Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.8.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16522	0.838
27DAP/17DAP	0.77643	0.295
39DAP/27DAP	0.86626	0.573
41DAP/39DAP	0.9449	0.772
42DAP/41DAP	1.09167	1
43DAP/42DAP	0.9877	0.925
47DAP/43DAP	0.84757	0.526
52DAP/47DAP	1.07296	0.945
57DAP/52DAP	0.79918	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05616	0.71
17DAP/reference	1.03888	0.631
27DAP/reference	1.06707	0.509
39DAP/reference	1.04695	0.393
41DAP/reference	1.22093	0.122
42DAP/reference	1.08205	0.21
43DAP/reference	0.99839	0.82
47DAP/reference	0.97748	0.366
52DAP/reference	1.1355	0.354
57DAP/reference	0.85882	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23949	0.048
27DAP/17DAP	0.93546	0.475
39DAP/27DAP	0.79002	0.046
41DAP/39DAP	0.97798	0.986
42DAP/41DAP	1.01487	1
43DAP/42DAP	0.80475	0.04
47DAP/43DAP	0.99808	0.997
52DAP/47DAP	0.95002	0.739
57DAP/52DAP	1.01194	1
57DAP/7DAP	0.73452	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90926	0.27
17DAP/reference	0.9731	0.447
27DAP/reference	0.78604	0.159
39DAP/reference	0.9673	0.552
41DAP/reference	0.98697	0.646
42DAP/reference	0.91365	0.275
43DAP/reference	1.06552	0.788
47DAP/reference	1.00054	1
52DAP/reference	1.06731	0.781
57DAP/reference	1.11988	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02643	0.951
17DAP/reference	1.04601	0.824
27DAP/reference	1.2195	0.028
39DAP/reference	1.05148	1
41DAP/reference	1.19682	0.48
42DAP/reference	1.14197	0.455
43DAP/reference	0.92176	0.385
47DAP/reference	0.83409	0.032
52DAP/reference	1.07208	0.789
57DAP/reference	0.92834	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14241	0.793
17DAP/reference	1.11397	0.665
27DAP/reference	0.73533	0.113
39DAP/reference	1.2283	0.307
41DAP/reference	1.14893	0.134
42DAP/reference	1.20764	0.347
43DAP/reference	1.47076	0.011
47DAP/reference	0.98447	0.558
52DAP/reference	1.01884	0.69
57DAP/reference	1.27397	0.113

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07915	0.966
26DAP/20DAP	1.21311	0.275
34DAP/26DAP	1.03112	1
51DAP/34DAP	1.4345	0.072
52DAP/51DAP	0.90844	1
53DAP/52DAP	0.99828	0.96
55DAP/53DAP	0.70958	0.07
57DAP/55DAP	1.22728	0.71
62DAP/57DAP	1.10623	0.833
68DAP/62DAP	1.2833	0.162
68DAP/14DAP	1.38415	0.074

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.26978	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.11802
Mature Green Tomato/Ripe Tomato	3.53035	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.6239	0.258
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	N/A	N/A
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	1.12854
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.1152	0.508
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.95823
7-2/M82	N/A	N/A
9-3-2/M82	1.00672

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.87682
IL12-4/WTpooled	0.63726	0.71
IL1-4/WTpooled	1.15151	0.392
WT/WTpooled	1.00439	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	1.12477	1

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	1.30344	1
DC3000/delta hrp 12h	1.17499	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.54985	0.023
DC3000 delta B/DC3000 delta AB	0.60053	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21185	1
Exp 36h	0.87907	0.699
Exp 60h	1.0073	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99513	1
Var 0h	0.58936	0.933
Var 12h I row2-row1	0.76078	0.338
Var 12h NI row2-row1	0.93233	0.713
Var 36h I row2-row1	1.00949	1
Var 36h NI row2-row1	1.28171	0.482
Var 60h I row2-row1	1.32992	0.562
Var 60h NI row2-row1	1.1022	0.904
Time course 0hI-0hNI	1.01656	0.867
Time course 12hI-12hNI	0.92075	0.393
Time course 36hI-36hNI	0.82619	0.038
Time course 60hI-60hNI	0.15574	0.005

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)	0.96518	0.567
transgenic ySAMdc/azygous control (breaker)	1.45493	0.178
transgenic ySAMdc/azygous control (red)	1.3571	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94743	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26368	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.3936	0.096
Manapal/WT (break)	2.02023	0.126
Manapal/WT (red)	1.04129	1