Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.8.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91832	0.543
27DAP/17DAP	1.04293	0.881
39DAP/27DAP	0.97939	0.749
41DAP/39DAP	1.22937	0.708
42DAP/41DAP	1.10978	0.806
43DAP/42DAP	1.07263	0.985
47DAP/43DAP	1.16709	0.769
52DAP/47DAP	0.95974	0.842
57DAP/52DAP	1.11836	0.873

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98232	0.616
17DAP/reference	1.08448	0.33
27DAP/reference	0.91184	0.359
39DAP/reference	0.95665	0.565
41DAP/reference	1.11328	0.187
42DAP/reference	0.82229	0.014
43DAP/reference	0.95785	0.538
47DAP/reference	1.01195	1
52DAP/reference	1.07366	0.633
57DAP/reference	0.9895	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07525	0.662
27DAP/17DAP	0.91965	0.614
39DAP/27DAP	1.06275	0.611
41DAP/39DAP	1.04091	0.861
42DAP/41DAP	1.01109	1
43DAP/42DAP	0.93623	0.336
47DAP/43DAP	0.98755	0.947
52DAP/47DAP	0.94859	0.702
57DAP/52DAP	0.96316	0.685
57DAP/7DAP	1.26169	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96743	0.55
17DAP/reference	0.94265	0.108
27DAP/reference	1.08523	0.974
39DAP/reference	1.14785	0.297
41DAP/reference	1.17911	0.232
42DAP/reference	0.97485	0.506
43DAP/reference	0.96032	0.44
47DAP/reference	0.95109	0.671
52DAP/reference	0.96861	0.435
57DAP/reference	0.90625	0.074

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82505	0.046
17DAP/reference	0.99032	0.728
27DAP/reference	0.9416	0.327
39DAP/reference	0.78179	0.208
41DAP/reference	0.95891	0.393
42DAP/reference	0.98695	0.534
43DAP/reference	1.21222	0.313
47DAP/reference	1.09611	0.332
52DAP/reference	0.90085	0.28
57DAP/reference	1.0646	0.538

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87381	0.065
17DAP/reference	0.98966	0.763
27DAP/reference	1.13054	0.188
39DAP/reference	1.08396	0.353
41DAP/reference	1.13081	0.777
42DAP/reference	1.04163	0.692
43DAP/reference	0.89109	0.143
47DAP/reference	1.15785	0.187
52DAP/reference	1.13425	0.609
57DAP/reference	1.09001	0.436

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95639	1
26DAP/20DAP	0.99144	1
34DAP/26DAP	1.06401	1
51DAP/34DAP	0.87554	0.419
52DAP/51DAP	0.9748	1
53DAP/52DAP	1.02311	0.901
55DAP/53DAP	1.10912	0.861
57DAP/55DAP	1.04921	0.947
62DAP/57DAP	1.17921	0.622
68DAP/62DAP	1.2064	0.931
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97172	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.73264	0.256
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.19194
Mature Eggplant/Ripe Tomato	0.25372	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.20871	0.877
1-1-2/M82	0.9936	1
12-2/M82	N/A	N/A
12-4/M82	0.94201	1
1-3/M82	0.6532	0.378
2-1-1/M82	0.82051	0.565
2-1/M82	N/A	N/A
2-6/M82	1.00538	1
3-2/M82	1.06629	0.967
4-1-1/M82	1.32763
4-1/M82	1.06956	1
4-3-2/M82	0.91925	1
4-3/M82	1.1978	1
5-3/M82	1.00532	1
6-2/M82	N/A	N/A
6-3/M82	1.03203	1
7-1/M82	0.99963	1
7-2/M82	0.97239	1
9-3-2/M82	0.9085	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.39497	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.20201	1
IL12-4/WTpooled	2.63235	0.516
IL1-4/WTpooled	1.01735	1
WT/WTpooled	0.99044	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	0.95894	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04246	0.921
DC3000/delta hrp 6h	1.1762	1
DC3000/delta hrp 12h	0.89658	1
DC3000/delta hrp 24h	1.28935	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93719	0.724
DC3000 delta B/DC3000 delta AB	1.12154	0.349

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	1.02516	1
Var 0h	1.2239	1
Var 12h I row2-row1	1.05695	0.544
Var 12h NI row2-row1	0.91626	0.82
Var 36h I row2-row1	1.07009	0.309
Var 36h NI row2-row1	0.91899	0.61
Var 60h I row2-row1	1.00024	1
Var 60h NI row2-row1	0.96229	0.866
Time course 0hI-0hNI	0.88422	0.076
Time course 12hI-12hNI	1.00673	0.868
Time course 36hI-36hNI	1.08383	0.218
Time course 60hI-60hNI	1.15144	0.025

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)	0.98937	0.862
transgenic ySAMdc/azygous control (breaker)	1.16474	0.248
transgenic ySAMdc/azygous control (red)	0.96519	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99847	0.911

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76308	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83154	1
Manapal/WT (break)	1.01895	1
Manapal/WT (red)	1.23871	0.15