Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.10.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10926	0.912
27DAP/17DAP	0.58826	0.081
39DAP/27DAP	0.62564	0.27
41DAP/39DAP	1.07075	0.761
42DAP/41DAP	0.88884	1
43DAP/42DAP	0.97387	0.925
47DAP/43DAP	0.80691	0.382
52DAP/47DAP	0.73144	0.461
57DAP/52DAP	0.6658	0.55

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21661	0.132
17DAP/reference	1.03558	0.631
27DAP/reference	0.89728	0.249
39DAP/reference	1.13421	0.301
41DAP/reference	0.98422	0.814
42DAP/reference	0.88408	0.059
43DAP/reference	0.95319	0.653
47DAP/reference	0.83348	0.032
52DAP/reference	0.7691	0.028
57DAP/reference	0.84387	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11102	0.619
27DAP/17DAP	0.80877	0.58
39DAP/27DAP	0.61121	0.048
41DAP/39DAP	1.04803	0.914
42DAP/41DAP	0.98752	0.795
43DAP/42DAP	0.95141	0.558
47DAP/43DAP	0.93357	0.823
52DAP/47DAP	0.78642	0.603
57DAP/52DAP	1.18713	0.368
57DAP/7DAP	1.17961	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96205	0.402
17DAP/reference	0.91925	0.124
27DAP/reference	0.8812	0.016
39DAP/reference	0.78412	0.056
41DAP/reference	0.76145	0.027
42DAP/reference	0.78111	0.038
43DAP/reference	0.8535	0.059
47DAP/reference	0.8078	0.222
52DAP/reference	0.66356	0.015
57DAP/reference	0.85297	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11872	0.23
17DAP/reference	1.01089	1
27DAP/reference	0.89612	0.139
39DAP/reference	0.75909	0.062
41DAP/reference	0.83865	0.085
42DAP/reference	0.884	0.108
43DAP/reference	0.98546	0.633
47DAP/reference	1.05734	0.212
52DAP/reference	1.22285	1
57DAP/reference	0.75541	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39649	0.015
17DAP/reference	1.58298	0.093
27DAP/reference	1.16352	0.072
39DAP/reference	1.16254	0.094
41DAP/reference	1.07406	0.554
42DAP/reference	0.93093	0.361
43DAP/reference	0.99472	0.738
47DAP/reference	1.08521	0.63
52DAP/reference	1.03722	0.69
57DAP/reference	0.90504	0.212

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.36499	0.966
26DAP/20DAP	0.77389	0.512
34DAP/26DAP	1.14925	1
51DAP/34DAP	0.75951	0.084
52DAP/51DAP	0.93426	1
53DAP/52DAP	1.50046	0.37
55DAP/53DAP	0.77885	0.325
57DAP/55DAP	0.77554	0.297
62DAP/57DAP	1.1984	0.723
68DAP/62DAP	1.05629	0.914
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73228	0.129

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	9.06005	0.058
Mature Green Tomato/Ripe Tomato	5.2903	0.015
Immature Eggplant/Mature Eggplant	0.14269
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	9.29157	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.42051
1-1-2/M82	1.06493
12-2/M82	N/A	N/A
12-4/M82	1.00345	1
1-3/M82	0.61169	0.378
2-1-1/M82	0.47549
2-1/M82	N/A	N/A
2-6/M82	1.01864	0.395
3-2/M82	0.89494
4-1-1/M82	0.80055
4-1/M82	1.20958
4-3-2/M82	N/A	N/A
4-3/M82	1.75801
5-3/M82	1.0085	1
6-2/M82	0.68444
6-3/M82	N/A	N/A
7-1/M82	1.0638
7-2/M82	0.76523	0.57
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02725	1
IL2-6/WTpooled	1.09184	0.584
IL7-5/WTpooled	1.78226
IL7-3/WTpooled	1.28624	0.362
IL12-4/WTpooled	0.80971	0.581
IL1-4/WTpooled	1.13628	1
WT/WTpooled	1.09755	0.911

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	0.76345	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96744	1
DC3000/delta hrp 6h	1.10482	1
DC3000/delta hrp 12h	0.91648	1
DC3000/delta hrp 24h	0.48975	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.3747	0.026
DC3000 delta B/DC3000 delta AB	0.4123	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96721	1
Exp 36h	0.63187	0.504
Exp 60h	0.45023	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03515	1
Var 0h	1.06558	0.98
Var 12h I row2-row1	0.61463	0.357
Var 12h NI row2-row1	0.8649	0.627
Var 36h I row2-row1	0.87116	0.575
Var 36h NI row2-row1	1.16147	0.482
Var 60h I row2-row1	1.33968	0.487
Var 60h NI row2-row1	0.91245	0.932
Time course 0hI-0hNI	0.91052	0.401
Time course 12hI-12hNI	0.96263	0.739
Time course 36hI-36hNI	0.81324	0.027
Time course 60hI-60hNI	0.06369	0.005

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)	1.08885	0.798
transgenic ySAMdc/azygous control (breaker)	1.88842	0.178
transgenic ySAMdc/azygous control (red)	1.12544	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.83599	0.034

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.4038	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	26.9741	0.087
Manapal/WT (break)	3.07812	0.13
Manapal/WT (red)	1.56303	0.413