Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.1.1.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01012	0.961
27DAP/17DAP	1.00454	1
39DAP/27DAP	1.20271	0.566
41DAP/39DAP	1.11225	0.624
42DAP/41DAP	0.92881	1
43DAP/42DAP	1.51078	0.279
47DAP/43DAP	0.74353	0.35
52DAP/47DAP	1.29074	0.851
57DAP/52DAP	0.98208	0.966

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18294	0.045
17DAP/reference	1.09694	0.148
27DAP/reference	1.00858	1
39DAP/reference	1.04814	0.474
41DAP/reference	1.04994	0.203
42DAP/reference	0.97279	0.337
43DAP/reference	1.14384	0.078
47DAP/reference	1.05226	0.989
52DAP/reference	1.02247	1
57DAP/reference	0.84871	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86541	0.376
27DAP/17DAP	1.13081	0.511
39DAP/27DAP	1.32792	0.314
41DAP/39DAP	0.91156	0.645
42DAP/41DAP	1.26376	0.011
43DAP/42DAP	1.31668	0.017
47DAP/43DAP	1.00217	0.973
52DAP/47DAP	0.64315	0.041
57DAP/52DAP	1.0865	0.558
57DAP/7DAP	2.14428	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23607	0.054
17DAP/reference	1.11499	0.123
27DAP/reference	0.82756	0.026
39DAP/reference	0.9508	0.23
41DAP/reference	0.71024	0.012
42DAP/reference	0.73833	0.016
43DAP/reference	0.72157	0.012
47DAP/reference	0.76892	0.036
52DAP/reference	0.7763	0.031
57DAP/reference	0.86993	0.052

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17396	0.117
17DAP/reference	1.49157	0.07
27DAP/reference	0.99498	0.686
39DAP/reference	0.99883	0.682
41DAP/reference	0.79693	0.052
42DAP/reference	0.75842	0.024
43DAP/reference	1.15689	0.327
47DAP/reference	0.8942	0.028
52DAP/reference	0.97851	0.666
57DAP/reference	1.11868	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49131	0.047
17DAP/reference	1.17204	0.283
27DAP/reference	0.99331	0.727
39DAP/reference	0.99185	0.643
41DAP/reference	0.95824	0.459
42DAP/reference	0.78696	0.071
43DAP/reference	0.81306	0.057
47DAP/reference	1.36246	0.012
52DAP/reference	0.8931	0.433
57DAP/reference	0.84515	0.046

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94988	1
26DAP/20DAP	0.90792	1
34DAP/26DAP	0.99729	1
51DAP/34DAP	1.2035	0.241
52DAP/51DAP	0.74847	0.151
53DAP/52DAP	1.31017	0.129
55DAP/53DAP	0.9979	0.894
57DAP/55DAP	1.41985	0.167
62DAP/57DAP	1.03264	0.021
68DAP/62DAP	0.66592	0.109
68DAP/14DAP	0.944	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.60002	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.14313	0.417
Mature Green Tomato/Ripe Tomato	0.65565	0.107
Immature Eggplant/Mature Eggplant	0.76448	0.096
Ripe Pepper/Ripe Tomato	0.88169	1
Mature Eggplant/Ripe Tomato	0.95544	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00702	1
1-1-2/M82	1.36074	N/A
12-2/M82	N/A	N/A
12-4/M82	0.85316	1
1-3/M82	0.98993	N/A
2-1-1/M82	0.84532	N/A
2-1/M82	N/A	N/A
2-6/M82	0.72043	N/A
3-2/M82	0.88899	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.28959	0.853
4-3-2/M82	N/A	N/A
4-3/M82	0.85485	0.72
5-3/M82	1.1071	0.455
6-2/M82	N/A	N/A
6-3/M82	0.96313	N/A
7-1/M82	1.00386	1
7-2/M82	0.92762	N/A
9-3-2/M82	1.20282	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9743	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.95764	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.34671	N/A
IL1-4/WTpooled	0.99488	1
WT/WTpooled	2.63644	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	0.96773	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00087	1
DC3000/delta hrp 6h	0.96248	0.95
DC3000/delta hrp 12h	0.94676	1
DC3000/delta hrp 24h	1.04703	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.50883	N/A
DC3000 delta B/DC3000 delta AB	0.85643	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8217	0.328
Exp 36h	0.71407	0.406
Exp 60h	0.68561	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98003	1
Var 0h	0.97585	1
Var 12h I row2-row1	1.09792	0.654
Var 12h NI row2-row1	1.14836	0.34
Var 36h I row2-row1	1.00848	1
Var 36h NI row2-row1	1.8569	1
Var 60h I row2-row1	2.71289	1
Var 60h NI row2-row1	1.01202	1
Time course 0hI-0hNI	0.91515	0.349
Time course 12hI-12hNI	0.97596	0.761
Time course 36hI-36hNI	1.15205	0.044
Time course 60hI-60hNI	0.8244	0.009

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)	1.04029	0.571
transgenic ySAMdc/azygous control (breaker)	1.02151	1
transgenic ySAMdc/azygous control (red)	1.21403	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96193	0.14

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.82532	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.08594	0.083
Manapal/WT (break)	1.67176	0.14
Manapal/WT (red)	1.12384	1