Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.20.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27705	0.365
27DAP/17DAP	1.19709	0.828
39DAP/27DAP	0.8948	0.573
41DAP/39DAP	1.4696	0.197
42DAP/41DAP	0.92609	1
43DAP/42DAP	1.07136	1
47DAP/43DAP	1.0522	0.979
52DAP/47DAP	0.98554	0.9
57DAP/52DAP	1.1037	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89811	0.224
17DAP/reference	1.19426	0.122
27DAP/reference	1.09599	0.033
39DAP/reference	1.05259	0.654
41DAP/reference	1.13786	0.079
42DAP/reference	0.97569	0.326
43DAP/reference	0.90026	0.073
47DAP/reference	0.95989	0.224
52DAP/reference	0.8616	0.079
57DAP/reference	0.95887	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.58166	0.151
27DAP/17DAP	1.11981	0.909
39DAP/27DAP	1.12844	0.77
41DAP/39DAP	1.35594	0.427
42DAP/41DAP	0.79957	0.201
43DAP/42DAP	0.93453	0.729
47DAP/43DAP	1.18598	0.5
52DAP/47DAP	0.86695	0.694
57DAP/52DAP	1.30431	0.293
57DAP/7DAP	1.67984	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23267	0.625
17DAP/reference	2.33545	0.009
27DAP/reference	2.05034	0.007
39DAP/reference	2.17847	0.006
41DAP/reference	2.32332	0.009
42DAP/reference	2.25186	0.006
43DAP/reference	3.20148	0.006
47DAP/reference	1.88401	0.173
52DAP/reference	2.38113	0.007
57DAP/reference	2.19047	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89261	0.342
17DAP/reference	1.30453	0.056
27DAP/reference	0.93432	0.292
39DAP/reference	0.87592	0.129
41DAP/reference	0.83938	0.063
42DAP/reference	0.87116	0.089
43DAP/reference	1.17392	0.809
47DAP/reference	0.98526	0.559
52DAP/reference	1.12712	0.168
57DAP/reference	1.05053	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.51373	0.028
17DAP/reference	1.13996	0.876
27DAP/reference	2.29257	0.021
39DAP/reference	2.4272	0.006
41DAP/reference	1.67859	0.02
42DAP/reference	1.76241	0.054
43DAP/reference	1.80949	0.047
47DAP/reference	1.13411	0.057
52DAP/reference	2.46206	0.052
57DAP/reference	1.4647	0.648

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21046	0.966
26DAP/20DAP	1.06388	1
34DAP/26DAP	1.11997	0.819
51DAP/34DAP	0.87854	0.472
52DAP/51DAP	0.97219	1
53DAP/52DAP	0.90513	0.741
55DAP/53DAP	1.17991	0.584
57DAP/55DAP	1.29494	0.51
62DAP/57DAP	1.37923	0.445
68DAP/62DAP	0.98905	0.885
68DAP/14DAP	0.9143	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.54057	0.054

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.91865	0.522
Immature Eggplant/Mature Eggplant	2.26639
Ripe Pepper/Ripe Tomato	0.47762	0.224
Mature Eggplant/Ripe Tomato	0.17999	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.049	1
1-1-2/M82	1.03189	1
12-2/M82	1.22734	1
12-4/M82	0.72294	0.33
1-3/M82	1.15024	0.277
2-1-1/M82	1.18186	1
2-1/M82	0.84518	0.322
2-6/M82	1.0478	1
3-2/M82	0.84945	0.752
4-1-1/M82	1.06415	1
4-1/M82	0.91492	1
4-3-2/M82	0.87768	1
4-3/M82	1.16565	1
5-3/M82	0.83576	0.642
6-2/M82	0.55956	0.481
6-3/M82	0.97278	1
7-1/M82	N/A	N/A
7-2/M82	1.00574	1
9-3-2/M82	0.87013	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.32429	0.277
IL2-6/WTpooled	1.17825	0.659
IL7-5/WTpooled	1.09117	1
IL7-3/WTpooled	1.16252	1
IL12-4/WTpooled	1.19751	0.516
IL1-4/WTpooled	1.00073	1
WT/WTpooled	0.97545	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	1.10632	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02078	1
DC3000/delta hrp 6h	0.7691
DC3000/delta hrp 12h	1.15879	1
DC3000/delta hrp 24h	0.99471	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	1.10839	1
Exp 36h	0.98623	0.943
Exp 60h	0.86225	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01997	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.19597	0.654
Var 12h NI row2-row1	1.0918	1
Var 36h I row2-row1	1.09612	0.291
Var 36h NI row2-row1	0.78461	0.645
Var 60h I row2-row1	1.17387	0.562
Var 60h NI row2-row1	1.15626	1
Time course 0hI-0hNI	1.21576	0.486
Time course 12hI-12hNI	0.92943	0.646
Time course 36hI-36hNI	1.12294	0.401
Time course 60hI-60hNI	5.18977	0.254

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)	1.02776	0.921
transgenic ySAMdc/azygous control (breaker)	1.02543	1
transgenic ySAMdc/azygous control (red)	0.92122	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00367	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10903	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.66194	1
Manapal/WT (break)	0.80233	1
Manapal/WT (red)	0.87318	0.503