Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.2.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04291	0.951
27DAP/17DAP	0.9829	0.952
39DAP/27DAP	0.902	0.435
41DAP/39DAP	1.07337	0.844
42DAP/41DAP	0.97921	1
43DAP/42DAP	0.83044	0.773
47DAP/43DAP	1.27498	0.502
52DAP/47DAP	1.0721	0.93
57DAP/52DAP	0.97887	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86801	0.125
17DAP/reference	0.85851	0.074
27DAP/reference	0.97672	0.623
39DAP/reference	1.01655	0.991
41DAP/reference	0.82721	0.026
42DAP/reference	1.35032	0.001
43DAP/reference	1.19587	0.012
47DAP/reference	1.22298	0.015
52DAP/reference	1.21937	0.286
57DAP/reference	1.30367	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05313	0.934
27DAP/17DAP	0.88915	0.854
39DAP/27DAP	1.08454	0.672
41DAP/39DAP	1.02948	0.883
42DAP/41DAP	0.93795	0.641
43DAP/42DAP	0.93266	0.482
47DAP/43DAP	1.05773	0.901
52DAP/47DAP	1.28021	0.412
57DAP/52DAP	0.96893	0.716
57DAP/7DAP	1.22181	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09054	0.418
17DAP/reference	1.25489	0.688
27DAP/reference	0.76407	0.125
39DAP/reference	1.35961	0.133
41DAP/reference	1.15259	0.491
42DAP/reference	1.25224	0.132
43DAP/reference	1.04059	0.974
47DAP/reference	1.20221	0.331
52DAP/reference	1.44992	0.113
57DAP/reference	1.01929	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82889	0.14
17DAP/reference	0.94231	0.51
27DAP/reference	1.17615	0.338
39DAP/reference	1.06818	0.824
41DAP/reference	1.28154	0.045
42DAP/reference	1.0364	0.777
43DAP/reference	0.98852	0.681
47DAP/reference	1.19665	0.176
52DAP/reference	0.99971	0.713
57DAP/reference	0.88865	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22263	0.212
17DAP/reference	1.84472	0.775
27DAP/reference	1.26076	0.672
39DAP/reference	1.10359	0.019
41DAP/reference	0.9912	0.826
42DAP/reference	1.52058	0.019
43DAP/reference	1.04617	1
47DAP/reference	1.22527	0.055
52DAP/reference	1.0511	0.79
57DAP/reference	1.48798	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96462	1
26DAP/20DAP	3.33639	0.353
34DAP/26DAP	1.20977	0.542
51DAP/34DAP	1.09908	0.901
52DAP/51DAP	0.73311	1
53DAP/52DAP	1.09132	0.921
55DAP/53DAP	1.14791	0.719
57DAP/55DAP	0.87433	0.577
62DAP/57DAP	1.1364	0.767
68DAP/62DAP	1.72335	0.153
68DAP/14DAP	1.69239	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.48134	0.026

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.13015	0.814
Immature Eggplant/Mature Eggplant	1.34138	0.142
Ripe Pepper/Ripe Tomato	0.44769	0.293
Mature Eggplant/Ripe Tomato	0.72566	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0698	0.877
1-1-2/M82	0.86222	0.25
12-2/M82	0.9614	0.955
12-4/M82	1.01381	1
1-3/M82	1.08798	1
2-1-1/M82	1.11549
2-1/M82	N/A	N/A
2-6/M82	1.07447	0.594
3-2/M82	N/A	N/A
4-1-1/M82	1.05134	1
4-1/M82	0.84157
4-3-2/M82	0.82251
4-3/M82	1.54291
5-3/M82	1.03603	1
6-2/M82	1.04797	0.235
6-3/M82	1.01902	1
7-1/M82	N/A	N/A
7-2/M82	1.02155	1
9-3-2/M82	0.88512	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98365	1
IL2-6/WTpooled	0.90237	0.358
IL7-5/WTpooled	1.39754	0.792
IL7-3/WTpooled	0.96235	1
IL12-4/WTpooled	1.02307	1
IL1-4/WTpooled	0.80625	0.699
WT/WTpooled	0.96017	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	1.09075	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97396	1
DC3000/delta hrp 6h	0.99854	0.95
DC3000/delta hrp 12h	0.73679	1
DC3000/delta hrp 24h	0.82537	0.148

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	2.51994

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08069	1
Exp 36h	0.71424	0.699
Exp 60h	1.06831	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.04975	0.936
Var 12h I row2-row1	1.04372
Var 12h NI row2-row1	0.90817
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	1.02731	1
Var 60h I row2-row1	1.26312	0.562
Var 60h NI row2-row1	2.36086	0.904
Time course 0hI-0hNI	0.94073	0.711
Time course 12hI-12hNI	0.77885	0.526
Time course 36hI-36hNI	1.34513	0.881
Time course 60hI-60hNI	0.68649	0.006

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)	0.78637	0.295
transgenic ySAMdc/azygous control (breaker)	1.89899	0.178
transgenic ySAMdc/azygous control (red)	1.18019	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98918	0.694

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05711	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78216	0.172
Manapal/WT (break)	1.21356	0.381
Manapal/WT (red)	1.48233	0.126