Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.6.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.65984	0.098
27DAP/17DAP	0.97769	0.966
39DAP/27DAP	1.19858	0.53
41DAP/39DAP	0.85267	0.416
42DAP/41DAP	1.01682	1
43DAP/42DAP	1.03138	1
47DAP/43DAP	0.93063	0.736
52DAP/47DAP	0.86005	0.605
57DAP/52DAP	1.00429	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8376	0.03
17DAP/reference	1.02277	0.306
27DAP/reference	1.05467	0.322
39DAP/reference	1.00485	1
41DAP/reference	0.94035	0.434
42DAP/reference	0.89817	0.027
43DAP/reference	0.98985	0.805
47DAP/reference	0.9527	0.148
52DAP/reference	1.03045	0.498
57DAP/reference	1.01291	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79033	0.194
27DAP/17DAP	1.09894	0.9
39DAP/27DAP	1.08193	0.677
41DAP/39DAP	1.54769	0.163
42DAP/41DAP	0.96269	0.695
43DAP/42DAP	0.78262	0.051
47DAP/43DAP	1.11984	0.54
52DAP/47DAP	0.92818	0.677
57DAP/52DAP	0.94404	0.545
57DAP/7DAP	1.15233	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20874	0.427
17DAP/reference	1.03955	0.754
27DAP/reference	1.12566	0.664
39DAP/reference	0.87442	0.095
41DAP/reference	1.2446	0.141
42DAP/reference	1.10087	0.686
43DAP/reference	0.97284	0.58
47DAP/reference	1.01878	0.98
52DAP/reference	0.70761
57DAP/reference	1.17057	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0745	0.224
17DAP/reference	1.02194	0.999
27DAP/reference	1.01968	0.948
39DAP/reference	0.99706	0.642
41DAP/reference	0.95543	0.331
42DAP/reference	0.90807	0.237
43DAP/reference	0.96768	0.569
47DAP/reference	0.93269	0.085
52DAP/reference	1.04776	0.223
57DAP/reference	1.08989	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66181	0.116
17DAP/reference	0.87186	0.146
27DAP/reference	1.1196	0.531
39DAP/reference	1.27042	0.175
41DAP/reference	0.97907	0.682
42DAP/reference	1.28534	0.184
43DAP/reference	1.27269	0.246
47DAP/reference	1.11596	0.171
52DAP/reference	1.32459	0.165
57DAP/reference	1.04083	0.673

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85365	0.773
26DAP/20DAP	0.83605	0.512
34DAP/26DAP	1.11827	1
51DAP/34DAP	1.03085
52DAP/51DAP	1.17597	0.689
53DAP/52DAP	0.97596	0.891
55DAP/53DAP	1.23928	0.193
57DAP/55DAP	0.98464	0.902
62DAP/57DAP	0.86483	0.681
68DAP/62DAP	1.3813	0.185
68DAP/14DAP	1.32505	0.02

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91861	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78616	0.236
Mature Green Tomato/Ripe Tomato	1.32437	0.106
Immature Eggplant/Mature Eggplant	0.84321	0.366
Ripe Pepper/Ripe Tomato	1.14994	1
Mature Eggplant/Ripe Tomato	0.76149

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.1329
12-2/M82	N/A	N/A
12-4/M82	1.02253
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	1.05561
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.41895
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	0.95136
7-2/M82	N/A	N/A
9-3-2/M82	1.1302	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03082	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.16176	0.75
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.99368	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	1.35954	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08918	0.921
DC3000/delta hrp 6h	1.02169	0.95
DC3000/delta hrp 12h	1.01077	1
DC3000/delta hrp 24h	2.15999	0.039

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	0.88071	0.511

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.15996	0.409
Exp 60h	1.2756	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.83367	0.98
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.84436	0.246
transgenic ySAMdc/azygous control (breaker)	0.72757	0.118
transgenic ySAMdc/azygous control (red)	0.96726	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01368	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70971	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76194	1
Manapal/WT (break)	1.15739	0.381
Manapal/WT (red)	1.07794	1