Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.10.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04814	1
27DAP/17DAP	1.049	1
39DAP/27DAP	1.00436	0.857
41DAP/39DAP	1.12141	0.498
42DAP/41DAP	0.96394	1
43DAP/42DAP	0.89147	0.854
47DAP/43DAP	1.48474	0.442
52DAP/47DAP	0.96131	0.9
57DAP/52DAP	0.98625	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11673	0.303
17DAP/reference	1.2158	0.029
27DAP/reference	1.07769	0.446
39DAP/reference	1.11468	0.286
41DAP/reference	1.19415	0.122
42DAP/reference	0.93767	0.134
43DAP/reference	1.14383	0.078
47DAP/reference	0.94715	0.279
52DAP/reference	0.78619	0.115
57DAP/reference	0.74896	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16223	0.389
27DAP/17DAP	1.09279	0.923
39DAP/27DAP	1.19918	0.373
41DAP/39DAP	0.9352	0.793
42DAP/41DAP	0.96482	0.734
43DAP/42DAP	0.90832	0.28
47DAP/43DAP	0.96026	0.843
52DAP/47DAP	1.15518	0.689
57DAP/52DAP	1.12128	0.745
57DAP/7DAP	1.45061	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95519	0.402
17DAP/reference	1.18055	0.077
27DAP/reference	1.08718	0.197
39DAP/reference	1.16174	0.017
41DAP/reference	1.12758	0.141
42DAP/reference	1.19317	0.132
43DAP/reference	1.29986	0.027
47DAP/reference	0.91152	0.293
52DAP/reference	1.04049	0.599
57DAP/reference	1.04155	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2466	0.162
17DAP/reference	1.06251	0.496
27DAP/reference	0.99532	0.642
39DAP/reference	0.87536	0.265
41DAP/reference	0.76244	0.096
42DAP/reference	0.94995	0.392
43DAP/reference	1.2956	0.279
47DAP/reference	1.14304	0.256
52DAP/reference	1.12175	0.223
57DAP/reference	1.29264	0.64

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17815	0.366
17DAP/reference	1.2378	0.082
27DAP/reference	1.27882	0.035
39DAP/reference	1.23673	0.087
41DAP/reference	1.14634	0.072
42DAP/reference	0.94632	0.552
43DAP/reference	0.81671	0.226
47DAP/reference	1.10214	0.324
52DAP/reference	1.12869	0.483
57DAP/reference	0.62931	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14028	0.545
26DAP/20DAP	0.96261	1
34DAP/26DAP	1.31834	1
51DAP/34DAP	0.98025	0.835
52DAP/51DAP	1.42565	0.123
53DAP/52DAP	0.74521	0.14
55DAP/53DAP	1.37831	0.139
57DAP/55DAP	0.82946	0.452
62DAP/57DAP	1.20918	0.257
68DAP/62DAP	0.80638	0.314
68DAP/14DAP	0.35902	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94267	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.0676
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	7.27079

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87492	0.883
1-1-2/M82	0.93553	1
12-2/M82	1.17935	1
12-4/M82	1.27661	1
1-3/M82	0.83894	0.441
2-1-1/M82	1.08492
2-1/M82	N/A	N/A
2-6/M82	1.05146	0.594
3-2/M82	0.91295	1
4-1-1/M82	1.05309	1
4-1/M82	1.32856
4-3-2/M82	0.83592	1
4-3/M82	0.96744	1
5-3/M82	0.96425	1
6-2/M82	0.72602	0.481
6-3/M82	1.00526	1
7-1/M82	1.0643	1
7-2/M82	0.95483	1
9-3-2/M82	0.74615	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19031	0.277
IL2-6/WTpooled	1.2906	0.46
IL7-5/WTpooled	0.82126	1
IL7-3/WTpooled	0.86357	0.31
IL12-4/WTpooled	1.09726	0.891
IL1-4/WTpooled	1.15215	1
WT/WTpooled	1.06572	0.874

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	1.45604	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94575	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.20515	1
DC3000/delta hrp 24h	1.16384	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00584	1
DC3000 delta B/DC3000 delta AB	1.15649	0.457

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	0.94001	1
Var 0h	0.97537	1
Var 12h I row2-row1	0.96352	0.627
Var 12h NI row2-row1	0.84522	0.427
Var 36h I row2-row1	0.8073	0.805
Var 36h NI row2-row1	0.55357	0.706
Var 60h I row2-row1	1.07384	0.502
Var 60h NI row2-row1	0.95451	0.818
Time course 0hI-0hNI	0.95942	0.702
Time course 12hI-12hNI	0.98112	0.886
Time course 36hI-36hNI	1.03104	0.799
Time course 60hI-60hNI	0.81919	0.015

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)	1.33767	0.511
transgenic ySAMdc/azygous control (breaker)	0.96734	1
transgenic ySAMdc/azygous control (red)	1.0833	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02777	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09026	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95704	1
Manapal/WT (break)	0.79024	1
Manapal/WT (red)	0.92859	0.607