Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.20.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94505	0.627
27DAP/17DAP	1.25024	0.883
39DAP/27DAP	0.82806	0.425
41DAP/39DAP	1.06814	0.844
42DAP/41DAP	1.39631	0.994
43DAP/42DAP	0.92568	0.898
47DAP/43DAP	1.58229	0.469
52DAP/47DAP	1.09428	0.994
57DAP/52DAP	1.0891	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95953	0.442
17DAP/reference	0.82321	0.016
27DAP/reference	0.93109	0.406
39DAP/reference	0.83108	0.267
41DAP/reference	0.85411	0.085
42DAP/reference	0.79399	0.002
43DAP/reference	0.84966	0.017
47DAP/reference	0.88023	0.032
52DAP/reference	0.93436	0.111
57DAP/reference	1.11914	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18131	0.642
27DAP/17DAP	1.0119	1
39DAP/27DAP	1.285	0.465
41DAP/39DAP	1.31821	0.362
42DAP/41DAP	0.78491	0.034
43DAP/42DAP	1.01991	0.585
47DAP/43DAP	1.06586	0.93
52DAP/47DAP	0.93809	0.79
57DAP/52DAP	1.34581	0.089
57DAP/7DAP	1.25249	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01487	0.894
17DAP/reference	1.23007	0.112
27DAP/reference	1.18446	0.049
39DAP/reference	1.25438	0.02
41DAP/reference	1.28358	0.018
42DAP/reference	1.10209	0.308
43DAP/reference	1.42665	0.011
47DAP/reference	1.19079	0.224
52DAP/reference	1.30071	0.029
57DAP/reference	1.26364	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7814	0.012
17DAP/reference	0.78232	0.021
27DAP/reference	0.75375	0.043
39DAP/reference	0.81799	0.016
41DAP/reference	0.92602	0.038
42DAP/reference	0.85683	0.089
43DAP/reference	0.88112	0.257
47DAP/reference	0.89233	0.154
52DAP/reference	0.96283	0.351
57DAP/reference	0.80326	0.006

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03022	0.846
17DAP/reference	1.00655	0.855
27DAP/reference	1.46656	0.02
39DAP/reference	1.31655	0.023
41DAP/reference	1.34192	0.016
42DAP/reference	1.05013	0.635
43DAP/reference	1.00107	0.796
47DAP/reference	0.9109	0.161
52DAP/reference	1.39015	0.369
57DAP/reference	1.09346	0.522

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97677	1
26DAP/20DAP	1.12044	1
34DAP/26DAP	1.00869	1
51DAP/34DAP	1.19531	0.706
52DAP/51DAP	1.48337	0.096
53DAP/52DAP	0.85739	0.393
55DAP/53DAP	1.02269	0.951
57DAP/55DAP	0.97703	0.831
62DAP/57DAP	1.21963	0.35
68DAP/62DAP	1.70239	0.036
68DAP/14DAP	1.59595	0.029

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.69631	0.052

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.74659	0.028
Immature Eggplant/Mature Eggplant	2.07139	0.174
Ripe Pepper/Ripe Tomato	3.97313
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.16946	1
1-1-2/M82	0.87195	1
12-2/M82	N/A	N/A
12-4/M82	1.31196
1-3/M82	0.71409
2-1-1/M82	0.83753
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.8811
4-1-1/M82	1.28777
4-1/M82	1.99365
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.96012	1
6-2/M82	0.75225
6-3/M82	1.03627
7-1/M82	N/A	N/A
7-2/M82	1.04278	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91176	1
IL2-6/WTpooled	1.05368	1
IL7-5/WTpooled	0.94105	1
IL7-3/WTpooled	1.05598	1
IL12-4/WTpooled	0.98598	1
IL1-4/WTpooled	1.00747	1
WT/WTpooled	1.03674	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	0.90521	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01292	1
DC3000/delta hrp 6h	0.81232
DC3000/delta hrp 12h	1.09794	1
DC3000/delta hrp 24h	0.92251	0.412

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	2.69722

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.69403	0.693
Exp 60h	1.61163	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99505	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.92817	0.77
Var 12h NI row2-row1	1.05805	1
Var 36h I row2-row1	1.0238	1
Var 36h NI row2-row1	1.04748	1
Var 60h I row2-row1	0.90261	0.292
Var 60h NI row2-row1	1.1588	0.904
Time course 0hI-0hNI	1.11967	0.537
Time course 12hI-12hNI	1.08007	0.354
Time course 36hI-36hNI	1.68379	0.005
Time course 60hI-60hNI	1.80197	0.019

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)	0.95967	0.662
transgenic ySAMdc/azygous control (breaker)	0.80187	0.173
transgenic ySAMdc/azygous control (red)	1.02006	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99133	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02983	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06148	0.307
Manapal/WT (break)	0.99721	1
Manapal/WT (red)	0.97377	0.728