Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.14.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99487	0.788
27DAP/17DAP	1.16601	0.845
39DAP/27DAP	1.05729	0.798
41DAP/39DAP	1.23367	0.772
42DAP/41DAP	1.851	0.145
43DAP/42DAP	1.13679	0.933
47DAP/43DAP	1.03801	0.864
52DAP/47DAP	1.30986	0.596
57DAP/52DAP	0.96187	0.947

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95529	0.39
17DAP/reference	1.16048	0.122
27DAP/reference	0.97229	0.623
39DAP/reference	1.06626	0.514
41DAP/reference	1.08905	0.421
42DAP/reference	0.92326	0.103
43DAP/reference	1.08101	0.095
47DAP/reference	0.86183	0.027
52DAP/reference	0.74295	0.025
57DAP/reference	0.69468	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98429	0.679
27DAP/17DAP	0.84475	0.339
39DAP/27DAP	0.78162	0.204
41DAP/39DAP	2.64302	0.674
42DAP/41DAP	0.70138	0.06
43DAP/42DAP	1.20287	0.699
47DAP/43DAP	0.93738	0.823
52DAP/47DAP	1.97262	0.417
57DAP/52DAP	2.17455	0.303
57DAP/7DAP	1.06121	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00355	0.682
17DAP/reference	0.8094	0.044
27DAP/reference	0.85142	0.058
39DAP/reference	0.69422	0.015
41DAP/reference	0.7607	0.033
42DAP/reference	1.02462	0.612
43DAP/reference	0.8364	0.017
47DAP/reference	0.79421	0.05
52DAP/reference	0.74175	0.026
57DAP/reference	0.73709	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0934	0.65
17DAP/reference	1.19987	0.508
27DAP/reference	0.95795	0.292
39DAP/reference	0.82313	0.053
41DAP/reference	0.90245	0.127
42DAP/reference	0.84965	0.061
43DAP/reference	1.0252	0.831
47DAP/reference	0.92043	0.133
52DAP/reference	0.88818	0.22
57DAP/reference	1.02873	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14098	0.212
17DAP/reference	1.00976	0.825
27DAP/reference	0.73125	0.031
39DAP/reference	0.80649	0.037
41DAP/reference	0.81003	0.026
42DAP/reference	0.77003	0.041
43DAP/reference	0.6643	0.018
47DAP/reference	1.05367	0.994
52DAP/reference	0.78953	0.164
57DAP/reference	0.81161	0.08

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96105	1
26DAP/20DAP	0.88951	1
34DAP/26DAP	0.88293	0.795
51DAP/34DAP	0.96237	0.785
52DAP/51DAP	1.11508	0.651
53DAP/52DAP	1.07419	0.929
55DAP/53DAP	1.54183	0.504
57DAP/55DAP	1.48371
62DAP/57DAP	1.04613	1
68DAP/62DAP	0.90729	0.668
68DAP/14DAP	1.06244	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09081	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.97314	1
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	20.5435	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	0.81108
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.17002
6-2/M82	1.0685
6-3/M82	1.15206
7-1/M82	0.9974
7-2/M82	0.98783	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29142	0.365
IL2-6/WTpooled	0.87433	1
IL7-5/WTpooled	0.69939	1
IL7-3/WTpooled	0.97454	1
IL12-4/WTpooled	0.9978	1
IL1-4/WTpooled	0.90763	1
WT/WTpooled	1.13237	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	1.86592	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.84175	1
DC3000/delta hrp 6h	0.96278	0.95
DC3000/delta hrp 12h	1.08019	1
DC3000/delta hrp 24h	2.45075	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.62113	0.106

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26648	1
Exp 36h	1.3466	1
Exp 60h	1.83182	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03902	1
Var 0h	0.74332	0.421
Var 12h I row2-row1	1.4386	0.208
Var 12h NI row2-row1	0.90796	0.488
Var 36h I row2-row1	1.09289	1
Var 36h NI row2-row1	1.08699	1
Var 60h I row2-row1	1.2094	0.487
Var 60h NI row2-row1	1.27101	0.31
Time course 0hI-0hNI	0.99872	0.63
Time course 12hI-12hNI	1.95571	0.005
Time course 36hI-36hNI	3.37856	0.004
Time course 60hI-60hNI	3.2156	0.011

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)	7.68761	0.165
transgenic ySAMdc/azygous control (red)	1.68927	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98504	0.517

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11467	1

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)	0.69575	0.333
Manapal/WT (red)	0.97777	0.863