Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.13.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85128	0.31
27DAP/17DAP	1.02887	0.947
39DAP/27DAP	1.00868	0.782
41DAP/39DAP	0.82497	0.54
42DAP/41DAP	1.00121	1
43DAP/42DAP	1.0633	0.937
47DAP/43DAP	1.46892	0.391
52DAP/47DAP	0.7595	0.533
57DAP/52DAP	1.07794	0.985

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09745	0.735
17DAP/reference	1.21859	0.017
27DAP/reference	0.99509	0.822
39DAP/reference	1.23235	0.015
41DAP/reference	1.29694	0.058
42DAP/reference	0.90917	0.059
43DAP/reference	1.04337	0.705
47DAP/reference	0.92933	0.083
52DAP/reference	0.87867	0.189
57DAP/reference	0.83288	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15441	0.91
27DAP/17DAP	1.23733	0.872
39DAP/27DAP	1.31249	0.275
41DAP/39DAP	0.83432	0.662
42DAP/41DAP	0.98493	0.812
43DAP/42DAP	1.19355	0.212
47DAP/43DAP	0.75735	0.387
52DAP/47DAP	1.75699	0.649
57DAP/52DAP	1.14369	0.917
57DAP/7DAP	0.8591	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34259	0.115
17DAP/reference	1.09154	0.627
27DAP/reference	1.18527	0.041
39DAP/reference	1.18988	0.133
41DAP/reference	1.13973	0.171
42DAP/reference	1.24122	0.059
43DAP/reference	1.42076	0.034
47DAP/reference	1.13019	0.331
52DAP/reference	1.2181	0.015
57DAP/reference	1.11284	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12982	0.516
17DAP/reference	0.9937	0.711
27DAP/reference	0.8269	0.115
39DAP/reference	0.8536	0.152
41DAP/reference	0.87665	0.124
42DAP/reference	0.86504	0.037
43DAP/reference	1.09539	0.205
47DAP/reference	1.01923	0.916
52DAP/reference	1.01637	1
57DAP/reference	1.23857	0.324

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39797	0.053
17DAP/reference	0.99483	0.792
27DAP/reference	1.24488	0.02
39DAP/reference	1.23439	0.016
41DAP/reference	0.95499	0.512
42DAP/reference	1.15433	0.54
43DAP/reference	0.90191	0.334
47DAP/reference	0.92375	0.348
52DAP/reference	1.3571	0.398
57DAP/reference	0.72523	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05522	0.966
26DAP/20DAP	0.79643	0.512
34DAP/26DAP	2.52991	0.819
51DAP/34DAP	1.26455	0.581
52DAP/51DAP	0.73661	1
53DAP/52DAP	0.97385	0.862
55DAP/53DAP	0.93325	0.195
57DAP/55DAP	1.18022	0.448
62DAP/57DAP	1.01707	0.994
68DAP/62DAP	1.1041	0.914
68DAP/14DAP	0.50139	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91403	0.576

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	0.90968	1
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	0.91385	1
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	0.9333	0.321
IL2-6/WTpooled	1.08456	0.46
IL7-5/WTpooled	0.96477	1
IL7-3/WTpooled	0.85633	0.418
IL12-4/WTpooled	1.13921	0.557
IL1-4/WTpooled	1.06798	1
WT/WTpooled	1.00188	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	1.01359	1
DC3000/delta hrp 24h	1.8508

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	N/A	N/A
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	N/A	N/A
Var 0h	1.00413	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	2.07526
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	0.78583
Time course 36hI-36hNI	0.81429
Time course 60hI-60hNI	0.65441

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)	1.22245	0.455
transgenic ySAMdc/azygous control (breaker)	1.2688	1
transgenic ySAMdc/azygous control (red)	1.04038	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02035	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.21141	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.20085	0.14
Manapal/WT (break)	1.02543	1
Manapal/WT (red)	0.86258	0.229