Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.1.18.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98959	0.743
27DAP/17DAP	1.16561	0.889
39DAP/27DAP	0.88769	0.62
41DAP/39DAP	1.22788	0.753
42DAP/41DAP	0.80954	0.774
43DAP/42DAP	1.32427	0.207
47DAP/43DAP	1.06387	0.943
52DAP/47DAP	0.95455	0.861
57DAP/52DAP	1.20787	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84882	0.038
17DAP/reference	0.98092	0.701
27DAP/reference	0.89722	0.07
39DAP/reference	0.92096	0.164
41DAP/reference	0.90464	0.031
42DAP/reference	0.84493	0.006
43DAP/reference	0.97886	0.708
47DAP/reference	0.96494	0.191
52DAP/reference	0.8813	0.049
57DAP/reference	0.95226	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.40084	0.438
27DAP/17DAP	0.9273	0.854
39DAP/27DAP	1.08217	0.824
41DAP/39DAP	1.17835	0.827
42DAP/41DAP	0.69067	0.016
43DAP/42DAP	0.99428	0.875
47DAP/43DAP	1.06749	0.92
52DAP/47DAP	1.07757	0.951
57DAP/52DAP	1.13437	0.777
57DAP/7DAP	0.89208	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95631	0.402
17DAP/reference	1.16192	0.477
27DAP/reference	1.36365	0.026
39DAP/reference	1.11723	0.157
41DAP/reference	0.95875	0.469
42DAP/reference	1.00773	0.713
43DAP/reference	1.30538	0.066
47DAP/reference	1.06279	0.915
52DAP/reference	1.24559	0.401
57DAP/reference	1.31016	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95944	0.58
17DAP/reference	0.75404	0.005
27DAP/reference	0.80221	0.074
39DAP/reference	0.73147	0.012
41DAP/reference	0.83969	0.047
42DAP/reference	0.79342	0.02
43DAP/reference	0.92315	0.336
47DAP/reference	0.81073	0.01
52DAP/reference	0.78992	0.007
57DAP/reference	0.83324	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01979	1
17DAP/reference	0.9288	0.444
27DAP/reference	1.34663	0.04
39DAP/reference	1.1805	0.094
41DAP/reference	1.05246	0.818
42DAP/reference	1.00981	1
43DAP/reference	1.009	0.738
47DAP/reference	0.83939	0.038
52DAP/reference	1.56624	0.377
57DAP/reference	0.80143	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14271	0.966
26DAP/20DAP	1.45831	0.541
34DAP/26DAP	1.68234	N/A
51DAP/34DAP	1.19531	0.854
52DAP/51DAP	0.94751	1
53DAP/52DAP	0.99005	0.938
55DAP/53DAP	1.07538	0.898
57DAP/55DAP	0.93877	0.748
62DAP/57DAP	1.03051	1
68DAP/62DAP	1.31299	0.074
68DAP/14DAP	1.19543	0.295

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90539	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.08938	0.05
Mature Green Tomato/Ripe Tomato	2.35153	0.023
Immature Eggplant/Mature Eggplant	4.9492	0.05
Ripe Pepper/Ripe Tomato	1.93479	0.221
Mature Eggplant/Ripe Tomato	2.1677	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.87641	N/A
12-2/M82	N/A	N/A
12-4/M82	0.80561	N/A
1-3/M82	N/A	N/A
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	0.84599	0.395
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.90648	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	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	0.78089	0.226

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14493	0.921
DC3000/delta hrp 6h	0.71573	0.81
DC3000/delta hrp 12h	0.98705	1
DC3000/delta hrp 24h	1.0404	1

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	1.2661	0.254
Exp 36h	2.28663	0.409
Exp 60h	1.46166	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	1.145	1
Var 0h	1.0023	1
Var 12h I row2-row1	4.4026	0.506
Var 12h NI row2-row1	1.43909	1
Var 36h I row2-row1	0.88653	N/A
Var 36h NI row2-row1	0.79904	0.312
Var 60h I row2-row1	1.02827	1
Var 60h NI row2-row1	0.69336	1
Time course 0hI-0hNI	1.03577	0.867
Time course 12hI-12hNI	1.09784	0.747
Time course 36hI-36hNI	1.05555	0.651
Time course 60hI-60hNI	1.23782	0.359

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)	1.04258	0.482
transgenic ySAMdc/azygous control (breaker)	1.16325	0.248
transgenic ySAMdc/azygous control (red)	0.95343	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06662	0.057

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.45753	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.12414	1
Manapal/WT (break)	0.73923	0.333
Manapal/WT (red)	0.69122	0.181