Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.17.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15437	0.878
27DAP/17DAP	1.16464	0.845
39DAP/27DAP	1.25767	0.437
41DAP/39DAP	0.99074	0.873
42DAP/41DAP	0.96961	1
43DAP/42DAP	1.14789	0.923
47DAP/43DAP	0.87752	0.568
52DAP/47DAP	1.18679	0.842
57DAP/52DAP	1.09822	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23623	0.116
17DAP/reference	1.37658	0.117
27DAP/reference	1.11066	0.771
39DAP/reference	0.9725	0.691
41DAP/reference	1.169	0.265
42DAP/reference	1.14415	0.299
43DAP/reference	1.00966	1
47DAP/reference	1.16402	0.34
52DAP/reference	1.40838	0.012
57DAP/reference	1.07283	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03744	0.642
27DAP/17DAP	1.12222	0.61
39DAP/27DAP	0.80932	0.161
41DAP/39DAP	1.29652	0.238
42DAP/41DAP	1.03635	1
43DAP/42DAP	0.91945	0.256
47DAP/43DAP	1.09411	0.817
52DAP/47DAP	1.10921	0.73
57DAP/52DAP	1.55447	0.123
57DAP/7DAP	1.11781	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99695	0.682
17DAP/reference	0.73838	0.019
27DAP/reference	0.8477	0.101
39DAP/reference	0.66965	0.02
41DAP/reference	0.59789	0.033
42DAP/reference	0.65109	0.014
43DAP/reference	0.84512	0.034
47DAP/reference	1.11848	0.776
52DAP/reference	0.76614	0.077
57DAP/reference	0.77672	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89723	0.548
17DAP/reference	1.05963	0.904
27DAP/reference	1.00537	0.711
39DAP/reference	1.33527	0.022
41DAP/reference	0.94264	0.34
42DAP/reference	1.0933	0.899
43DAP/reference	0.88243	0.269
47DAP/reference	1.01872	1
52DAP/reference	1.244	0.368
57DAP/reference	1.2777	0.593

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94279	0.455
17DAP/reference	0.93678	0.407
27DAP/reference	0.95689	0.442
39DAP/reference	0.78892	0.046
41DAP/reference	0.95331	0.56
42DAP/reference	1.12339	0.716
43DAP/reference	0.96165	0.568
47DAP/reference	1.0076	1
52DAP/reference	0.90433	0.562
57DAP/reference	1.22486	0.291

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.78083	0.841
26DAP/20DAP	1.5965	0.206
34DAP/26DAP	0.84226	0.309
51DAP/34DAP	2.12218	0.051
52DAP/51DAP	0.72669	0.151
53DAP/52DAP	1.92006	0.022
55DAP/53DAP	0.76104	0.021
57DAP/55DAP	0.88534	0.545
62DAP/57DAP	0.85468	0.681
68DAP/62DAP	1.04227	0.919
68DAP/14DAP	0.95597	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91409	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.80526	0.2
Immature Eggplant/Mature Eggplant	1.98323
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.77991	0.268

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	0.89524	1
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.18922
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.9997	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.08418
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.10965	0.695
IL1-4/WTpooled	1.26263	1
WT/WTpooled	0.89509	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	0.94049	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04899	1
DC3000/delta hrp 6h	1.60336
DC3000/delta hrp 12h	0.8316	1
DC3000/delta hrp 24h	0.74022	0.069

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.2421	0.063
DC3000 delta B/DC3000 delta AB	1.36551	0.167

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	0.98504	1
Var 0h	2.10295	0.98
Var 12h I row2-row1	1.03736	0.795
Var 12h NI row2-row1	1.15226	0.281
Var 36h I row2-row1	1.07767	0.742
Var 36h NI row2-row1	0.88973	0.584
Var 60h I row2-row1	0.64958	0.374
Var 60h NI row2-row1	0.79454	0.306
Time course 0hI-0hNI	1.15451	0.603
Time course 12hI-12hNI	1.01591	0.892
Time course 36hI-36hNI	1.20231	0.016
Time course 60hI-60hNI	1.92854	0.008

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20382	0.277

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)	0.60808	0.333
Manapal/WT (red)	N/A	N/A