Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12696	0.725
27DAP/17DAP	1.11527	1
39DAP/27DAP	1.21123	0.575
41DAP/39DAP	0.98412	0.849
42DAP/41DAP	0.83769	1
43DAP/42DAP	1.05019	1
47DAP/43DAP	1.11605	0.756
52DAP/47DAP	0.95294	0.812
57DAP/52DAP	0.99384	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18109	0.057
17DAP/reference	1.0762	0.022
27DAP/reference	0.9675	0.683
39DAP/reference	1.19516	0.01
41DAP/reference	1.16157	0.029
42DAP/reference	1.12354	0.706
43DAP/reference	1.06803	0.882
47DAP/reference	1.1674	0.101
52DAP/reference	1.11832	0.158
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84421	0.083
27DAP/17DAP	1.13531	0.523
39DAP/27DAP	0.78922	0.047
41DAP/39DAP	0.98072	0.98
42DAP/41DAP	0.98149	0.784
43DAP/42DAP	1.00019	1
47DAP/43DAP	1.01474	0.989
52DAP/47DAP	0.90066	0.546
57DAP/52DAP	0.93588	0.598
57DAP/7DAP	0.71672	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35066	0.066
17DAP/reference	1.20315	0.01
27DAP/reference	1.64274	0.008
39DAP/reference	2.6878	0.005
41DAP/reference	1.41906	0.015
42DAP/reference	2.65686	0.008
43DAP/reference	2.63895	0.006
47DAP/reference	1.95603	0.165
52DAP/reference	2.32002	0.007
57DAP/reference	1.84517	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13752	0.091
17DAP/reference	1.29972	0.034
27DAP/reference	1.26236	0.028
39DAP/reference	1.33166	0.014
41DAP/reference	1.21557	0.118
42DAP/reference	1.15543	0.22
43DAP/reference	1.27599	0.173
47DAP/reference	1.07807	0.143
52DAP/reference	1.31657	0.013
57DAP/reference	1.30682	0.046

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08239	0.386
17DAP/reference	1.20055	0.209
27DAP/reference	1.97802	0.02
39DAP/reference	2.25209	0.01
41DAP/reference	1.60997	0.016
42DAP/reference	1.74216	0.016
43DAP/reference	1.69902	0.019
47DAP/reference	1.11332	0.171
52DAP/reference	1.11322	0.549
57DAP/reference	1.08482	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02025	1
26DAP/20DAP	1.35257	0.288
34DAP/26DAP	0.92866	0.834
51DAP/34DAP	0.85722	0.449
52DAP/51DAP	1.32271	0.038
53DAP/52DAP	0.8945	0.226
55DAP/53DAP	1.19249	0.368
57DAP/55DAP	1.08154	0.87
62DAP/57DAP	0.99746	1
68DAP/62DAP	0.90671	0.641
68DAP/14DAP	0.88134	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.29617	0.064

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.50679	0.176
Mature Green Tomato/Ripe Tomato	1.27764	0.053
Immature Eggplant/Mature Eggplant	0.86586	0.292
Ripe Pepper/Ripe Tomato	0.64328	0.293
Mature Eggplant/Ripe Tomato	0.527	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91874	0.944
1-1-2/M82	0.99002	1
12-2/M82	0.92944	0.955
12-4/M82	1.11809	1
1-3/M82	1.40208	1
2-1-1/M82	0.8696	0.683
2-1/M82	0.93021	1
2-6/M82	1.00911	1
3-2/M82	0.97275
4-1-1/M82	1.00633	1
4-1/M82	1.0534
4-3-2/M82	1.13065	1
4-3/M82	0.96162	1
5-3/M82	0.96644	1
6-2/M82	0.94223	1
6-3/M82	1.0533	1
7-1/M82	1.02648	1
7-2/M82	0.94586	0.881
9-3-2/M82	1.19212	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92004	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.96516	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.00067	1
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	1.08695	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07039	0.921
DC3000/delta hrp 6h	0.80776	0.95
DC3000/delta hrp 12h	1.09181	1
DC3000/delta hrp 24h	0.95937	0.654

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30365	0.068
DC3000 delta B/DC3000 delta AB	1.30883	0.135

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88713	1
Exp 36h	0.83355	0.504
Exp 60h	0.83448	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9892	1
Var 0h	1.00431	1
Var 12h I row2-row1	0.90381	0.338
Var 12h NI row2-row1	1.06634	0.649
Var 36h I row2-row1	1.10307	1
Var 36h NI row2-row1	0.95171	0.584
Var 60h I row2-row1	0.83547	0.439
Var 60h NI row2-row1	0.90251	0.866
Time course 0hI-0hNI	1.10784	0.719
Time course 12hI-12hNI	1.00398	1
Time course 36hI-36hNI	1.25943	0.056
Time course 60hI-60hNI	1.28038	0.042

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)	0.89179	0.297
transgenic ySAMdc/azygous control (breaker)	0.9351	0.49
transgenic ySAMdc/azygous control (red)	0.9945	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92373	0.039

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28225	0.237

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)	1.85903	0.15