Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84266	0.381
27DAP/17DAP	0.95815	0.939
39DAP/27DAP	1.22105	0.685
41DAP/39DAP	0.8975	0.619
42DAP/41DAP	0.73942	0.774
43DAP/42DAP	0.87587	0.705
47DAP/43DAP	1.33901	0.4
52DAP/47DAP	0.97416	0.856
57DAP/52DAP	0.97754	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99912	0.743
17DAP/reference	0.852	0.024
27DAP/reference	1.07593	0.33
39DAP/reference	0.87081	0.088
41DAP/reference	0.73809	0.009
42DAP/reference	0.8544	0.004
43DAP/reference	0.91827	0.331
47DAP/reference	1.05603	0.215
52DAP/reference	1.11148	0.256
57DAP/reference	1.21984	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10319	0.492
27DAP/17DAP	0.94134	0.58
39DAP/27DAP	1.03248	0.672
41DAP/39DAP	0.98269	0.997
42DAP/41DAP	1.002	0.882
43DAP/42DAP	1.07236	0.446
47DAP/43DAP	1.15589	0.154
52DAP/47DAP	1.11457	0.669
57DAP/52DAP	1.03412	0.877
57DAP/7DAP	1.03198	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02724	0.758
17DAP/reference	0.91742	0.253
27DAP/reference	0.99196	0.656
39DAP/reference	0.83756	0.083
41DAP/reference	0.88164	0.174
42DAP/reference	0.9009	0.222
43DAP/reference	0.97273	0.44
47DAP/reference	0.99343	0.671
52DAP/reference	0.73015	0.028
57DAP/reference	0.8503	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99542	0.884
17DAP/reference	0.96049	0.474
27DAP/reference	0.9183	0.173
39DAP/reference	0.9032	0.048
41DAP/reference	0.94991	0.331
42DAP/reference	0.86689	0.055
43DAP/reference	1.01148	0.721
47DAP/reference	0.87293	0.087
52DAP/reference	0.88957	0.066
57DAP/reference	0.77538	0.05

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28359	0.103
17DAP/reference	0.94838	0.47
27DAP/reference	1.00217	0.883
39DAP/reference	0.8749	0.147
41DAP/reference	0.88026	0.209
42DAP/reference	0.86848	0.134
43DAP/reference	0.89279	0.095
47DAP/reference	1.00122	0.731
52DAP/reference	1.02104	0.781
57DAP/reference	1.0789	0.592

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.51162	0.916
26DAP/20DAP	1.38576	0.195
34DAP/26DAP	1.02594	1
51DAP/34DAP	1.51435	0.032
52DAP/51DAP	0.83792	0.151
53DAP/52DAP	1.22462	0.643
55DAP/53DAP	0.8326	0.021
57DAP/55DAP	1.07215	0.969
62DAP/57DAP	0.83596	0.088
68DAP/62DAP	1.45807	0.155
68DAP/14DAP	1.97624	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.61299	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.39703	0.058
Mature Green Tomato/Ripe Tomato	2.42071	0.02
Immature Eggplant/Mature Eggplant	1.6512	0.05
Ripe Pepper/Ripe Tomato	1.85369	1
Mature Eggplant/Ripe Tomato	2.6363	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19817	0.742
1-1-2/M82	1.13203	1
12-2/M82	0.96158	0.955
12-4/M82	1.10279	1
1-3/M82	2.06504	0.277
2-1-1/M82	0.85488	0.465
2-1/M82	0.69026	0.325
2-6/M82	1.05404	1
3-2/M82	1.58825
4-1-1/M82	1.50161
4-1/M82	1.32223	1
4-3-2/M82	1.10133	0.253
4-3/M82	1.37957	1
5-3/M82	1.15746	1
6-2/M82	0.77448	0.497
6-3/M82	1.14194	1
7-1/M82	0.76894	0.44
7-2/M82	1.42556	0.299
9-3-2/M82	1.23829

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93792	1
IL2-6/WTpooled	1.14985	0.584
IL7-5/WTpooled	0.89794
IL7-3/WTpooled	0.65929	0.294
IL12-4/WTpooled	0.93762	1
IL1-4/WTpooled	0.93791	1
WT/WTpooled	1.04357	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	0.90778	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01282	0.921
DC3000/delta hrp 6h	1.05011	0.978
DC3000/delta hrp 12h	0.92597	1
DC3000/delta hrp 24h	0.83998	0.43

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8674	0.099
DC3000 delta B/DC3000 delta AB	0.92253	0.445

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03778	1
Exp 36h	1.05783	1
Exp 60h	1.34256	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02118	1
Var 0h	0.59507	0.216
Var 12h I row2-row1	0.99054	1
Var 12h NI row2-row1	1.10752	0.34
Var 36h I row2-row1	1.00954	1
Var 36h NI row2-row1	1.14092	0.276
Var 60h I row2-row1	0.72377	0.292
Var 60h NI row2-row1	1.10593	1
Time course 0hI-0hNI	1.05359	0.833
Time course 12hI-12hNI	1.04728	0.811
Time course 36hI-36hNI	1.09669	0.651
Time course 60hI-60hNI	0.84915	0.161

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)	1.03356	0.482
transgenic ySAMdc/azygous control (breaker)	0.58345	0.118
transgenic ySAMdc/azygous control (red)	1.47736	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03895	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.53008	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.59147	0.09
Manapal/WT (break)	1.41489	0.14
Manapal/WT (red)	1.48982	0.134