752966004

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

245233_at
type: EFO_0005072
part of: A-AFFY-2

TSO2 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -4.0607799
p value: 3.31142928245923E-5
refers to: TSO2
refers to: 257809_at
t statistic: -23.7162618399505

AT3G42860
type: EnsemblDatabaseReference

259629_at
type: EFO_0005072
part of: A-AFFY-2

AT1G80850
type: EnsemblDatabaseReference

AT2G47680
type: EnsemblDatabaseReference

ARAC7
type: EnsemblDatabaseReference

PARP2
type: EnsemblDatabaseReference

AT5G67460 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.07911263333333
p value: 0.00140656083432468
refers to: AT5G67460
refers to: 246994_at
t statistic: -11.208041011115

AT2G45460
type: EnsemblDatabaseReference

TFIIB
type: EnsemblDatabaseReference

253240_at
type: EFO_0005072
part of: A-AFFY-2

265184_at
type: EFO_0005072
part of: A-AFFY-2

XRI
type: EnsemblDatabaseReference

POLD4 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.96461133333333
p value: 1.01056078509909E-4
refers to: 264674_at
refers to: POLD4
t statistic: -18.7714084640011

AT3G10930 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.54213556666667
p value: 0.0167779108161156
refers to: 256442_at
refers to: AT3G10930
t statistic: -6.39249627235562

CYC1 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -2.39183536666667
p value: 0.00123052189464368
refers to: 253051_at
refers to: CYC1
t statistic: -11.537630709926

AT1G72790 DOWN in 'AtATM3 mutant' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.0822526
p value: 0.00359474286325695
refers to: AT1G72790
refers to: 259915_at
t statistic: -8.90790369785606