Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.1.2.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11641	0.67
27DAP/17DAP	1.082	0.859
39DAP/27DAP	0.91208	0.641
41DAP/39DAP	1.12348	0.597
42DAP/41DAP	2.22928	0.825
43DAP/42DAP	1.39943	0.728
47DAP/43DAP	1.49042	0.52
52DAP/47DAP	0.84032	0.612
57DAP/52DAP	1.1524	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8982	0.089
17DAP/reference	1.06124	0.442
27DAP/reference	1.01801	0.806
39DAP/reference	0.97599	0.587
41DAP/reference	0.91956	0.267
42DAP/reference	0.85457	0.006
43DAP/reference	0.97575	0.594
47DAP/reference	0.89483	0.065
52DAP/reference	0.88541	0.135
57DAP/reference	1.19362	0.105

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26049	0.241
27DAP/17DAP	1.03935	0.893
39DAP/27DAP	0.96678	0.784
41DAP/39DAP	0.99562	1
42DAP/41DAP	1.02563	1
43DAP/42DAP	1.16144	0.192
47DAP/43DAP	1.03896	0.901
52DAP/47DAP	0.99873	0.951
57DAP/52DAP	1.06978	0.763
57DAP/7DAP	1.89811	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16691	0.292
17DAP/reference	1.32297	0.059
27DAP/reference	1.17176	0.371
39DAP/reference	1.33256	0.036
41DAP/reference	1.33226	0.039
42DAP/reference	1.23796	0.1
43DAP/reference	1.13965	0.432
47DAP/reference	1.16924	0.404
52DAP/reference	1.05764	0.781
57DAP/reference	1.20219	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92079	0.386
17DAP/reference	0.8807	0.092
27DAP/reference	0.91714	0.257
39DAP/reference	0.99437	0.603
41DAP/reference	0.91412	0.118
42DAP/reference	0.80807	0.019
43DAP/reference	0.80976	0.06
47DAP/reference	0.84319	0.046
52DAP/reference	0.95183	0.38
57DAP/reference	0.85485	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24643	0.356
17DAP/reference	1.13897	0.627
27DAP/reference	1.43965	0.149
39DAP/reference	1.1097	0.578
41DAP/reference	1.09247	0.84
42DAP/reference	1.03177	1
43DAP/reference	0.8885	0.348
47DAP/reference	0.97185	0.478
52DAP/reference	0.96356	0.611
57DAP/reference	1.2448	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12751	0.966
26DAP/20DAP	1.06987	1
34DAP/26DAP	1.21223	0.819
51DAP/34DAP	0.93068	0.631
52DAP/51DAP	0.95708	1
53DAP/52DAP	0.96482	0.83
55DAP/53DAP	1.09741	0.834
57DAP/55DAP	1.23478	0.424
62DAP/57DAP	1.51838	0.445
68DAP/62DAP	1.4427	0.047
68DAP/14DAP	1.72706	0.034

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76513	0.129

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.23393	N/A
Mature Green Tomato/Ripe Tomato	0.69903	0.017
Immature Eggplant/Mature Eggplant	1.5455	N/A
Ripe Pepper/Ripe Tomato	0.9127	1
Mature Eggplant/Ripe Tomato	0.68886	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.33743	N/A
1-1-2/M82	1.00672	N/A
12-2/M82	N/A	N/A
12-4/M82	1.12336	0.611
1-3/M82	0.94791	N/A
2-1-1/M82	1.5176	N/A
2-1/M82	1.24872	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.24534	N/A
5-3/M82	1.26286	0.496
6-2/M82	N/A	N/A
6-3/M82	0.94881	1
7-1/M82	N/A	N/A
7-2/M82	1.11448	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8088	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.82254	N/A
IL7-3/WTpooled	0.63715	N/A
IL12-4/WTpooled	0.61541	0.478
IL1-4/WTpooled	1.48769	1
WT/WTpooled	1.19988	N/A

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	1.02617	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94185	1
DC3000/delta hrp 6h	1.57086	1
DC3000/delta hrp 12h	0.96401	1
DC3000/delta hrp 24h	1.09181	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12856	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.92714	1
Exp 36h	0.91753	0.749
Exp 60h	1.10091	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.23029	N/A
Var 0h	0.66763	1
Var 12h I row2-row1	1.04735	0.443
Var 12h NI row2-row1	0.92205	0.82
Var 36h I row2-row1	1.07916	N/A
Var 36h NI row2-row1	0.10705	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.18136	0.904
Time course 0hI-0hNI	1.1194	0.852
Time course 12hI-12hNI	1.07193	0.81
Time course 36hI-36hNI	0.96249	0.38
Time course 60hI-60hNI	0.72471	0.081

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)	0.88799	0.348
transgenic ySAMdc/azygous control (breaker)	1.54241	0.162
transgenic ySAMdc/azygous control (red)	1.06397	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96569	0.12

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0191	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89283	1
Manapal/WT (break)	0.83945	0.333
Manapal/WT (red)	1.08123	0.413