Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.2.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0119	0.938
27DAP/17DAP	1.20573	0.88
39DAP/27DAP	0.92201	0.583
41DAP/39DAP	0.85069	0.455
42DAP/41DAP	1.16865	0.806
43DAP/42DAP	0.94512	0.863
47DAP/43DAP	0.82211	0.449
52DAP/47DAP	1.07269	0.848
57DAP/52DAP	1.16988	0.941

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95683	0.455
17DAP/reference	0.81248	0.008
27DAP/reference	0.87986	0.147
39DAP/reference	0.81388	0.039
41DAP/reference	0.77294	0.026
42DAP/reference	0.83199	0.059
43DAP/reference	0.90447	0.222
47DAP/reference	0.92221	0.116
52DAP/reference	1.01752	0.709
57DAP/reference	1.10577	0.132

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6897	0.042
27DAP/17DAP	1.40033	0.686
39DAP/27DAP	1.39078	0.691
41DAP/39DAP	N/A	N/A
42DAP/41DAP	1.30039	1
43DAP/42DAP	1.34532	0.83
47DAP/43DAP	1.05379	0.889
52DAP/47DAP	1.52377	0.669
57DAP/52DAP	0.78343	0.391
57DAP/7DAP	0.70268	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9233	0.246
17DAP/reference	0.91797	0.144
27DAP/reference	1.02488	0.804
39DAP/reference	1.0619	1
41DAP/reference	1.06368	1
42DAP/reference	1.01398	0.612
43DAP/reference	1.16741	0.212
47DAP/reference	0.87678	0.057
52DAP/reference	0.86413	0.072
57DAP/reference	0.99113	0.549

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98967	0.786
17DAP/reference	0.94071	0.287
27DAP/reference	1.155	0.331
39DAP/reference	1.16851	0.272
41DAP/reference	1.0315	1
42DAP/reference	0.93689	0.321
43DAP/reference	1.07745	0.624
47DAP/reference	0.86475	0.085
52DAP/reference	0.95529	0.351
57DAP/reference	0.80604	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07435	0.575
17DAP/reference	1.13723	0.371
27DAP/reference	1.02698	1
39DAP/reference	1.02549	0.889
41DAP/reference	1.17395	0.129
42DAP/reference	0.99983	1
43DAP/reference	1.27505	0.202
47DAP/reference	0.82474	0.026
52DAP/reference	0.80188	0.174
57DAP/reference	1.36629	0.095

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.31194	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.67529	0.561
51DAP/34DAP	1.27706	0.177
52DAP/51DAP	1.0658
53DAP/52DAP	1.60769	0.643
55DAP/53DAP	1.13246	0.925
57DAP/55DAP	0.81762	0.508
62DAP/57DAP	1.08256	0.868
68DAP/62DAP	1.16224	0.737
68DAP/14DAP	1.50681	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.67768	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.96494	0.487
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.55155	1
Mature Eggplant/Ripe Tomato	0.51108

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03599	1
1-1-2/M82	1.03378	1
12-2/M82	1.07734	1
12-4/M82	1.05018	1
1-3/M82	0.81663	0.501
2-1-1/M82	0.94159
2-1/M82	0.99458
2-6/M82	1.06074	0.594
3-2/M82	1.21253	0.967
4-1-1/M82	0.96642	1
4-1/M82	1.24071	0.512
4-3-2/M82	1.15573	1
4-3/M82	0.74953
5-3/M82	0.97376	1
6-2/M82	0.87996
6-3/M82	1.12338
7-1/M82	1.0555	1
7-2/M82	0.76957	0.57
9-3-2/M82	0.99182	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96819	1
IL2-6/WTpooled	0.66275	0.473
IL7-5/WTpooled	1.15246	0.792
IL7-3/WTpooled	1.28639	0.362
IL12-4/WTpooled	0.95351	1
IL1-4/WTpooled	1.01647	1
WT/WTpooled	0.97327	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.20772	0.875
DC3000/delta hrp 6h	1.06111	1
DC3000/delta hrp 12h	0.98787	1
DC3000/delta hrp 24h	0.9802	0.945

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	1.01493	1
Exp 36h	0.68138	0.426
Exp 60h	0.69606	0.29

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	1.32635
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)	1.01545	0.921
transgenic ySAMdc/azygous control (breaker)	1.01495	1
transgenic ySAMdc/azygous control (red)	0.98306	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92572	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.9323	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.33562	0.096
Manapal/WT (break)	1.11271	0.381
Manapal/WT (red)	1.22533	0.413