Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.20.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88932	0.551
27DAP/17DAP	0.69912	0.173
39DAP/27DAP	1.14909	0.841
41DAP/39DAP	1.31938	0.701
42DAP/41DAP	0.96365	1
43DAP/42DAP	0.85359	0.71
47DAP/43DAP	0.99548	0.879
52DAP/47DAP	1.35011	0.671
57DAP/52DAP	1.05461	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33289	0.016
17DAP/reference	0.99199	0.957
27DAP/reference	1.00308	0.867
39DAP/reference	0.83815	0.247
41DAP/reference	0.85375	0.434
42DAP/reference	0.80848	0.018
43DAP/reference	1.08656
47DAP/reference	0.77798	0.003
52DAP/reference	1.16582	0.32
57DAP/reference	0.73227

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78159	0.228
27DAP/17DAP	1.06605	0.96
39DAP/27DAP	1.79526	0.262
41DAP/39DAP	1.24255	0.753
42DAP/41DAP	0.95957	0.67
43DAP/42DAP	0.64748	0.027
47DAP/43DAP	1.18589	0.406
52DAP/47DAP	1.07817	0.823
57DAP/52DAP	1.55147	0.056
57DAP/7DAP	1.01645

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.5079	0.066
17DAP/reference	1.06803	0.896
27DAP/reference	0.99721	0.748
39DAP/reference	0.5503	0.043
41DAP/reference	0.49126	0.027
42DAP/reference	0.52922	0.01
43DAP/reference	0.79775	0.059
47DAP/reference	0.78315	0.222
52DAP/reference	0.76857	0.057
57DAP/reference	0.73945	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86446	0.214
17DAP/reference	0.78301	0.019
27DAP/reference	0.83925	0.081
39DAP/reference	0.80518	0.056
41DAP/reference	0.70744	0.01
42DAP/reference	0.90429	0.108
43DAP/reference	0.72318	0.017
47DAP/reference	0.8384	0.015
52DAP/reference	0.81923	0.029
57DAP/reference	0.9334	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09666	0.588
17DAP/reference	0.89406	0.162
27DAP/reference	0.83846	0.165
39DAP/reference	0.89116	0.058
41DAP/reference	0.81022	0.132
42DAP/reference	0.96986	0.671
43DAP/reference	0.8958	0.197
47DAP/reference	0.75524	0.093
52DAP/reference	1.09891	0.946
57DAP/reference	0.97832	0.564

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11636	0.966
26DAP/20DAP	1.2456	0.379
34DAP/26DAP	1.25374	0.819
51DAP/34DAP	1.77525	0.224
52DAP/51DAP	0.86221	1
53DAP/52DAP	0.65891	0.06
55DAP/53DAP	0.78384	0.176
57DAP/55DAP	1.16834	0.818
62DAP/57DAP	0.99628	1
68DAP/62DAP	1.08139	0.885
68DAP/14DAP	0.979	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73311	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.56715	0.058
Mature Green Tomato/Ripe Tomato	0.92592	0.569
Immature Eggplant/Mature Eggplant	0.81596	0.134
Ripe Pepper/Ripe Tomato	0.66835	0.293
Mature Eggplant/Ripe Tomato	1.51701	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.72775
12-2/M82	1.53725
12-4/M82	1.01939	1
1-3/M82	1.48733
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	0.84061	1
4-3-2/M82	0.86836
4-3/M82	N/A	N/A
5-3/M82	0.90768
6-2/M82	N/A	N/A
6-3/M82	1.46819
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.03946	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.60261	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.17121	0.75
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.41066	0.426
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	0.56612

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15704	0.921
DC3000/delta hrp 6h	0.97892	0.95
DC3000/delta hrp 12h	1.34182	1
DC3000/delta hrp 24h	1.71735

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.78454
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	0.85999	1
Exp 36h	1.20234	1
Exp 60h	1.1657	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94674	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.30074	0.506
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.95013	1
Var 36h NI row2-row1	1.22738	1
Var 60h I row2-row1	0.52469	0.285
Var 60h NI row2-row1	0.96541	1
Time course 0hI-0hNI	1.10537	0.719
Time course 12hI-12hNI	1.85504	0.01
Time course 36hI-36hNI	2.72871	0.005
Time course 60hI-60hNI	14.4139	0.008

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)	1.169	0.297
transgenic ySAMdc/azygous control (breaker)	2.46071	0.165
transgenic ySAMdc/azygous control (red)	1.12843	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.61046	0.036

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86785	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.61714	0.172
Manapal/WT (break)	1.18379	0.381
Manapal/WT (red)	0.8315	0.315