Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.13.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87718	0.456
27DAP/17DAP	1.85829	0.471
39DAP/27DAP	0.82522	0.449
41DAP/39DAP	1.37848	0.806
42DAP/41DAP	1.33832	0.755
43DAP/42DAP	0.84044	0.77
47DAP/43DAP	1.06026	0.873
52DAP/47DAP	1.34104	0.516
57DAP/52DAP	1.19409	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9305	0.371
17DAP/reference	1.05636	0.282
27DAP/reference	0.97138	0.567
39DAP/reference	1.03431	0.828
41DAP/reference	1.02105	0.759
42DAP/reference	0.89268	0.034
43DAP/reference	1.00894	1
47DAP/reference	0.96153	0.279
52DAP/reference	0.82956	0.079
57DAP/reference	0.8837	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80001	0.153
27DAP/17DAP	1.02588	0.96
39DAP/27DAP	1.26349	0.108
41DAP/39DAP	0.99388	1
42DAP/41DAP	0.84509	0.093
43DAP/42DAP	1.2636	0.162
47DAP/43DAP	1.1052	0.827
52DAP/47DAP	1.2262	0.338
57DAP/52DAP	1.30424	0.139
57DAP/7DAP	1.40999	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9121	0.296
17DAP/reference	0.88418	0.124
27DAP/reference	0.93546	0.2
39DAP/reference	1.21438	0.028
41DAP/reference	0.88345	0.213
42DAP/reference	0.9584	0.355
43DAP/reference	1.09128	0.511
47DAP/reference	0.9784	0.671
52DAP/reference	1.00073	0.621
57DAP/reference	1.07415	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04799	0.802
17DAP/reference	1.00789	0.851
27DAP/reference	0.88778	0.195
39DAP/reference	0.94621	0.381
41DAP/reference	0.90659	0.16
42DAP/reference	0.82212	0.081
43DAP/reference	1.25165	0.226
47DAP/reference	1.02914	0.751
52DAP/reference	0.95778	0.327
57DAP/reference	1.21103	0.108

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88196	0.119
17DAP/reference	0.94125	0.389
27DAP/reference	0.94389	0.155
39DAP/reference	1.01875	0.836
41DAP/reference	0.97271	0.56
42DAP/reference	0.85757	0.134
43DAP/reference	0.87841	0.237
47DAP/reference	0.94206	0.383
52DAP/reference	0.98143	0.747
57DAP/reference	0.65042	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13045	0.966
26DAP/20DAP	0.95146	1
34DAP/26DAP	1.16079	0.819
51DAP/34DAP	0.76649	0.107
52DAP/51DAP	1.29807	0.154
53DAP/52DAP	1.03247	0.91
55DAP/53DAP	0.97693	0.82
57DAP/55DAP	1.17068	0.779
62DAP/57DAP	1.27188	0.257
68DAP/62DAP	1.26037	0.616
68DAP/14DAP	1.07005	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86389	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.56512	0.06
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.47401	0.224
Mature Eggplant/Ripe Tomato	0.81531	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06251	1
1-1-2/M82	0.99857	1
12-2/M82	1.9997
12-4/M82	1.20839
1-3/M82	0.73403
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.92194
3-2/M82	1.05549	1
4-1-1/M82	1.3951
4-1/M82	2.03188
4-3-2/M82	0.82241	1
4-3/M82	0.82245
5-3/M82	0.90859	1
6-2/M82	1.10879
6-3/M82	0.95623	1
7-1/M82	0.93076
7-2/M82	0.87461	0.796
9-3-2/M82	0.83086

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.00409	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.71424	0.298
IL12-4/WTpooled	0.99289	1
IL1-4/WTpooled	0.95582
WT/WTpooled	0.96732	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	1.01963	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09623	0.921
DC3000/delta hrp 6h	1.1652	1
DC3000/delta hrp 12h	1.01354	1
DC3000/delta hrp 24h	1.05439	0.633

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	1.43639	0.22

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07036	1
Exp 36h	1.05878	1
Exp 60h	1.39401	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99069	1
Var 0h	1.10113	0.936
Var 12h I row2-row1	1.12318	0.263
Var 12h NI row2-row1	0.98478	0.906
Var 36h I row2-row1	0.87776	1
Var 36h NI row2-row1	0.91064	0.706
Var 60h I row2-row1	1.01432	1
Var 60h NI row2-row1	1.04856	0.904
Time course 0hI-0hNI	1.02455	0.867
Time course 12hI-12hNI	1.06248	0.593
Time course 36hI-36hNI	1.26981	0.005
Time course 60hI-60hNI	1.60771	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)	1.21651	0.612
transgenic ySAMdc/azygous control (breaker)	0.70791	0.122
transgenic ySAMdc/azygous control (red)	0.9725	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08194	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77976	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97125	1
Manapal/WT (break)	0.71314	0.299
Manapal/WT (red)	0.65851	0.181