Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.18.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41173	0.188
27DAP/17DAP	0.79622	0.513
39DAP/27DAP	0.96111	0.67
41DAP/39DAP	0.87201	0.496
42DAP/41DAP	1.08949	0.938
43DAP/42DAP	1.05429	1
47DAP/43DAP	0.68401	0.141
52DAP/47DAP	1.25052	0.784
57DAP/52DAP	1.52986	0.77

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24468	0.009
17DAP/reference	1.28504	0.138
27DAP/reference	0.98601	0.694
39DAP/reference	0.84458	0.128
41DAP/reference	0.82424	0.039
42DAP/reference	0.86314	0.015
43DAP/reference	0.91642	0.143
47DAP/reference	0.94748	0.191
52DAP/reference	0.91139	0.125
57DAP/reference	1.01733	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.58392	0.042
27DAP/17DAP	1.66649	0.032
39DAP/27DAP	0.39886	0.028
41DAP/39DAP	1.16847	0.514
42DAP/41DAP	0.91099	0.486
43DAP/42DAP	0.71309	0.105
47DAP/43DAP	1.0229	0.973
52DAP/47DAP	1.00454	0.962
57DAP/52DAP	1.36431	0.202
57DAP/7DAP	0.72759	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49122	0.048
17DAP/reference	1.34584	0.026
27DAP/reference	1.10842	0.301
39DAP/reference	1.32787	0.056
41DAP/reference	1.38749	0.03
42DAP/reference	1.34964	0.1
43DAP/reference	1.44012	0.014
47DAP/reference	1.04856	1
52DAP/reference	1.20781	0.041
57DAP/reference	1.40868	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13884	0.131
17DAP/reference	1.50116	0.007
27DAP/reference	1.08428	0.769
39DAP/reference	0.9116	0.214
41DAP/reference	0.93079	0.331
42DAP/reference	0.80431	0.081
43DAP/reference	0.71448	0.054
47DAP/reference	0.81085	0.024
52DAP/reference	0.82614	0.06
57DAP/reference	0.71549	0.016

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1948	0.036
17DAP/reference	1.27809	0.093
27DAP/reference	1.4718	0.02
39DAP/reference	1.23151	0.1
41DAP/reference	1.17664	0.205
42DAP/reference	1.02284	0.943
43DAP/reference	1.03051	1
47DAP/reference	0.79261	0.005
52DAP/reference	1.01594	0.928
57DAP/reference	0.89846	0.225

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9208	0.672
26DAP/20DAP	1.93644	0.098
34DAP/26DAP	0.72399	0.083
51DAP/34DAP	0.84116	0.311
52DAP/51DAP	1.16751	0.176
53DAP/52DAP	0.65095	0.301
55DAP/53DAP	1.3926	0.894
57DAP/55DAP	0.92711	0.839
62DAP/57DAP	1.24437	0.569
68DAP/62DAP	0.90152	0.747
68DAP/14DAP	1.08422	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.49516	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.84174	0.058
Mature Green Tomato/Ripe Tomato	1.06843	0.835
Immature Eggplant/Mature Eggplant	2.70198	0.05
Ripe Pepper/Ripe Tomato	2.68109	1
Mature Eggplant/Ripe Tomato	4.22899	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.22281	0.977
12-2/M82	0.94358
12-4/M82	0.9495	1
1-3/M82	N/A	N/A
2-1-1/M82	0.783	0.683
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.1349
4-1-1/M82	1.04534
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.21877	1
5-3/M82	1.04851	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.90543
7-2/M82	1.03543
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	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	1.2017	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00084	1
DC3000/delta hrp 6h	1.00889	0.95
DC3000/delta hrp 12h	1.05081	1
DC3000/delta hrp 24h	0.95462	0.7

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.56513
DC3000 delta B/DC3000 delta AB	0.71303	0.245

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.68836	0.265
Exp 36h	0.65006	0.406
Exp 60h	0.57795	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98491	1
Var 0h	0.88988	0.933
Var 12h I row2-row1	1.23245	0.692
Var 12h NI row2-row1	0.82582	0.82
Var 36h I row2-row1	0.78878	1
Var 36h NI row2-row1	0.87267	1
Var 60h I row2-row1	1.04297
Var 60h NI row2-row1	1.03619	0.904
Time course 0hI-0hNI	0.82207	0.168
Time course 12hI-12hNI	1.06899	0.678
Time course 36hI-36hNI	0.80177	0.023
Time course 60hI-60hNI	0.49518	0.006

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)	1.19838	0.289
transgenic ySAMdc/azygous control (breaker)	0.6168	0.173
transgenic ySAMdc/azygous control (red)	0.7117	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00052	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84003	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80165	1
Manapal/WT (break)	1.51514	0.381
Manapal/WT (red)	1.19242	0.222