Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.5.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13062	0.798
27DAP/17DAP	1.29256	0.864
39DAP/27DAP	0.81124	0.512
41DAP/39DAP	1.05256	0.964
42DAP/41DAP	1.27165	0.931
43DAP/42DAP	1.0818	1
47DAP/43DAP	0.89094	0.628
52DAP/47DAP	0.93037	0.752
57DAP/52DAP	1.09919	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02467	0.928
17DAP/reference	1.06964	0.355
27DAP/reference	0.93875	0.182
39DAP/reference	1.00486	0.975
41DAP/reference	1.25047	0.021
42DAP/reference	1.0191	1
43DAP/reference	1.01383	1
47DAP/reference	0.90477	0.071
52DAP/reference	1.02385	0.912
57DAP/reference	0.9621	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21739	0.284
27DAP/17DAP	1.05532	0.96
39DAP/27DAP	0.81442	0.201
41DAP/39DAP	1.38764	0.152
42DAP/41DAP	0.84623	0.224
43DAP/42DAP	0.8479	0.089
47DAP/43DAP	1.05749	0.948
52DAP/47DAP	0.97718	0.907
57DAP/52DAP	1.07925	1
57DAP/7DAP	1.13345

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14792	0.461
17DAP/reference	1.01382	0.896
27DAP/reference	1.05655	0.664
39DAP/reference	0.91921	0.23
41DAP/reference	0.92376	0.298
42DAP/reference	1.02343	1
43DAP/reference	0.93176	0.175
47DAP/reference	1.18115	0.214
52DAP/reference	0.9495	0.213
57DAP/reference	0.85532	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20519	0.217
17DAP/reference	1.0673	0.571
27DAP/reference	1.12001	0.629
39DAP/reference	0.9724	0.416
41DAP/reference	0.9114	0.118
42DAP/reference	0.9234	0.15
43DAP/reference	1.11476	0.704
47DAP/reference	1.03733	0.513
52DAP/reference	1.03935	1
57DAP/reference	1.25159	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26129	0.04
17DAP/reference	1.04788	0.898
27DAP/reference	1.03486	0.721
39DAP/reference	0.99098	0.755
41DAP/reference	0.90922	0.264
42DAP/reference	0.88585	0.134
43DAP/reference	1.02502	0.858
47DAP/reference	1.14524	0.207
52DAP/reference	0.84735	0.385
57DAP/reference	0.93147	0.339

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12476	0.966
26DAP/20DAP	1.24333	1
34DAP/26DAP	0.6894
51DAP/34DAP	1.2673	0.829
52DAP/51DAP	0.91366	1
53DAP/52DAP	2.92182	0.819
55DAP/53DAP	1.31653	0.826
57DAP/55DAP	0.85348	0.644
62DAP/57DAP	1.01687
68DAP/62DAP	1.05566	1
68DAP/14DAP	1.16984	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.604	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.96099	0.774
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.99965	1
Mature Eggplant/Ripe Tomato	1.69836	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95472
1-1-2/M82	1.15612
12-2/M82	N/A	N/A
12-4/M82	1.13692
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	1.23631	0.268
5-3/M82	0.99294	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.85585
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14244	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.07725	0.792
IL7-3/WTpooled	0.80174	1
IL12-4/WTpooled	1.29129	0.532
IL1-4/WTpooled	1.08971	1
WT/WTpooled	0.9842	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	1.31325	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00763	1
DC3000/delta hrp 6h	0.7774	0.95
DC3000/delta hrp 12h	1.13178	1
DC3000/delta hrp 24h	1.09603	0.633

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	0.72347	1
Exp 36h	1.18987	1
Exp 60h	1.1529	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09513	1
Var 0h	0.97507	1
Var 12h I row2-row1	1.08545	0.19
Var 12h NI row2-row1	1.49054	1
Var 36h I row2-row1	0.77018	0.805
Var 36h NI row2-row1	0.81196	0.706
Var 60h I row2-row1	1.00411	1
Var 60h NI row2-row1	0.81076	0.304
Time course 0hI-0hNI	0.84321	0.325
Time course 12hI-12hNI	1.15125	0.526
Time course 36hI-36hNI	1.35695	0.089
Time course 60hI-60hNI	1.93329	0.013

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)	0.98879	0.789
transgenic ySAMdc/azygous control (breaker)	1.03936	1
transgenic ySAMdc/azygous control (red)	0.97375	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94541	0.101

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05906	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87042	1
Manapal/WT (break)	1.05849	1
Manapal/WT (red)	1.32016	0.413