Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.14.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.68533	0.244
27DAP/17DAP	0.56322	0.095
39DAP/27DAP	0.79003	0.529
41DAP/39DAP	0.71203	0.204
42DAP/41DAP	0.72329	0.774
43DAP/42DAP	1.11475	0.991
47DAP/43DAP	0.62781	0.113
52DAP/47DAP	1.45674	0.804
57DAP/52DAP	0.98846	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97428	0.562
17DAP/reference	0.41477	0.004
27DAP/reference	0.37249	0.015
39DAP/reference	0.34221	0.018
41DAP/reference	0.64016	0.154
42DAP/reference	0.74506	0.046
43DAP/reference	N/A	N/A
47DAP/reference	0.76635	0.127
52DAP/reference	0.10074
57DAP/reference	1.18696	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9997
27DAP/17DAP	0.92332	0.887
39DAP/27DAP	1.71691
41DAP/39DAP	N/A	N/A
42DAP/41DAP	1.25709	0.836
43DAP/42DAP	1.19159
47DAP/43DAP	1.05599
52DAP/47DAP	3.99204	0.091
57DAP/52DAP	N/A	N/A
57DAP/7DAP	1.23517	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2204	0.129
17DAP/reference	0.84579	0.064
27DAP/reference	0.5026	0.01
39DAP/reference	0.43917	0.011
41DAP/reference	0.41809	0.01
42DAP/reference	0.34962	0.01
43DAP/reference	0.33239	0.009
47DAP/reference	0.4939	0.066
52DAP/reference	0.4408	0.011
57DAP/reference	0.38628	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78759	0.145
17DAP/reference	1.19446	0.518
27DAP/reference	0.65859	0.108
39DAP/reference	0.50444	0.054
41DAP/reference	1.00352	0.403
42DAP/reference	0.72291	0.108
43DAP/reference	0.32633	0.002
47DAP/reference	1.3931	0.512
52DAP/reference	0.40782	0.007
57DAP/reference	0.21672	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.9877	0.015
17DAP/reference	1.91032	0.14
27DAP/reference	1.19708	0.149
39DAP/reference	1.00156	0.693
41DAP/reference	0.64903	0.019
42DAP/reference	0.56417	0.019
43DAP/reference	0.50725	0.021
47DAP/reference	0.46278	0.007
52DAP/reference	0.54341	0.067
57DAP/reference	0.86892	0.366

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.61265
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.23923	1
51DAP/34DAP	0.95585	0.799
52DAP/51DAP	1.34123	0.758
53DAP/52DAP	2.37844	0.221
55DAP/53DAP	1.61683	0.876
57DAP/55DAP	N/A	N/A
62DAP/57DAP	1.27525	0.569
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.16894

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	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
2-1-1/M82	0.93273
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87752	1
IL2-6/WTpooled	1.16962	0.659
IL7-5/WTpooled	0.9654	1
IL7-3/WTpooled	1.20279	1
IL12-4/WTpooled	1.1456	0.737
IL1-4/WTpooled	1.01773	0.426
WT/WTpooled	0.99567	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.52841	1
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99057	1
Exp 36h	0.78031	0.589
Exp 60h	0.62747	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.27683	0.594
Var 12h I row2-row1	0.80986	0.514
Var 12h NI row2-row1	1.11003	1
Var 36h I row2-row1	0.76073	1
Var 36h NI row2-row1	1.02033	1
Var 60h I row2-row1	1.26024	0.562
Var 60h NI row2-row1	1.06962	1
Time course 0hI-0hNI	0.91038	0.516
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	0.93297	0.284
Time course 60hI-60hNI	0.06298	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.66983	0.393

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)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A