Mtmr7
type: EnsemblDatabaseReference

(Assay) rab3a+/+ hippocampus hrw2 B
type: Assay
identifier: rab3a+/+ hippocampus hrw2 B
has participant: A-AFFY-24

(Assay) earlybird wildtype cortex cew1A
type: Assay
identifier: earlybird wildtype cortex cew1A
has participant: A-AFFY-36

1439627_at
type: EFO_0005072
part of: A-AFFY-24

(Assay) rab3a-/- hippocampus hrm2 B
type: Assay
identifier: rab3a-/- hippocampus hrm2 B
has participant: A-AFFY-24

A-AFFY-24
type: EFO_0000269

Ttr DOWN in 'rab3a D77G mutant' vs 'wild type genotype' in 'litter 1; hippocampus' on 'Affymetrix 430A 2.0'
type: DecreasedDifferentialExpressionRatio
fold change: -2.5
p value: 0.02811567260157
refers to: Ttr
refers to: 1455913_x_at
t statistic: -2.5643321421101

(Assay) rab3a+/+ hippocampus hrw3A
type: Assay
identifier: rab3a+/+ hippocampus hrw3A
has participant: A-AFFY-36

(Assay) rab3a-/- cortex crm1 B
type: Assay
identifier: rab3a-/- cortex crm1 B
has participant: A-AFFY-24

(Assay) rab3a+/+ hippocampus hrw6 B
type: Assay
identifier: rab3a+/+ hippocampus hrw6 B
has participant: A-AFFY-24

(Assay) rab3a+/+ cortex crw5 B
type: Assay
identifier: rab3a+/+ cortex crw5 B
has participant: A-AFFY-24

Prdx2 DOWN in 'rab3a knockout' vs 'wild type genotype' in 'litter 2; hippocampus' on 'Affymetrix 430A 2.0'
type: DecreasedDifferentialExpressionRatio
fold change: -2.0
p value: 5.02203296987719E-12
refers to: Prdx2
refers to: 1430979_a_at
t statistic: -29.3340491070129

Rab3a DOWN in 'rab3a knockout' vs 'wild type genotype' in 'litter 2; cortex' on 'Affymetrix 430A 2.0'
type: DecreasedDifferentialExpressionRatio
fold change: -3.4
p value: 5.55391821230233E-17
refers to: 1422589_at
refers to: Rab3a
t statistic: -46.5372644822569

(Factor value) ORGANISM_PART/cortex
type: EFO_0000001
property type: ORGANISM_PART
property value: cortex

(Assay) rab3a+/+ hippocampus hrw4 B
type: Assay
identifier: rab3a+/+ hippocampus hrw4 B
has participant: A-AFFY-24

(Assay) earlybird wildtype hippocampus hew1A
type: Assay
identifier: earlybird wildtype hippocampus hew1A
has participant: A-AFFY-36

Analysis of 'rab3a knockout' vs 'wild type genotype' in 'litter 2; cortex' on 'Affymetrix 430A 2.0'
type: MicroarrayDifferentialExpressionAnalysis

Rab3a
type: EnsemblDatabaseReference

(Assay) rab3a+/+ hippocampus hrw1 B
type: Assay
identifier: rab3a+/+ hippocampus hrw1 B
has participant: A-AFFY-24

(Assay) rab3a-/- hippocampus hrm3A
type: Assay
identifier: rab3a-/- hippocampus hrm3A
has participant: A-AFFY-36

(Assay) rab3a+/+ cortex crw1A
type: Assay
identifier: rab3a+/+ cortex crw1A
has participant: A-AFFY-36

(Assay) earlybird wildtype hippocampus hew1 B
type: Assay
identifier: earlybird wildtype hippocampus hew1 B
has participant: A-AFFY-24

Prdx2
type: EnsemblDatabaseReference

E-GEOD-6527
type: microarray 1colour mrna differential
RO_0002162: Mus musculus
description: The cortex and hippocampus were dissected from each individual mouse. Targets from three biological replicates of earlybird mutants and their wildtype littermates and six replicates of Rab3a knockouts and wildtype littermates were generated and the expression profiles were determined using Affymetrix MOE430 A and B arrays. Comparisons between the sample groups allow the identification of tissue specifically expressed genes and genes that are affected by mutations of Rab3a. Experiment Overall Design: Cortex and hippocampus from 3 biological replicates of earlybird mutants and wildtype littermates and 6 biological replicates of Rab3a knockouts and wildtype littermates were analyzed
uses data from: http://identifiers.org/pubmed/16734774

(Assay) rab3a-/- hippocampus hrm5A
type: Assay
identifier: rab3a-/- hippocampus hrm5A
has participant: A-AFFY-36

(Assay) earlybird mutant hippocampus hem2 B
type: Assay
identifier: earlybird mutant hippocampus hem2 B
has participant: A-AFFY-24

(Sample) genotype/rab3a D77G mutant
type: EFO_0000001
property type: genotype
property value: rab3a D77G mutant

Mtmr7 DOWN in 'rab3a D77G mutant' vs 'wild type genotype' in 'litter 1; hippocampus' on 'Affymetrix MOE430B'
type: DecreasedDifferentialExpressionRatio
fold change: -1.6
p value: 0.0408811838644989
refers to: 1447831_s_at
refers to: Mtmr7
t statistic: -5.82134533846157

Zic1
type: EnsemblDatabaseReference

1415904_at
type: EFO_0005072
part of: A-AFFY-36

(Assay) rab3a-/- hippocampus hrm1A
type: Assay
identifier: rab3a-/- hippocampus hrm1A
has participant: A-AFFY-36

Analysis of 'rab3a D77G mutant' vs 'wild type genotype' in 'litter 1; hippocampus' on 'Affymetrix 430A 2.0'
type: MicroarrayDifferentialExpressionAnalysis

A-AFFY-36
type: EFO_0000269

(Sample) generation/litter 1
type: EFO_0000001
property type: generation
property value: litter 1

(Assay) rab3a-/- hippocampus hrm6 B
type: Assay
identifier: rab3a-/- hippocampus hrm6 B
has participant: A-AFFY-24

(Assay) rab3a-/- hippocampus hrm5 B
type: Assay
identifier: rab3a-/- hippocampus hrm5 B
has participant: A-AFFY-24

(Assay) rab3a-/- cortex crm1A
type: Assay
identifier: rab3a-/- cortex crm1A
has participant: A-AFFY-36

(Factor value) GENERATION/litter 2
type: EFO_0000001
property type: GENERATION
property value: litter 2

(Factor value) GENOTYPE/rab3a D77G mutant
type: EFO_0000001
property type: GENOTYPE
property value: rab3a D77G mutant

(Assay) rab3a-/- cortex crm4 B
type: Assay
identifier: rab3a-/- cortex crm4 B
has participant: A-AFFY-24

1430979_a_at
type: EFO_0005072
part of: A-AFFY-36

(Assay) rab3a-/- cortex crm4A
type: Assay
identifier: rab3a-/- cortex crm4A
has participant: A-AFFY-36

(Assay) rab3a+/+ cortex crw1 B
type: Assay
identifier: rab3a+/+ cortex crw1 B
has participant: A-AFFY-24

(Assay) earlybird mutant hippocampus hem3A
type: Assay
identifier: earlybird mutant hippocampus hem3A
has participant: A-AFFY-36

(Assay) earlybird wildtype hippocampus hew3 B
type: Assay
identifier: earlybird wildtype hippocampus hew3 B
has participant: A-AFFY-24

(Assay) rab3a+/+ cortex crw2 B
type: Assay
identifier: rab3a+/+ cortex crw2 B
has participant: A-AFFY-24

(Assay) earlybird wildtype hippocampus hew3A
type: Assay
identifier: earlybird wildtype hippocampus hew3A
has participant: A-AFFY-36

(Assay) earlybird wildtype cortex cew3 B
type: Assay
identifier: earlybird wildtype cortex cew3 B
has participant: A-AFFY-24

(Factor value) GENERATION/litter 1
type: EFO_0000001
property type: GENERATION
property value: litter 1

Analysis of 'rab3a D77G mutant' vs 'wild type genotype' in 'litter 1; hippocampus' on 'Affymetrix MOE430B'
type: MicroarrayDifferentialExpressionAnalysis

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

Mus musculus
type: OBI_0100026

(Assay) rab3a+/+ hippocampus hrw1A
type: Assay
identifier: rab3a+/+ hippocampus hrw1A
has participant: A-AFFY-36

1422589_at
type: EFO_0005072
part of: A-AFFY-36

(Assay) rab3a-/- hippocampus hrm4 B
type: Assay
identifier: rab3a-/- hippocampus hrm4 B
has participant: A-AFFY-24

(Assay) rab3a+/+ cortex crw2A
type: Assay
identifier: rab3a+/+ cortex crw2A
has participant: A-AFFY-36

(Assay) rab3a-/- hippocampus hrm3 B
type: Assay
identifier: rab3a-/- hippocampus hrm3 B
has participant: A-AFFY-24

(Sample) organism part/cortex
type: EFO_0000001
property type: organism part
property value: cortex

(Assay) rab3a+/+ cortex crw6 B
type: Assay
identifier: rab3a+/+ cortex crw6 B
has participant: A-AFFY-24

(Assay) earlybird mutant cortex cem3A
type: Assay
identifier: earlybird mutant cortex cem3A
has participant: A-AFFY-36

(Assay) rab3a-/- cortex crm3A
type: Assay
identifier: rab3a-/- cortex crm3A
has participant: A-AFFY-36

Rab3a
type: EnsemblDatabaseReference

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

(Assay) rab3a-/- cortex crm2A
type: Assay
identifier: rab3a-/- cortex crm2A
has participant: A-AFFY-36

(Assay) rab3a+/+ cortex crw4 B
type: Assay
identifier: rab3a+/+ cortex crw4 B
has participant: A-AFFY-24

(Assay) earlybird mutant cortex cem3 B
type: Assay
identifier: earlybird mutant cortex cem3 B
has participant: A-AFFY-24

(Assay) rab3a+/+ cortex crw4A
type: Assay
identifier: rab3a+/+ cortex crw4A
has participant: A-AFFY-36

Ttr
type: EnsemblDatabaseReference

(Assay) rab3a-/- hippocampus hrm1 B
type: Assay
identifier: rab3a-/- hippocampus hrm1 B
has participant: A-AFFY-24

(Assay) earlybird mutant cortex cem1 B
type: Assay
identifier: earlybird mutant cortex cem1 B
has participant: A-AFFY-24

Rab3a DOWN in 'rab3a knockout' vs 'wild type genotype' in 'litter 2; hippocampus' on 'Affymetrix 430A 2.0'
type: DecreasedDifferentialExpressionRatio
fold change: -3.3
p value: 4.93217481552796E-14
refers to: Rab3a
refers to: 1422589_at
t statistic: -40.9165633093234

(Assay) earlybird mutant hippocampus hem2A
type: Assay
identifier: earlybird mutant hippocampus hem2A
has participant: A-AFFY-36

(Assay) rab3a+/+ cortex crw3A
type: Assay
identifier: rab3a+/+ cortex crw3A
has participant: A-AFFY-36

Lpl
type: EnsemblDatabaseReference

Analysis of 'rab3a knockout' vs 'wild type genotype' in 'litter 2; hippocampus' on 'Affymetrix 430A 2.0'
type: MicroarrayDifferentialExpressionAnalysis

(Assay) rab3a+/+ cortex crw6A
type: Assay
identifier: rab3a+/+ cortex crw6A
has participant: A-AFFY-36

(Assay) rab3a-/- hippocampus hrm4A
type: Assay
identifier: rab3a-/- hippocampus hrm4A
has participant: A-AFFY-36

(Assay) rab3a+/+ cortex crw3 B
type: Assay
identifier: rab3a+/+ cortex crw3 B
has participant: A-AFFY-24

(Factor value) ORGANISM_PART/hippocampus
type: EFO_0000530
property type: ORGANISM_PART
property value: hippocampus

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

Lpl
type: EnsemblDatabaseReference

(Assay) rab3a+/+ hippocampus hrw2A
type: Assay
identifier: rab3a+/+ hippocampus hrw2A
has participant: A-AFFY-36

(Assay) rab3a-/- cortex crm6A
type: Assay
identifier: rab3a-/- cortex crm6A
has participant: A-AFFY-36

(Assay) earlybird wildtype cortex cew2 B
type: Assay
identifier: earlybird wildtype cortex cew2 B
has participant: A-AFFY-24

(Assay) earlybird wildtype cortex cew1 B
type: Assay
identifier: earlybird wildtype cortex cew1 B
has participant: A-AFFY-24

(Assay) rab3a+/+ hippocampus hrw5A
type: Assay
identifier: rab3a+/+ hippocampus hrw5A
has participant: A-AFFY-36

Mtmr7
type: EnsemblDatabaseReference

(Assay) rab3a+/+ hippocampus hrw5 B
type: Assay
identifier: rab3a+/+ hippocampus hrw5 B
has participant: A-AFFY-24

Zic1 DOWN in 'rab3a D77G mutant' vs 'wild type genotype' in 'litter 1; hippocampus' on 'Affymetrix MOE430B'
type: DecreasedDifferentialExpressionRatio
fold change: -1.2
p value: 0.0461222491002087
refers to: 1439627_at
refers to: Zic1
t statistic: -5.40906626402716

(Assay) earlybird mutant hippocampus hem1 B
type: Assay
identifier: earlybird mutant hippocampus hem1 B
has participant: A-AFFY-24

(Assay) rab3a-/- cortex crm2 B
type: Assay
identifier: rab3a-/- cortex crm2 B
has participant: A-AFFY-24

(Assay) earlybird wildtype hippocampus hew2 B
type: Assay
identifier: earlybird wildtype hippocampus hew2 B
has participant: A-AFFY-24

(Assay) rab3a-/- cortex crm6 B
type: Assay
identifier: rab3a-/- cortex crm6 B
has participant: A-AFFY-24

(Assay) rab3a-/- cortex crm3 B
type: Assay
identifier: rab3a-/- cortex crm3 B
has participant: A-AFFY-24

1431056_a_at
type: EFO_0005072
part of: A-AFFY-36

(Assay) earlybird mutant hippocampus hem3 B
type: Assay
identifier: earlybird mutant hippocampus hem3 B
has participant: A-AFFY-24

(Assay) earlybird wildtype cortex cew2A
type: Assay
identifier: earlybird wildtype cortex cew2A
has participant: A-AFFY-36

(Assay) rab3a-/- hippocampus hrm2A
type: Assay
identifier: rab3a-/- hippocampus hrm2A
has participant: A-AFFY-36

Ttr
type: EnsemblDatabaseReference

(Assay) earlybird mutant cortex cem1A
type: Assay
identifier: earlybird mutant cortex cem1A
has participant: A-AFFY-36

(Assay) rab3a-/- hippocampus hrm6A
type: Assay
identifier: rab3a-/- hippocampus hrm6A
has participant: A-AFFY-36

Prdx2 DOWN in 'rab3a knockout' vs 'wild type genotype' in 'litter 2; cortex' on 'Affymetrix 430A 2.0'
type: DecreasedDifferentialExpressionRatio
fold change: -2.1
p value: 1.42657894256086E-14
refers to: Prdx2
refers to: 1430979_a_at
t statistic: -33.1170839907563

(Assay) rab3a+/+ hippocampus hrw6A
type: Assay
identifier: rab3a+/+ hippocampus hrw6A
has participant: A-AFFY-36

(Sample) genotype/rab3a knockout
type: EFO_0000001
property type: genotype
property value: rab3a knockout

(Sample) organism part/hippocampus
type: EFO_0000530
property type: organism part
property value: hippocampus

Lpl UP in 'rab3a knockout' vs 'wild type genotype' in 'litter 2; hippocampus' on 'Affymetrix 430A 2.0'
type: IncreasedDifferentialExpressionRatio
fold change: 1.0
p value: 1.06238333041355E-4
refers to: Lpl
refers to: 1431056_a_at
t statistic: 9.20524477291137

(Assay) earlybird wildtype cortex cew3A
type: Assay
identifier: earlybird wildtype cortex cew3A
has participant: A-AFFY-36

(Assay) rab3a+/+ hippocampus hrw3 B
type: Assay
identifier: rab3a+/+ hippocampus hrw3 B
has participant: A-AFFY-24

Lpl UP in 'rab3a knockout' vs 'wild type genotype' in 'litter 2; hippocampus' on 'Affymetrix 430A 2.0'
type: IncreasedDifferentialExpressionRatio
fold change: 1.0
p value: 4.44128633209163E-6
refers to: 1415904_at
refers to: Lpl
t statistic: 11.7515167647649

Prdx2
type: EnsemblDatabaseReference

Zic1
type: EnsemblDatabaseReference

(Assay) earlybird wildtype hippocampus hew2A
type: Assay
identifier: earlybird wildtype hippocampus hew2A
has participant: A-AFFY-36

1455913_x_at
type: EFO_0005072
part of: A-AFFY-36

(Assay) rab3a+/+ hippocampus hrw4A
type: Assay
identifier: rab3a+/+ hippocampus hrw4A
has participant: A-AFFY-36

(Assay) rab3a-/- cortex crm5 B
type: Assay
identifier: rab3a-/- cortex crm5 B
has participant: A-AFFY-24

(Assay) earlybird mutant cortex cem2 B
type: Assay
identifier: earlybird mutant cortex cem2 B
has participant: A-AFFY-24

(Sample) generation/litter 2
type: EFO_0000001
property type: generation
property value: litter 2

1447831_s_at
type: EFO_0005072
part of: A-AFFY-24

(Assay) earlybird mutant cortex cem2A
type: Assay
identifier: earlybird mutant cortex cem2A
has participant: A-AFFY-36

(Assay) earlybird mutant hippocampus hem1A
type: Assay
identifier: earlybird mutant hippocampus hem1A
has participant: A-AFFY-36

(Factor value) GENOTYPE/rab3a knockout
type: EFO_0000001
property type: GENOTYPE
property value: rab3a knockout

(Assay) rab3a-/- cortex crm5A
type: Assay
identifier: rab3a-/- cortex crm5A
has participant: A-AFFY-36

(Assay) rab3a+/+ cortex crw5A
type: Assay
identifier: rab3a+/+ cortex crw5A
has participant: A-AFFY-36