263837_at
type: EFO_0005072
part of: A-AFFY-2

258239_at
type: EFO_0005072
part of: A-AFFY-2

BETA-TIP DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.14950899103806
p value: 0.0389521303488714
refers to: BETA-TIP
refers to: 255905_at
t statistic: -4.18193534891536

PGL5
type: EnsemblDatabaseReference

AT2G04500
type: EnsemblDatabaseReference

(Factor value) GROWTH_CONDITION/dark
type: EFO_0000001
property type: GROWTH_CONDITION
property value: dark

(Assay) pif4pif5 mut dark repA
type: Assay
identifier: pif4pif5 mut dark repA
has participant: A-AFFY-2

260919_at
type: EFO_0005072
part of: A-AFFY-2

POR C
type: EnsemblDatabaseReference

AT3G05730
type: EnsemblDatabaseReference

265817_at
type: EFO_0005072
part of: A-AFFY-2

PTAC16
type: EnsemblDatabaseReference

(Assay) wild type 24h FR repC
type: Assay
identifier: wild type 24h FR repC
has participant: A-AFFY-2

263034_at
type: EFO_0005072
part of: A-AFFY-2

XTR7
type: EnsemblDatabaseReference

261046_at
type: EFO_0005072
part of: A-AFFY-2

PIL6 DOWN in 'pif4; pif5' vs 'wild type' in 'dark'
type: DecreasedDifferentialExpressionRatio
fold change: -3.55676037795837
p value: 0.00164153183524358
refers to: PIL6
refers to: 251497_at
t statistic: -8.83312424244461

AT3G49960 DOWN in 'pif4; pif5' vs 'wild type' in 'dark'
type: DecreasedDifferentialExpressionRatio
fold change: -1.20807071222221
p value: 0.0382182052493119
refers to: 252238_at
refers to: AT3G49960
t statistic: -4.07515944366697

AT1G30080
type: EnsemblDatabaseReference

AT1G77330
type: EnsemblDatabaseReference

ATEXLA2
type: EnsemblDatabaseReference

(Assay) pif4pif5 mut dark repC
type: Assay
identifier: pif4pif5 mut dark repC
has participant: A-AFFY-2

XTH7 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.05674005562293
p value: 0.0494508551636484
refers to: XTH7
refers to: 253040_at
t statistic: 3.76854723414184

HMGB9
type: EnsemblDatabaseReference

259785_at
type: EFO_0005072
part of: A-AFFY-2

AT4G13790 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -2.27513478298667
p value: 0.0226164501086965
refers to: AT4G13790
refers to: 254685_at
t statistic: -5.08327094509405

FAD4
type: EnsemblDatabaseReference

HFR1 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.1692834092026
p value: 0.00825179760431616
refers to: HFR1
refers to: 259417_at
t statistic: -6.46676547682746

Analysis of 'pif4; pif5' vs 'wild type' in 'dark'
type: MicroarrayDifferentialExpressionAnalysis

POR C UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.0561166733394
p value: 0.0324385644888786
refers to: 264839_at
refers to: POR C
t statistic: 4.7659656530037

MIOX4
type: EnsemblDatabaseReference

AT2G47780
type: EnsemblDatabaseReference

AT1G80130
type: EnsemblDatabaseReference

COR414-TM1 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.10756795405918
p value: 0.0123756665088806
refers to: 259789_at
refers to: COR414-TM1
t statistic: -5.97989007063975

265724_at
type: EFO_0005072
part of: A-AFFY-2

AT4G35720
type: EnsemblDatabaseReference

GH3.9
type: EnsemblDatabaseReference

ATOFP16 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.50931543381759
p value: 0.00114677913414634
refers to: ATOFP16
refers to: 265724_at
t statistic: 9.39078886645906

COR414-TM1
type: EnsemblDatabaseReference

ATST2B
type: EnsemblDatabaseReference

262719_at
type: EFO_0005072
part of: A-AFFY-2

259840_at
type: EFO_0005072
part of: A-AFFY-2

AT4G25260 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.50827390068117
p value: 0.00661631862844274
refers to: AT4G25260
refers to: 254110_at
t statistic: -6.91042636286052

AT4G11610
type: EnsemblDatabaseReference

BEE1
type: EnsemblDatabaseReference

(Assay) wild type 1h FR repA
type: Assay
identifier: wild type 1h FR repA
has participant: A-AFFY-2

HFR1
type: EnsemblDatabaseReference

AT4G11210
type: EnsemblDatabaseReference

POX2 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.77558387468218
p value: 0.0280090478165974
refers to: POX2
refers to: 249527_at
t statistic: -4.63441800578608

258897_at
type: EFO_0005072
part of: A-AFFY-2

251768_at
type: EFO_0005072
part of: A-AFFY-2

MFP1 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.16605628009704
p value: 0.021231755972883
refers to: MFP1
refers to: 258333_at
t statistic: 5.16258932201312

4CL3
type: EnsemblDatabaseReference

AT1G21520 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.15731622266213
p value: 0.038167561347147
refers to: AT1G21520
refers to: 260919_at
t statistic: 4.30886105522698

COL2 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.72861580932919
p value: 0.00131628312361997
refers to: 258497_at
refers to: COL2
t statistic: 8.99587033032555

261782_at
type: EFO_0005072
part of: A-AFFY-2

266465_at
type: EFO_0005072
part of: A-AFFY-2

STR9
type: EnsemblDatabaseReference

258333_at
type: EFO_0005072
part of: A-AFFY-2

LUP1 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.2512696082526
p value: 0.0279266859168371
refers to: LUP1
refers to: 264100_at
t statistic: -4.69298105424617

253040_at
type: EFO_0005072
part of: A-AFFY-2

AT1G21500 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.05565590810177
p value: 0.0165409951535394
refers to: 260877_at
refers to: AT1G21500
t statistic: 5.44931905654279

253155_at
type: EFO_0005072
part of: A-AFFY-2

250662_at
type: EFO_0005072
part of: A-AFFY-2

PER59
type: EnsemblDatabaseReference

266503_at
type: EFO_0005072
part of: A-AFFY-2

MLP423
type: EnsemblDatabaseReference

ATEXLA2 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.39383244967667
p value: 0.0435863988952561
refers to: ATEXLA2
refers to: 252997_at
t statistic: -4.14153932934713

263981_at
type: EFO_0005072
part of: A-AFFY-2

POX2
type: EnsemblDatabaseReference

4CL3 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.04716039103766
p value: 0.0494508551636484
refers to: 261907_at
refers to: 4CL3
t statistic: 3.77520201483209

255007_at
type: EFO_0005072
part of: A-AFFY-2

253943_at
type: EFO_0005072
part of: A-AFFY-2

AT4G16670
type: EnsemblDatabaseReference

Analysis of 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: MicroarrayDifferentialExpressionAnalysis

LP1 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.11413100525685
p value: 0.0241032756544917
refers to: LP1
refers to: 266421_at
t statistic: 5.77794813263946

259161_at
type: EFO_0005072
part of: A-AFFY-2

AT2G19970
type: EnsemblDatabaseReference

(Factor value) GENOTYPE/pif4; pif5
type: EFO_0000001
property type: GENOTYPE
property value: pif4; pif5

AT4G25250 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.30056296093575
p value: 0.0279266859168371
refers to: AT4G25250
refers to: 254056_at
t statistic: -4.69560749470917

PER59 DOWN in 'pif4; pif5' vs 'wild type' in 'dark'
type: DecreasedDifferentialExpressionRatio
fold change: -1.20211233249444
p value: 0.0243622247051445
refers to: PER59
refers to: 246149_at
t statistic: -4.51946124241462

PAR1
type: EnsemblDatabaseReference

AT2G34620
type: EnsemblDatabaseReference

AT1G12070 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.24752613470447
p value: 0.018420759627439
refers to: AT1G12070
refers to: 264395_at
t statistic: -5.31591139599622

249527_at
type: EFO_0005072
part of: A-AFFY-2

STR9 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.10919908674757
p value: 0.0401036155063697
refers to: STR9
refers to: 267635_at
t statistic: 4.1352603218328

264100_at
type: EFO_0005072
part of: A-AFFY-2

LP1
type: EnsemblDatabaseReference

AT4G16670 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.17654909087732
p value: 0.0145905019409924
refers to: AT4G16670
refers to: 245439_at
t statistic: -5.63453910761138

AT1G12070
type: EnsemblDatabaseReference

261907_at
type: EFO_0005072
part of: A-AFFY-2

245325_at
type: EFO_0005072
part of: A-AFFY-2

251870_at
type: EFO_0005072
part of: A-AFFY-2

COL2
type: EnsemblDatabaseReference

BETA-TIP
type: EnsemblDatabaseReference

AT2G34620 UP in 'pif4; pif5' vs 'wild type' in 'dark'
type: IncreasedDifferentialExpressionRatio
fold change: 1.36082868906476
p value: 0.0058593361224794
refers to: AT2G34620
refers to: 266899_at
t statistic: 6.77782930603425

AT4G25260
type: EnsemblDatabaseReference

AT1G21500
type: EnsemblDatabaseReference

(Assay) pif4pif5 mut 24h FR repB
type: Assay
identifier: pif4pif5 mut 24h FR repB
has participant: A-AFFY-2

LHCB2.4 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.40548160412759
p value: 0.0241032756544917
refers to: LHCB2.4
refers to: 258239_at
t statistic: 5.86521302966604

PIL6
type: EnsemblDatabaseReference

LUP1
type: EnsemblDatabaseReference

CA1
type: EnsemblDatabaseReference

XTH7
type: EnsemblDatabaseReference

FAD4 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.01559267956422
p value: 0.0350551556823019
refers to: FAD4
refers to: 253943_at
t statistic: 4.48095512147184

AT3G49960
type: EnsemblDatabaseReference

AT2G34620 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.25141454562826
p value: 0.0395823012443797
refers to: AT2G34620
refers to: 266899_at
t statistic: 4.16349433878927

ATST2A DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.88455971774975
p value: 0.00673504495301383
refers to: 250662_at
refers to: ATST2A
t statistic: -6.84481186599736

254685_at
type: EFO_0005072
part of: A-AFFY-2

(Factor value) TIME/24
type: EFO_0000001
property type: TIME
property value: 24

AT2G04500
type: EnsemblDatabaseReference

PSBQ
type: EnsemblDatabaseReference

POR C
type: EnsemblDatabaseReference

CKX5
type: EnsemblDatabaseReference

(Assay) wild type dark repC
type: Assay
identifier: wild type dark repC
has participant: A-AFFY-2

PTAC16
type: EnsemblDatabaseReference

CKX5 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.68261993758704
p value: 0.00102758409919843
refers to: CKX5
refers to: 261109_at
t statistic: -9.96486444925142

ADS1
type: EnsemblDatabaseReference

MIOX4 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.16974998961708
p value: 0.0273502282211325
refers to: 254001_at
refers to: MIOX4
t statistic: -4.8046456737542

AT4G38860
type: EnsemblDatabaseReference

XTR7
type: EnsemblDatabaseReference

AT4G35720 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.78992017941981
p value: 0.00179563933603433
refers to: AT4G35720
refers to: 253155_at
t statistic: -8.4785866522738

(Assay) pif4pif5 mut 24h FR repA
type: Assay
identifier: pif4pif5 mut 24h FR repA
has participant: A-AFFY-2

AT4G11610 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.35793603994071
p value: 0.00178467105065579
refers to: AT4G11610
refers to: 254876_at
t statistic: -8.57446151120568

MFP1
type: EnsemblDatabaseReference

(Assay) wild type dark repA
type: Assay
identifier: wild type dark repA
has participant: A-AFFY-2

AT1G77330
type: EnsemblDatabaseReference

XTR7 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -2.61043106493711
p value: 2.25577935263232E-5
refers to: XTR7
refers to: 245325_at
t statistic: -17.2333813416029

264839_at
type: EFO_0005072
part of: A-AFFY-2

(Assay) pif4pif5 mut dark repB
type: Assay
identifier: pif4pif5 mut dark repB
has participant: A-AFFY-2

AT4G38860 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.10267297022607
p value: 0.0349257859907898
refers to: AT4G38860
refers to: 252965_at
t statistic: -4.36523417147691

258497_at
type: EFO_0005072
part of: A-AFFY-2

249732_at
type: EFO_0005072
part of: A-AFFY-2

255905_at
type: EFO_0005072
part of: A-AFFY-2

ATOFP16
type: EnsemblDatabaseReference

MIOX4
type: EnsemblDatabaseReference

AT2G47780
type: EnsemblDatabaseReference

ATFAO3 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.15406576531635
p value: 0.00459036667385687
refers to: ATFAO3
refers to: 258299_at
t statistic: 7.35127038307104

AT4G35720
type: EnsemblDatabaseReference

246390_at
type: EFO_0005072
part of: A-AFFY-2

250657_at
type: EFO_0005072
part of: A-AFFY-2

GH3.9
type: EnsemblDatabaseReference

HMGB9 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.04563350917865
p value: 0.0273502282211325
refers to: HMGB9
refers to: 261782_at
t statistic: 4.76727196548047

AT1G21500 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.07949876588039
p value: 0.0350551556823019
refers to: AT1G21500
refers to: 260877_at
t statistic: 4.58342659031746

264296_at
type: EFO_0005072
part of: A-AFFY-2

AT3G19480
type: EnsemblDatabaseReference

(Assay) pif4pif5 mut 1h FR repA
type: Assay
identifier: pif4pif5 mut 1h FR repA
has participant: A-AFFY-2

AT4G11610
type: EnsemblDatabaseReference

HFR1
type: EnsemblDatabaseReference

AT3G54510
type: EnsemblDatabaseReference

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

STR9
type: EnsemblDatabaseReference

245439_at
type: EFO_0005072
part of: A-AFFY-2

LHCB2.4
type: EnsemblDatabaseReference

AT5G18060
type: EnsemblDatabaseReference

AT1G29490
type: EnsemblDatabaseReference

AT3G05730 UP in 'pif4; pif5' vs 'wild type' in 'dark'
type: IncreasedDifferentialExpressionRatio
fold change: 1.44562475354971
p value: 0.0160818999598248
refers to: AT3G05730
refers to: 258897_at
t statistic: 5.08820888497384

ATST2A
type: EnsemblDatabaseReference

AT2G04500 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.12302668586204
p value: 0.043990087506953
refers to: 263837_at
refers to: AT2G04500
t statistic: -4.12651465171247

260841_at
type: EFO_0005072
part of: A-AFFY-2

LHCA1
type: EnsemblDatabaseReference

PSBQ UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.14844536781992
p value: 0.0350551556823019
refers to: PSBQ
refers to: 255248_at
t statistic: 4.5622749381363

262050_at
type: EFO_0005072
part of: A-AFFY-2

ATFAO3
type: EnsemblDatabaseReference

CA1 UP in 'pif4; pif5' vs 'wild type' in 'dark'
type: IncreasedDifferentialExpressionRatio
fold change: 1.23250042896403
p value: 0.0160818999598248
refers to: 259161_at
refers to: CA1
t statistic: 5.22595269371187

Arabidopsis thaliana
type: OBI_0100026

252238_at
type: EFO_0005072
part of: A-AFFY-2

MLP423
type: EnsemblDatabaseReference

258025_at
type: EFO_0005072
part of: A-AFFY-2

ATEXLA2
type: EnsemblDatabaseReference

AT4G16670
type: EnsemblDatabaseReference

AT1G78720
type: EnsemblDatabaseReference

PSAH2 UP in 'pif4; pif5' vs 'wild type' in 'dark'
type: IncreasedDifferentialExpressionRatio
fold change: 1.0272887036875
p value: 0.0194524235405788
refers to: PSAH2
refers to: 259840_at
t statistic: 4.87092620006122

AtHSD5
type: EnsemblDatabaseReference

AT1G77330 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.33406653074964
p value: 0.0410745771559421
refers to: AT1G77330
refers to: 246390_at
t statistic: -4.23431526048356

AT2G34620
type: EnsemblDatabaseReference

AT1G80130 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.05828740607794
p value: 0.02584676882685
refers to: AT1G80130
refers to: 262050_at
t statistic: -4.93364216413488

254001_at
type: EFO_0005072
part of: A-AFFY-2

PLC7
type: EnsemblDatabaseReference

260957_at
type: EFO_0005072
part of: A-AFFY-2

252965_at
type: EFO_0005072
part of: A-AFFY-2

LP1
type: EnsemblDatabaseReference

AT1G12070
type: EnsemblDatabaseReference

LHCA1 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.14518874252909
p value: 0.027922703059227
refers to: LHCA1
refers to: 251814_at
t statistic: 5.28866788055515

255248_at
type: EFO_0005072
part of: A-AFFY-2

(Assay) wild type 1h FR repB
type: Assay
identifier: wild type 1h FR repB
has participant: A-AFFY-2

ADS1 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.84736849401118
p value: 0.0263007313610791
refers to: ADS1
refers to: 260957_at
t statistic: -4.90789524199738

PLC7 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.6463060815205
p value: 0.018420759627439
refers to: 251768_at
refers to: PLC7
t statistic: -5.32010019412199

PSAH2 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.06566230398331
p value: 0.0415258555277437
refers to: 259840_at
refers to: PSAH2
t statistic: 4.04330983618679

COL2
type: EnsemblDatabaseReference

HIS1-3
type: EnsemblDatabaseReference

AT1G29195 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.25678264721878
p value: 0.0280090478165974
refers to: AT1G29195
refers to: 260841_at
t statistic: -4.59063599578849

AT4G25260
type: EnsemblDatabaseReference

AT1G21500
type: EnsemblDatabaseReference

259789_at
type: EFO_0005072
part of: A-AFFY-2

AtHSD5 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.21837397412437
p value: 0.00737881960788264
refers to: AtHSD5
refers to: 255007_at
t statistic: -6.71879884947251

AT1G43590
type: EnsemblDatabaseReference

CA1
type: EnsemblDatabaseReference

(Assay) pif4pif5 mut 24h FR repC
type: Assay
identifier: pif4pif5 mut 24h FR repC
has participant: A-AFFY-2

AT3G49960
type: EnsemblDatabaseReference

AT1G21520
type: EnsemblDatabaseReference

246149_at
type: EFO_0005072
part of: A-AFFY-2

AT4G25250
type: EnsemblDatabaseReference

LHCB2.4 UP in 'pif4; pif5' vs 'wild type' in 'dark'
type: IncreasedDifferentialExpressionRatio
fold change: 1.69873434344133
p value: 0.020754524964929
refers to: 258239_at
refers to: LHCB2.4
t statistic: 4.6874363393248

PSBQ
type: EnsemblDatabaseReference

(Factor value) GROWTH_CONDITION/far-red light
type: EFO_0000001
property type: GROWTH_CONDITION
property value: far-red light

261109_at
type: EFO_0005072
part of: A-AFFY-2

AT1G53490
type: EnsemblDatabaseReference

CKX5
type: EnsemblDatabaseReference

UGT72B2
type: EnsemblDatabaseReference

265588_at
type: EFO_0005072
part of: A-AFFY-2

258299_at
type: EFO_0005072
part of: A-AFFY-2

AT1G30080 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.12371943465233
p value: 0.0340317622060208
refers to: AT1G30080
refers to: 260024_at
t statistic: -4.39037704900999

ADS1
type: EnsemblDatabaseReference

254876_at
type: EFO_0005072
part of: A-AFFY-2

AT4G13790
type: EnsemblDatabaseReference

254110_at
type: EFO_0005072
part of: A-AFFY-2

AT1G29195
type: EnsemblDatabaseReference

AT3G54510 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.40395396183377
p value: 0.00102758409919843
refers to: 251870_at
refers to: AT3G54510
t statistic: -9.84206957809391

254056_at
type: EFO_0005072
part of: A-AFFY-2

MFP1
type: EnsemblDatabaseReference

(Assay) wild type 24h FR repA
type: Assay
identifier: wild type 24h FR repA
has participant: A-AFFY-2

PSAH2
type: EnsemblDatabaseReference

PGL5
type: EnsemblDatabaseReference

PIL6 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -4.56923111286758
p value: 4.91623911427002E-8
refers to: 251497_at
refers to: PIL6
t statistic: -41.1004662506266

HIS1-3 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.11926285403818
p value: 0.038167561347147
refers to: 265817_at
refers to: HIS1-3
t statistic: -4.30223056323873

266421_at
type: EFO_0005072
part of: A-AFFY-2

(Assay) pif4pif5 mut 1h FR repB
type: Assay
identifier: pif4pif5 mut 1h FR repB
has participant: A-AFFY-2

ATOFP16
type: EnsemblDatabaseReference

LHCA1 UP in 'pif4; pif5' vs 'wild type' in 'dark'
type: IncreasedDifferentialExpressionRatio
fold change: 1.16557637921015
p value: 0.00769130288580795
refers to: 251814_at
refers to: LHCA1
t statistic: 6.16681355719577

(Assay) wild type dark repB
type: Assay
identifier: wild type dark repB
has participant: A-AFFY-2

AT3G05730
type: EnsemblDatabaseReference

AT2G34620 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.11465377610009
p value: 0.0143559900557227
refers to: 266899_at
refers to: AT2G34620
t statistic: 5.68357565649358

250012_x_at
type: EFO_0005072
part of: A-AFFY-2

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

AT3G19480
type: EnsemblDatabaseReference

261717_at
type: EFO_0005072
part of: A-AFFY-2

AT1G29490 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.21231998594947
p value: 0.0440449926094519
refers to: AT1G29490
refers to: 259785_at
t statistic: -4.07602057262161

266899_at
type: EFO_0005072
part of: A-AFFY-2

260973_at
type: EFO_0005072
part of: A-AFFY-2

AT1G30080
type: EnsemblDatabaseReference

252441_at
type: EFO_0005072
part of: A-AFFY-2

AT3G54510
type: EnsemblDatabaseReference

STR9 UP in 'pif4; pif5' vs 'wild type' in 'dark'
type: IncreasedDifferentialExpressionRatio
fold change: 1.05239991581831
p value: 0.0257777750183682
refers to: STR9
refers to: 267635_at
t statistic: 4.45411033552665

252997_at
type: EFO_0005072
part of: A-AFFY-2

HMGB9
type: EnsemblDatabaseReference

259417_at
type: EFO_0005072
part of: A-AFFY-2

LHCB2.4
type: EnsemblDatabaseReference

FAD4
type: EnsemblDatabaseReference

(Assay) pif4pif5 mut 1h FR repC
type: Assay
identifier: pif4pif5 mut 1h FR repC
has participant: A-AFFY-2

AT5G18060
type: EnsemblDatabaseReference

AT1G29490
type: EnsemblDatabaseReference

(Sample) developmental stage/seedling
type: EFO_0001992
property type: developmental stage
property value: seedling

ATST2A
type: EnsemblDatabaseReference

LHCA1
type: EnsemblDatabaseReference

AT4G38860
type: EnsemblDatabaseReference

UGT72B2 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.11435499728246
p value: 0.0031558964522527
refers to: 261046_at
refers to: UGT72B2
t statistic: -7.76733680072933

ATFAO3
type: EnsemblDatabaseReference

ATST2B DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.02694348339307
p value: 0.00520327934301909
refers to: ATST2B
refers to: 250657_at
t statistic: -7.17836544928171

AT1G80130
type: EnsemblDatabaseReference

AT5G18060 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.53857847400072
p value: 0.00206203336704411
refers to: AT5G18060
refers to: 250012_x_at
t statistic: -8.25712508815389

COR414-TM1
type: EnsemblDatabaseReference

ATST2B
type: EnsemblDatabaseReference

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

BEE1
type: EnsemblDatabaseReference

AT1G78720
type: EnsemblDatabaseReference

(Factor value) TIME/1
type: EFO_0000001
property type: TIME
property value: 1

AT4G11210
type: EnsemblDatabaseReference

AtHSD5
type: EnsemblDatabaseReference

(Sample) ecotype/Columbia
type: EFO_0005147
property type: ecotype
property value: Columbia

4CL3
type: EnsemblDatabaseReference

PGL5 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.17703350326961
p value: 0.0193478191126848
refers to: 249732_at
refers to: PGL5
t statistic: 5.26286740107611

(Assay) wild type 24h FR repB
type: Assay
identifier: wild type 24h FR repB
has participant: A-AFFY-2

MLP423 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.55816066331983
p value: 0.0343726147916036
refers to: 263034_at
refers to: MLP423
t statistic: 4.66413813208948

Analysis of 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: MicroarrayDifferentialExpressionAnalysis

PLC7
type: EnsemblDatabaseReference

AT2G19970 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.05429914142871
p value: 0.00749358376513636
refers to: AT2G19970
refers to: 265588_at
t statistic: -6.66149630142646

AT1G78720 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.09924269831733
p value: 0.0139627533605197
refers to: 264296_at
refers to: AT1G78720
t statistic: -5.76917838554339

PER59
type: EnsemblDatabaseReference

POX2
type: EnsemblDatabaseReference

HIS1-3
type: EnsemblDatabaseReference

AT2G19970
type: EnsemblDatabaseReference

BEE1 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.08411030337893
p value: 0.0440449926094519
refers to: BEE1
refers to: 261717_at
t statistic: -4.0806468371232

251814_at
type: EFO_0005072
part of: A-AFFY-2

AT1G43590
type: EnsemblDatabaseReference

AT1G21520
type: EnsemblDatabaseReference

E-GEOD-16333
type: microarray 1colour mrna differential
RO_0002162: Arabidopsis thaliana
description: Phytochromes are red/far red photosensors regulating numerous developmental programs in plants. Among them phytochrome A (phyA) is essential to enable seedling de-etiolation in continuous far-red (FR) light a condition mimicking the environment under a dense canopy. The ecological relevance of this response is demonstrated by the high mortality rate of phyA mutants germinating in deep vegetational shade. phyA signaling involves a direct interaction of the photoreceptor with members of the bHLH transcription factor family, PIF1 and PIF3 (Phytochrome Interacting Factor). Here we investigated the involvement of PIF4 and PIF5 in phyA signaling and found that they redundantly control de-etiolation in FR light. The pif4pif5 double mutant is hypersensitive to low fluence rates of FR light. This phenotype is dependent on FR light perception by phyA but does not rely on alterations of the phyA level. Our microarrays analysis shows that PIF4 and PIF5 are part of an inhibitory mechanism repressing the expression of some light-responsive genes in the dark and are also needed for full expression of several growth-related genes in the light. Unlike PIF1 and PIF3, PIF4 and PIF5 are not degraded in response to FR light indicating that they are light-regulated by a different mechanism. Our genetic analysis suggests that this is achieved through the sequestration of these PIFs by the closely related bHLH transcription factor HFR1 (long Hypocotyl in FR light). Experiment Overall Design: he pif4pif5 double mutant were compared to wild-type plants when kept in the dark or subjected to 1 or 24 hours of 0.5 or 5 ÃÂÃÂµmol/m2/s far-red light respectively.
uses data from: http://identifiers.org/pubmed/19619162

CA1 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.32873220373248
p value: 0.0241032756544917
refers to: CA1
refers to: 259161_at
t statistic: 5.87524436247789

254909_at
type: EFO_0005072
part of: A-AFFY-2

PAR1
type: EnsemblDatabaseReference

AT4G25250
type: EnsemblDatabaseReference

264395_at
type: EFO_0005072
part of: A-AFFY-2

AT3G19480 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.0676070527448
p value: 0.0402982135531382
refers to: 258025_at
refers to: AT3G19480
t statistic: 4.12440584502043

PTAC16 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.10745076853966
p value: 0.0189046098277988
refers to: PTAC16
refers to: 252441_at
t statistic: 6.49258269673746

(Sample) genotype/pif4; pif5
type: EFO_0000001
property type: genotype
property value: pif4; pif5

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

AT1G53490
type: EnsemblDatabaseReference

UGT72B2
type: EnsemblDatabaseReference

AT4G11210 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.13868242061596
p value: 0.0465303537494467
refers to: 254909_at
refers to: AT4G11210
t statistic: 3.89377304684157

267635_at
type: EFO_0005072
part of: A-AFFY-2

PIL6 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -5.00768645617255
p value: 1.93094634113829E-6
refers to: PIL6
refers to: 251497_at
t statistic: -24.4129937384545

251497_at
type: EFO_0005072
part of: A-AFFY-2

260024_at
type: EFO_0005072
part of: A-AFFY-2

260877_at
type: EFO_0005072
part of: A-AFFY-2

AT4G13790
type: EnsemblDatabaseReference

A-AFFY-2
type: EFO_0000269

AT1G53490 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.10081203237432
p value: 6.67696012612999E-4
refers to: AT1G53490
refers to: 260973_at
t statistic: 12.1962107175223

BETA-TIP
type: EnsemblDatabaseReference

AT1G29195
type: EnsemblDatabaseReference

GH3.9 UP in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: IncreasedDifferentialExpressionRatio
fold change: 1.03871412598371
p value: 0.0166735443447101
refers to: GH3.9
refers to: 266465_at
t statistic: 5.42517175174848

(Assay) wild type 1h FR repC
type: Assay
identifier: wild type 1h FR repC
has participant: A-AFFY-2

PIL6
type: EnsemblDatabaseReference

LUP1
type: EnsemblDatabaseReference

PAR1 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.13068373328759
p value: 0.0145905019409924
refers to: PAR1
refers to: 263981_at
t statistic: -5.62284008459424

XTH7
type: EnsemblDatabaseReference

PSAH2
type: EnsemblDatabaseReference

AT1G43590 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '1 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.01948250496287
p value: 0.0303353772841771
refers to: 262719_at
refers to: AT1G43590
t statistic: -5.08119843186878

AT2G47780 DOWN in 'pif4; pif5' vs 'wild type' in 'far-red light' at '24 hour'
type: DecreasedDifferentialExpressionRatio
fold change: -1.03530863687773
p value: 0.0421223675099722
refers to: 266503_at
refers to: AT2G47780
t statistic: -4.1869493430099

XTH7 UP in 'pif4; pif5' vs 'wild type' in 'dark'
type: IncreasedDifferentialExpressionRatio
fold change: 1.07442637686738
p value: 0.00931680388111145
refers to: XTH7
refers to: 253040_at
t statistic: 5.92297774742879