Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.19.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7693	0.148
27DAP/17DAP	1.52809	0.721
39DAP/27DAP	1.24473	0.38
41DAP/39DAP	0.90614	0.615
42DAP/41DAP	0.8572	0.774
43DAP/42DAP	0.92589	0.867
47DAP/43DAP	1.05152	0.943
52DAP/47DAP	1.23633	0.53
57DAP/52DAP	0.85909	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66089	0.007
17DAP/reference	1.42708	0.071
27DAP/reference	1.38661	0.009
39DAP/reference	1.428	0.243
41DAP/reference	1.62392	0.015
42DAP/reference	1.09172	0.467
43DAP/reference	1.5525	0.095
47DAP/reference	0.9721	0.535
52DAP/reference	1.57498	0.01
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09193	0.961
27DAP/17DAP	0.7912	0.143
39DAP/27DAP	1.16456	0.197
41DAP/39DAP	1.05917	0.79
42DAP/41DAP	0.92157	0.473
43DAP/42DAP	1.16486	0.079
47DAP/43DAP	0.99528	0.989
52DAP/47DAP	1.21642	0.395
57DAP/52DAP	1.22113	0.161
57DAP/7DAP	0.94594	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59541	0.077
17DAP/reference	0.47874	0.011
27DAP/reference	0.55116	0.01
39DAP/reference	0.62142	0.013
41DAP/reference	0.60055	0.027
42DAP/reference	0.75287	0.034
43DAP/reference	0.7038	0.022
47DAP/reference	0.96683	0.671
52DAP/reference	0.54869	0.012
57DAP/reference	0.45355	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08284	0.787
17DAP/reference	1.24041	0.156
27DAP/reference	1.16901	0.133
39DAP/reference	1.2886	0.077
41DAP/reference	1.36602	0.018
42DAP/reference	1.29297	0.062
43DAP/reference	0.9378	0.394
47DAP/reference	1.06968	0.527
52DAP/reference	1.30697	0.006
57DAP/reference	1.20816	0.286

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64309	0.05
17DAP/reference	0.79587	0.239
27DAP/reference	0.64096	0.051
39DAP/reference	0.70774	0.043
41DAP/reference	0.67716	0.05
42DAP/reference	1.40486	0.009
43DAP/reference	1.34333	0.028
47DAP/reference	1.25522	0.024
52DAP/reference	1.01159	0.908
57DAP/reference	1.2164	0.298

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.69276	0.087
26DAP/20DAP	1.07863	0.689
34DAP/26DAP	1.15651	1
51DAP/34DAP	0.95768	0.737
52DAP/51DAP	1.18198	0.232
53DAP/52DAP	0.80775	0.126
55DAP/53DAP	1.05952	0.656
57DAP/55DAP	0.96331	0.783
62DAP/57DAP	1.01213	0.994
68DAP/62DAP	1.66324	0.323
68DAP/14DAP	1.03729	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02239	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.58258	0.026
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.02068
Mature Eggplant/Ripe Tomato	0.76231	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14064	0.742
1-1-2/M82	0.94807	1
12-2/M82	0.70731	0.74
12-4/M82	0.86732	1
1-3/M82	1.31933	1
2-1-1/M82	1.03667	0.764
2-1/M82	0.6968	0.325
2-6/M82	2.54115	0.594
3-2/M82	1.56518
4-1-1/M82	1.06263	1
4-1/M82	1.03986	1
4-3-2/M82	1.00983	1
4-3/M82	1.37712	1
5-3/M82	0.76363	0.447
6-2/M82	1.55421	0.235
6-3/M82	0.74561	0.68
7-1/M82	1.09101	0.741
7-2/M82	1.08604	1
9-3-2/M82	1.35966	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09034	0.493
IL2-6/WTpooled	1.01093	0.788
IL7-5/WTpooled	0.65104	1
IL7-3/WTpooled	0.88765	0.31
IL12-4/WTpooled	0.98488	1
IL1-4/WTpooled	0.9529	0.834
WT/WTpooled	1.00227	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	1.13068	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96537	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.85836	1
DC3000/delta hrp 24h	0.78287	0.047

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01163
DC3000 delta B/DC3000 delta AB	1.12261	0.398

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02665	1
Var 0h	1.12402	0.782
Var 12h I row2-row1	1.09219	0.613
Var 12h NI row2-row1	0.9288	0.82
Var 36h I row2-row1	1.11119	0.41
Var 36h NI row2-row1	1.03042	1
Var 60h I row2-row1	1.22201	0.562
Var 60h NI row2-row1	0.90832	0.69
Time course 0hI-0hNI	1.00219	1
Time course 12hI-12hNI	1.09127	0.25
Time course 36hI-36hNI	1.14329	0.011
Time course 60hI-60hNI	1.18552	0.187

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.67915	0.139
transgenic ySAMdc/azygous control (red)	0.73443	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08511	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.45996	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.06602	0.413