Acta2
type: EnsemblDatabaseReference

Gjb3
type: EnsemblDatabaseReference

Tfcp2l1 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.24491222575406
p value: 1.44941452349855E-6
refers to: Tfcp2l1
refers to: 103761_at
t statistic: 15.7293222351374

104232_at
type: EFO_0005072
part of: A-AFFY-6

Gjb3
type: EnsemblDatabaseReference

101560_at
type: EFO_0005072
part of: A-AFFY-6

Nsdhl UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.06560645974335
p value: 1.21790205096174E-4
refers to: Nsdhl
refers to: 93868_at
t statistic: 8.43557142985733

Tbx3
type: EnsemblDatabaseReference

A-AFFY-6
type: EFO_0000269

93868_at
type: EFO_0005072
part of: A-AFFY-6

104480_at
type: EFO_0005072
part of: A-AFFY-6

Cdkn1c
type: EnsemblDatabaseReference

100064_f_at
type: EFO_0005072
part of: A-AFFY-6

95562_at
type: EFO_0005072
part of: A-AFFY-6

Dusp6
type: EnsemblDatabaseReference

Wfdc2
type: EnsemblDatabaseReference

Igf2
type: EnsemblDatabaseReference

95471_at
type: EFO_0005072
part of: A-AFFY-6

Pfkp
type: EnsemblDatabaseReference

Tfpi
type: EnsemblDatabaseReference

93691_s_at
type: EFO_0005072
part of: A-AFFY-6

Mapt
type: EnsemblDatabaseReference

97834_g_at
type: EFO_0005072
part of: A-AFFY-6

96728_at
type: EFO_0005072
part of: A-AFFY-6

Tagln
type: EnsemblDatabaseReference

Peg3
type: EnsemblDatabaseReference

93563_s_at
type: EFO_0005072
part of: A-AFFY-6

Tuba3a UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.3284919720308
p value: 6.6181740639183E-6
refers to: 160420_r_at
refers to: Tuba3a
t statistic: 12.6744802044279

Phlda2
type: EnsemblDatabaseReference

Klf4
type: EnsemblDatabaseReference

Ctgf
type: EnsemblDatabaseReference

Wdr45
type: EnsemblDatabaseReference

Rhox5
type: EnsemblDatabaseReference

Ddx19b
type: EnsemblDatabaseReference

Tfpi UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.05681545599481
p value: 4.54500546517513E-5
refers to: Tfpi
refers to: 98514_at
t statistic: 9.68978435752734

(Assay) wild_type_embryonic_stem cells_biological_rep3
type: Assay
identifier: wild_type_embryonic_stem cells_biological_rep3
has participant: A-AFFY-6

E-GEOD-5583
type: microarray 1colour mrna differential
RO_0002162: Mus musculus
description: Histone deacetylase 1 (HDAC1) is an enzyme that promotes deacetylation of acetylated lysine residues in histones and other proteins. Histone acetylation is often associated with gene activation and expression. Los of HDAC1 leads to severe problems in development and proliferation. Moreover, it seems to be the major histone deacetylase in mouse embryonic stem cells. We used microarrays to identify putative HDAC1 target genes. Experiment Overall Design: Wild type and HDAC1 mouse embryonic stem cell, originating from same litter, were used for RNA extraction and hybridization on Affymetrix microarrays.
uses data from: http://identifiers.org/pubmed/16940178

Tbx3 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.41242288679453
p value: 3.08381925563581E-7
refers to: 103538_at
refers to: Tbx3
t statistic: 19.4491597513228

Nid2 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.1700428814566
p value: 0.00154866132210246
refers to: 93563_s_at
refers to: Nid2
t statistic: 5.68437927472923

Dnmt3a
type: EnsemblDatabaseReference

Gja1
type: EnsemblDatabaseReference

Dsg2
type: EnsemblDatabaseReference

(Sample) genotype/HDAC1 knock out
type: EFO_0000001
property type: genotype
property value: HDAC1 knock out

Dsg2
type: EnsemblDatabaseReference

Mapt UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.24912445196344
p value: 7.05422761242074E-7
refers to: Mapt
refers to: 102431_at
t statistic: 17.1520649882609

Grb10
type: EnsemblDatabaseReference

94334_f_at
type: EFO_0005072
part of: A-AFFY-6

Calcoco2
type: EnsemblDatabaseReference

Cdkn1c DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.98659169437022
p value: 3.31954070343128E-7
refers to: Cdkn1c
refers to: 95471_at
t statistic: -19.0339523042945

Sox11
type: EnsemblDatabaseReference

Ina DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.17975227055122
p value: 6.6181740639183E-6
refers to: 94334_f_at
refers to: Ina
t statistic: -12.6138309872387

96765_at
type: EFO_0005072
part of: A-AFFY-6

Tfcp2l1
type: EnsemblDatabaseReference

93690_at
type: EFO_0005072
part of: A-AFFY-6

92708_at
type: EFO_0005072
part of: A-AFFY-6

Htra1
type: EnsemblDatabaseReference

Bex1
type: EnsemblDatabaseReference

93028_at
type: EFO_0005072
part of: A-AFFY-6

Spg21
type: EnsemblDatabaseReference

Emb
type: EnsemblDatabaseReference

Dusp9
type: EnsemblDatabaseReference

(Assay) wild_type_embryonic_stem cells_biological_rep2
type: Assay
identifier: wild_type_embryonic_stem cells_biological_rep2
has participant: A-AFFY-6

Tagln DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.28891008426842
p value: 4.54713176630452E-6
refers to: 93541_at
refers to: Tagln
t statistic: -13.4115200840337

Ctgf DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.25607939530655
p value: 5.73419035256579E-5
refers to: 93294_at
refers to: Ctgf
t statistic: -9.39718729019802

99622_at
type: EFO_0005072
part of: A-AFFY-6

Nsdhl
type: EnsemblDatabaseReference

Peg3 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.09689724252096
p value: 6.42510631151175E-6
refers to: 101451_at
refers to: Peg3
t statistic: 12.8432831295138

Grb10 DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.35140910008509
p value: 1.92534170464504E-6
refers to: Grb10
refers to: 93690_at
t statistic: -15.0207882282823

100065_r_at
type: EFO_0005072
part of: A-AFFY-6

Ina
type: EnsemblDatabaseReference

96920_at
type: EFO_0005072
part of: A-AFFY-6

Rhox5 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.62774777221023
p value: 7.14992090795606E-8
refers to: Rhox5
refers to: 101368_at
t statistic: 23.7198383636972

Htra1 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.80828558311516
p value: 7.90546479766481E-8
refers to: 96920_at
refers to: Htra1
t statistic: 23.198015370083

Nid2
type: EnsemblDatabaseReference

Mt2
type: EnsemblDatabaseReference

96627_at
type: EFO_0005072
part of: A-AFFY-6

Tex19.1
type: EnsemblDatabaseReference

Bex1 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.35024745267645
p value: 1.35013878192126E-5
refers to: 93020_at
refers to: Bex1
t statistic: 11.5820954623851

Ddx3y
type: EnsemblDatabaseReference

Phlda2 DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.12894939756227
p value: 6.6181740639183E-6
refers to: Phlda2
refers to: 104548_at
t statistic: -12.6289571820831

Spg21 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.83631529347808
p value: 6.45247559873804E-5
refers to: Spg21
refers to: 95430_f_at
t statistic: 9.25674325030517

Gm27251
type: EnsemblDatabaseReference

Acta2
type: EnsemblDatabaseReference

Acta2 DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.23938151237917
p value: 2.02670898665677E-5
refers to: 93100_at
refers to: Acta2
t statistic: -10.8564453626248

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

Tuba3a
type: EnsemblDatabaseReference

Ddx3y DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -2.71619875695753
p value: 1.92534170464504E-6
refers to: Ddx3y
refers to: 103842_at
t statistic: -14.9838082362037

Tbx3
type: EnsemblDatabaseReference

Dusp9 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.21524302124473
p value: 2.51877660828E-6
refers to: Dusp9
refers to: 102925_at
t statistic: 14.5071014804806

(Sample) organism/Mus musculus
type: Mus musculus
property type: organism
property value: Mus musculus

Cdkn1c
type: EnsemblDatabaseReference

101451_at
type: EFO_0005072
part of: A-AFFY-6

Dusp6
type: EnsemblDatabaseReference

Peg3 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.17661060168626
p value: 1.75082801783085E-5
refers to: 96765_at
refers to: Peg3
t statistic: 11.1099589965771

103842_at
type: EFO_0005072
part of: A-AFFY-6

Igf2
type: EnsemblDatabaseReference

Pfkp
type: EnsemblDatabaseReference

Eif2s3y
type: EnsemblDatabaseReference

Mt2 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.00582172459704
p value: 3.10044507322794E-6
refers to: 101561_at
refers to: Mt2
t statistic: 14.1334338934228

Peg3
type: EnsemblDatabaseReference

Mt1
type: EnsemblDatabaseReference

Ebp
type: EnsemblDatabaseReference

Calcoco2 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.9635657339222
p value: 2.60004964721825E-7
refers to: Calcoco2
refers to: 95562_at
t statistic: 20.0883236335249

Klf4 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.03917100791167
p value: 2.4095469698524E-5
refers to: 99622_at
refers to: Klf4
t statistic: 10.5858451618662

Gjb3 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.57359097809481
p value: 1.09157631746177E-7
refers to: Gjb3
refers to: 104232_at
t statistic: 22.023430855186

Klf4
type: EnsemblDatabaseReference

Ctgf
type: EnsemblDatabaseReference

Wdr45
type: EnsemblDatabaseReference

Ddx19b
type: EnsemblDatabaseReference

Wfdc2 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.6782145291494
p value: 3.31954070343128E-7
refers to: 96643_at
refers to: Wfdc2
t statistic: 18.9315275512336

104548_at
type: EFO_0005072
part of: A-AFFY-6

Wfdc2
type: EnsemblDatabaseReference

93020_at
type: EFO_0005072
part of: A-AFFY-6

93541_at
type: EFO_0005072
part of: A-AFFY-6

Dnmt3a
type: EnsemblDatabaseReference

Tfpi
type: EnsemblDatabaseReference

96643_at
type: EFO_0005072
part of: A-AFFY-6

100914_at
type: EFO_0005072
part of: A-AFFY-6

Gja1
type: EnsemblDatabaseReference

Mt1 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.0373978705092
p value: 2.33253697650123E-6
refers to: 93573_at
refers to: Mt1
t statistic: 14.6604201408884

Mapt
type: EnsemblDatabaseReference

Tagln
type: EnsemblDatabaseReference

103761_at
type: EFO_0005072
part of: A-AFFY-6

98623_g_at
type: EFO_0005072
part of: A-AFFY-6

102418_at
type: EFO_0005072
part of: A-AFFY-6

101561_at
type: EFO_0005072
part of: A-AFFY-6

Wdr45 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.08217315403124
p value: 4.10845457583836E-6
refers to: Wdr45
refers to: 96728_at
t statistic: 13.7103807760327

Calcoco2
type: EnsemblDatabaseReference

Sox11
type: EnsemblDatabaseReference

Phlda2
type: EnsemblDatabaseReference

Rhox5
type: EnsemblDatabaseReference

101631_at
type: EFO_0005072
part of: A-AFFY-6

Tfcp2l1
type: EnsemblDatabaseReference

101368_at
type: EFO_0005072
part of: A-AFFY-6

103538_at
type: EFO_0005072
part of: A-AFFY-6

Ak4 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.5738019624999
p value: 6.6181740639183E-6
refers to: Ak4
refers to: 99959_at
t statistic: 12.70194745825

Emb
type: EnsemblDatabaseReference

97833_at
type: EFO_0005072
part of: A-AFFY-6

Dusp9
type: EnsemblDatabaseReference

98514_at
type: EFO_0005072
part of: A-AFFY-6

Dusp6 DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.16195140711705
p value: 6.25715281844782E-5
refers to: Dusp6
refers to: 93285_at
t statistic: -9.29497787973034

160420_r_at
type: EFO_0005072
part of: A-AFFY-6

Gm27251 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.815153036081
p value: 3.32636480552717E-8
refers to: Gm27251
refers to: 100914_at
t statistic: 25.9524646092442

H19
type: EnsemblDatabaseReference

(Sample) cell type/embryonic stem cell
type: CL_0002322
property type: cell type
property value: embryonic stem cell

103674_f_at
type: EFO_0005072
part of: A-AFFY-6

Grb10
type: EnsemblDatabaseReference

Nsdhl
type: EnsemblDatabaseReference

H19
type: EnsemblDatabaseReference

Mus musculus
type: OBI_0100026

Grb10 DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.52551730721178
p value: 3.08381925563581E-7
refers to: Grb10
refers to: 93691_s_at
t statistic: -19.5987426031098

Ina
type: EnsemblDatabaseReference

93100_at
type: EFO_0005072
part of: A-AFFY-6

100479_at
type: EFO_0005072
part of: A-AFFY-6

Ebp UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.16038018381455
p value: 2.64889121308358E-6
refers to: Ebp
refers to: 96627_at
t statistic: 14.3937354511161

Igf2 DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.6281895024257
p value: 1.33118833587102E-6
refers to: Igf2
refers to: 98623_g_at
t statistic: -15.9886132352845

(Factor value) GENOTYPE/HDAC1 knock out
type: EFO_0000001
property type: GENOTYPE
property value: HDAC1 knock out

93285_at
type: EFO_0005072
part of: A-AFFY-6

Mt2
type: EnsemblDatabaseReference

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

(Assay) HDAC1_knock_out_embryonic_stem_cells_biological_rep2
type: Assay
has participant: A-AFFY-6

(Assay) HDAC1_knock_out_embryonic_stem_cells_biological_rep3
type: Assay
has participant: A-AFFY-6

(Assay) HDAC1_knock_out_embryonic_stem_cells_biological_rep1
type: Assay
has participant: A-AFFY-6

Pfkp UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.69746492858063
p value: 1.15520036848389E-6
refers to: Pfkp
refers to: 97833_at
t statistic: 16.279874721652

Dnmt3a DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.27932844240962
p value: 1.50161977962898E-6
refers to: Dnmt3a
refers to: 100479_at
t statistic: -15.4508626193031

Ddx19b UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 2.04753438869932
p value: 2.95953188634356E-8
refers to: 92708_at
refers to: Ddx19b
t statistic: 27.1948003913675

Bex1
type: EnsemblDatabaseReference

Gja1 DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.43455743924367
p value: 7.05422761242074E-7
refers to: 100064_f_at
refers to: Gja1
t statistic: -17.2071433319461

Spg21
type: EnsemblDatabaseReference

Htra1
type: EnsemblDatabaseReference

H19 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 2.92321291791064
p value: 1.09201669835034E-8
refers to: 93028_at
refers to: H19
t statistic: 31.9024854183141

(Assay) wild_type_embryonic_stem cells_biological_rep1
type: Assay
identifier: wild_type_embryonic_stem cells_biological_rep1
has participant: A-AFFY-6

93294_at
type: EFO_0005072
part of: A-AFFY-6

Gm27251
type: EnsemblDatabaseReference

95430_f_at
type: EFO_0005072
part of: A-AFFY-6

Ak4
type: EnsemblDatabaseReference

Tuba3a
type: EnsemblDatabaseReference

Gja1 DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.12806468333467
p value: 7.34739415624352E-4
refers to: Gja1
refers to: 100065_r_at
t statistic: -6.41048185242644

Ak4
type: EnsemblDatabaseReference

99959_at
type: EFO_0005072
part of: A-AFFY-6

Sox11 DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.48075003563473
p value: 4.73721825571726E-7
refers to: 101631_at
refers to: Sox11
t statistic: -17.9958201620455

102925_at
type: EFO_0005072
part of: A-AFFY-6

Emb DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.00960426090321
p value: 1.52676034493734E-5
refers to: 101560_at
refers to: Emb
t statistic: -11.3139932799809

93573_at
type: EFO_0005072
part of: A-AFFY-6

Eif2s3y DOWN in 'HDAC1 knock out' vs 'wild type'
type: DecreasedDifferentialExpressionRatio
fold change: -1.89160850053407
p value: 4.63252289412708E-7
refers to: 103674_f_at
refers to: Eif2s3y
t statistic: -18.1286205951736

102431_at
type: EFO_0005072
part of: A-AFFY-6

Nid2
type: EnsemblDatabaseReference

Eif2s3y
type: EnsemblDatabaseReference

Tex19.1 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.10053052616284
p value: 1.47069159664524E-6
refers to: Tex19.1
refers to: 102418_at
t statistic: 15.550024529689

Analysis of 'HDAC1 knock out' vs 'wild type'
type: MicroarrayDifferentialExpressionAnalysis

Tex19.1
type: EnsemblDatabaseReference

Mt1
type: EnsemblDatabaseReference

Dsg2 UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 1.10906292264935
p value: 4.54713176630452E-6
refers to: 104480_at
refers to: Dsg2
t statistic: 13.496923989484

Pfkp UP in 'HDAC1 knock out' vs 'wild type'
type: IncreasedDifferentialExpressionRatio
fold change: 2.11167717271981
p value: 3.31954070343128E-7
refers to: Pfkp
refers to: 97834_g_at
t statistic: 19.0392448007329

Ddx3y
type: EnsemblDatabaseReference

Ebp
type: EnsemblDatabaseReference

(Sample) genetic modification/gene knock out
type: EFO_0000506
property type: genetic modification
property value: gene knock out