Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.9.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04088	0.961
27DAP/17DAP	1.41419	0.669
39DAP/27DAP	0.90058	0.462
41DAP/39DAP	1.35149	0.437
42DAP/41DAP	0.95447	1
43DAP/42DAP	1.07457	1
47DAP/43DAP	0.95497	0.799
52DAP/47DAP	1.2105	0.61
57DAP/52DAP	1.23678	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8553	0.094
17DAP/reference	1.02096	0.476
27DAP/reference	0.90046	0.055
39DAP/reference	1.06791	0.524
41DAP/reference	0.99294	0.814
42DAP/reference	0.85888	0.005
43DAP/reference	0.94314	0.48
47DAP/reference	0.9501	0.042
52DAP/reference	0.90452	0.25
57DAP/reference	0.92165	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96165	0.526
27DAP/17DAP	0.95672	0.854
39DAP/27DAP	1.02877	0.646
41DAP/39DAP	1.03072	0.79
42DAP/41DAP	0.98537	0.85
43DAP/42DAP	1.00203	1
47DAP/43DAP	0.98966	0.954
52DAP/47DAP	0.97009	0.905
57DAP/52DAP	1.10885	0.434
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05899	0.961
17DAP/reference	0.94126	0.295
27DAP/reference	0.97063	0.43
39DAP/reference	1.17957	0.056
41DAP/reference	0.82676	0.116
42DAP/reference	0.90987	0.304
43DAP/reference	0.93768	0.321
47DAP/reference	1.03573	1
52DAP/reference	0.80117	0.031
57DAP/reference	0.7704	0.056

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04847	0.65
17DAP/reference	0.91394	0.26
27DAP/reference	0.8681	0.195
39DAP/reference	0.89092	0.221
41DAP/reference	0.86108	0.051
42DAP/reference	0.83423	0.055
43DAP/reference	0.8941	0.191
47DAP/reference	0.87028	0.018
52DAP/reference	0.83366	0.005
57DAP/reference	0.92308	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13766	0.616
17DAP/reference	0.9169	0.313
27DAP/reference	0.99412	0.727
39DAP/reference	0.93284	0.122
41DAP/reference	0.95904	0.512
42DAP/reference	0.82825	0.172
43DAP/reference	0.70538	0.031
47DAP/reference	1.01441	0.76
52DAP/reference	1.03832	0.838
57DAP/reference	0.99238	0.704

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07476	0.966
26DAP/20DAP	1.47302	0.138
34DAP/26DAP	0.93143	0.653
51DAP/34DAP	1.56178	0.045
52DAP/51DAP	0.88335	0.151
53DAP/52DAP	0.99614	1
55DAP/53DAP	0.84659	0.632
57DAP/55DAP	0.94835	0.757
62DAP/57DAP	1.00214	1
68DAP/62DAP	1.18268	0.657
68DAP/14DAP	1.25293	0.636

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72114	0.042

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.45263	0.081
Mature Green Tomato/Ripe Tomato	0.85023	0.569
Immature Eggplant/Mature Eggplant	2.29423	0.05
Ripe Pepper/Ripe Tomato	1.2106	1
Mature Eggplant/Ripe Tomato	0.38729	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91776	0.69
1-1-2/M82	1.10911	1
12-2/M82	1.14493	1
12-4/M82	0.99666	1
1-3/M82	0.93246	1
2-1-1/M82	1.11811	1
2-1/M82	0.81935
2-6/M82	0.99774	1
3-2/M82	1.02386	0.717
4-1-1/M82	0.95882	1
4-1/M82	1.05262	1
4-3-2/M82	0.94865	1
4-3/M82	0.94629	0.72
5-3/M82	1.16881	1
6-2/M82	0.96344	1
6-3/M82	0.97109	1
7-1/M82	1.2312	0.925
7-2/M82	1.03535	1
9-3-2/M82	1.02004	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02375	1
IL2-6/WTpooled	0.77369	0.473
IL7-5/WTpooled	1.14896	0.792
IL7-3/WTpooled	0.66384	0.31
IL12-4/WTpooled	0.66609	0.539
IL1-4/WTpooled	0.82057	0.699
WT/WTpooled	1.03175	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.06129	0.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97925	1
DC3000/delta hrp 6h	1.15917	0.582
DC3000/delta hrp 12h	1.09	1
DC3000/delta hrp 24h	0.95538	0.711

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13629	0.042
DC3000 delta B/DC3000 delta AB	1.18742	0.177

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97943	1
Exp 36h	1.30588	1
Exp 60h	1.21285	0.563

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.03924	1
Var 0h	0.88673	0.933
Var 12h I row2-row1	1.11078	0.324
Var 12h NI row2-row1	1.0267	1
Var 36h I row2-row1	1.0676	1
Var 36h NI row2-row1	0.98098	0.791
Var 60h I row2-row1	0.89901	0.285
Var 60h NI row2-row1	1.04628	0.904
Time course 0hI-0hNI	1.03159	0.867
Time course 12hI-12hNI	0.979	0.858
Time course 36hI-36hNI	1.04998	0.453
Time course 60hI-60hNI	1.95225	0.008

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.85021	0.3
transgenic ySAMdc/azygous control (breaker)	0.74125	0.173
transgenic ySAMdc/azygous control (red)	0.86253	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01612	0.656

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76667	0.241

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.46675	0.172
Manapal/WT (break)	0.70363	0.333
Manapal/WT (red)	0.70464	0.181