Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.2.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	3.38319	0.281
27DAP/17DAP	1.46871	0.742
39DAP/27DAP	1.67786	0.082
41DAP/39DAP	0.71627	0.106
42DAP/41DAP	1.00203	1
43DAP/42DAP	1.34474	0.933
47DAP/43DAP	1.13404	0.825
52DAP/47DAP	1.10439	0.88
57DAP/52DAP	1.27576	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8713	0.3
17DAP/reference	1.76605	0.011
27DAP/reference	3.57537	0.007
39DAP/reference	2.81415	0.101
41DAP/reference	2.29454	0.054
42DAP/reference	2.73992	0.001
43DAP/reference	2.91734	0.008
47DAP/reference	3.99902	0.001
52DAP/reference	2.64834	0.048
57DAP/reference	1.24882	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36955	0.284
27DAP/17DAP	1.13356	0.706
39DAP/27DAP	1.10232	0.496
41DAP/39DAP	1.94123	0.763
42DAP/41DAP	1.13818	0.675
43DAP/42DAP	1.37024	0.066
47DAP/43DAP	1.03783	0.897
52DAP/47DAP	0.80965	0.265
57DAP/52DAP	0.80046	0.426
57DAP/7DAP	2.63239	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34084	0.231
17DAP/reference	1.04253	0.754
27DAP/reference	2.05016	0.006
39DAP/reference	1.02415	1
41DAP/reference	1.88301	0.015
42DAP/reference	2.58396	0.007
43DAP/reference	4.34305	0.006
47DAP/reference	4.05995	0.014
52DAP/reference	2.44996	0.011
57DAP/reference	0.99585	0.549

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88025	0.412
17DAP/reference	3.34022	0.007
27DAP/reference	2.09716	0.021
39DAP/reference	2.03092	0.011
41DAP/reference	3.60781	0.005
42DAP/reference	3.55732	0.007
43DAP/reference	1.74969	0.268
47DAP/reference	2.94214	0.008
52DAP/reference	2.86491	0.006
57DAP/reference	2.06722	0.034

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29237	0.081
17DAP/reference	0.9493	0.508
27DAP/reference	1.30295	0.021
39DAP/reference	2.72594	0.006
41DAP/reference	1.54784	0.009
42DAP/reference	2.92519	0.006
43DAP/reference	2.78408	0.006
47DAP/reference	4.11201	0.005
52DAP/reference	2.37795	0.035
57DAP/reference	2.09706	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.83457	1
26DAP/20DAP	1.23577	0.421
34DAP/26DAP	0.78335	0.141
51DAP/34DAP	1.01415	0.967
52DAP/51DAP	0.85076	1
53DAP/52DAP	1.46524	0.028
55DAP/53DAP	0.86118	0.325
57DAP/55DAP	1.19884	0.818
62DAP/57DAP	0.80637	0.681
68DAP/62DAP	1.18748	0.914
68DAP/14DAP	0.45256	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	12.2713	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.92555	0.058
Mature Green Tomato/Ripe Tomato	1.08843	0.752
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.61229	1
Mature Eggplant/Ripe Tomato	0.40281	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96876	0.961
1-1-2/M82	1.11136	1
12-2/M82	0.97576	0.955
12-4/M82	1.1456	1
1-3/M82	1.56742	0.248
2-1-1/M82	0.74679	0.465
2-1/M82	0.9685	1
2-6/M82	1.04159	0.425
3-2/M82	0.96865	1
4-1-1/M82	0.88167	1
4-1/M82	1.28127	1
4-3-2/M82	1.14274	1
4-3/M82	0.94885	1
5-3/M82	0.97953	0.642
6-2/M82	1.06993	0.253
6-3/M82	1.0211	1
7-1/M82	1.00426	1
7-2/M82	1.20453	1
9-3-2/M82	1.17928

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7598	0.321
IL2-6/WTpooled	0.84644	0.473
IL7-5/WTpooled	0.82581	1
IL7-3/WTpooled	0.8921	1
IL12-4/WTpooled	1.05701	1
IL1-4/WTpooled	0.93146
WT/WTpooled	1.10488	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	1.07577	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01071	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.01148	1
DC3000/delta hrp 24h	0.95993	0.887

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	0.85178

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.77029	1
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	1.06662	1
Var 0h	1.32617	0.594
Var 12h I row2-row1	0.92241	0.705
Var 12h NI row2-row1	1.15427	1
Var 36h I row2-row1	0.81258	0.125
Var 36h NI row2-row1	1.65657	1
Var 60h I row2-row1	0.9096	0.285
Var 60h NI row2-row1	1.31318	0.904
Time course 0hI-0hNI	1.0685	0.852
Time course 12hI-12hNI	0.95492	0.719
Time course 36hI-36hNI	0.73721	0.025
Time course 60hI-60hNI	0.90066	0.319

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)	1.01333	1
transgenic ySAMdc/azygous control (breaker)	0.56572	0.137
transgenic ySAMdc/azygous control (red)	0.8407	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90901	1
Manapal/WT (break)	0.94011	1
Manapal/WT (red)	1.0607	1