Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.15.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78501	0.249
27DAP/17DAP	1.13304	0.836
39DAP/27DAP	1.19425	0.606
41DAP/39DAP	1.09395	0.797
42DAP/41DAP	1.01386	1
43DAP/42DAP	0.9994	0.937
47DAP/43DAP	1.22803	0.52
52DAP/47DAP	1.34674	0.674
57DAP/52DAP	1.24103	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9053	0.075
17DAP/reference	0.89736	0.097
27DAP/reference	0.96947	0.623
39DAP/reference	0.9764	0.72
41DAP/reference	0.84159	0.085
42DAP/reference	0.94804	0.218
43DAP/reference	1.02158	0.646
47DAP/reference	0.99173	0.568
52DAP/reference	1.01944	1
57DAP/reference	1.08764	0.229

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86434	0.251
27DAP/17DAP	1.04382	0.9
39DAP/27DAP	0.99577	1
41DAP/39DAP	0.95364	0.747
42DAP/41DAP	1.02221	0.935
43DAP/42DAP	1.20127	0.025
47DAP/43DAP	0.96103	0.637
52DAP/47DAP	0.9349	0.702
57DAP/52DAP	1.00092	0.892
57DAP/7DAP	1.01589	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01712	1
17DAP/reference	0.8567	0.024
27DAP/reference	0.92492	0.082
39DAP/reference	0.79967	0.011
41DAP/reference	0.7529	0.025
42DAP/reference	0.85141	0.063
43DAP/reference	0.82899	0.03
47DAP/reference	0.95941	0.671
52DAP/reference	0.80929	0.038
57DAP/reference	0.80391	0.023

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06558	0.531
17DAP/reference	0.91687	0.189
27DAP/reference	0.93178	0.257
39DAP/reference	0.85426	0.072
41DAP/reference	0.96773	0.384
42DAP/reference	1.21535	0.281
43DAP/reference	1.05633	0.977
47DAP/reference	1.03106	0.795
52DAP/reference	0.83412	0.014
57DAP/reference	0.82753	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92981	0.214
17DAP/reference	0.98401	0.681
27DAP/reference	0.76733	0.045
39DAP/reference	0.82321	0.022
41DAP/reference	0.87485	0.119
42DAP/reference	1.03571	0.743
43DAP/reference	0.92049	0.216
47DAP/reference	1.18032	0.044
52DAP/reference	1.05107	0.904
57DAP/reference	1.18623	0.298

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90647	0.915
26DAP/20DAP	1.10146	0.834
34DAP/26DAP	1.0436	1
51DAP/34DAP	0.963	0.698
52DAP/51DAP	0.98511	1
53DAP/52DAP	1.05415	0.858
55DAP/53DAP	1.13383	0.562
57DAP/55DAP	1.05732	0.841
62DAP/57DAP	1.26011	0.515
68DAP/62DAP	0.93864	0.747
68DAP/14DAP	2.15346	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.52158	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.23612	0.059
Mature Green Tomato/Ripe Tomato	0.78738	0.287
Immature Eggplant/Mature Eggplant	1.07964	0.267
Ripe Pepper/Ripe Tomato	0.43428
Mature Eggplant/Ripe Tomato	1.24681	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.86807	0.613
1-1-2/M82	1.21388	0.977
12-2/M82	1.08174	1
12-4/M82	1.04639	1
1-3/M82	1.17947	0.248
2-1-1/M82	0.99283	1
2-1/M82	0.7914	0.519
2-6/M82	1.05777	1
3-2/M82	0.85908
4-1-1/M82	1.11282	1
4-1/M82	0.99095
4-3-2/M82	1.10975	1
4-3/M82	1.12129	1
5-3/M82	1.10644	1
6-2/M82	1.05357	1
6-3/M82	1.03792	1
7-1/M82	0.76156	0.466
7-2/M82	1.05056	1
9-3-2/M82	1.29138	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.67603	0.348
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.98843	1
IL12-4/WTpooled	0.82466	0.543
IL1-4/WTpooled	0.97183	0.834
WT/WTpooled	1.08247	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	1.09712	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01956	1
DC3000/delta hrp 6h	0.86435	0.95
DC3000/delta hrp 12h	1.35996	1
DC3000/delta hrp 24h	1.15692	0.047

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30979	0.055
DC3000 delta B/DC3000 delta AB	1.21	0.215

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07992	1
Exp 36h	1.01258	1
Exp 60h	1.11457	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0229	1
Var 0h	0.80652	0.933
Var 12h I row2-row1	1.0424	0.736
Var 12h NI row2-row1	0.88592	0.494
Var 36h I row2-row1	1.02716	1
Var 36h NI row2-row1	0.90253	0.61
Var 60h I row2-row1	0.92427	0.952
Var 60h NI row2-row1	1.00758	1
Time course 0hI-0hNI	1.06067	0.799
Time course 12hI-12hNI	0.97554	0.739
Time course 36hI-36hNI	1.04206	1
Time course 60hI-60hNI	2.07419	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)	0.91591	0.454
transgenic ySAMdc/azygous control (breaker)	0.85803	0.139
transgenic ySAMdc/azygous control (red)	1.08932	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13888	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03132	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79249	1
Manapal/WT (break)	0.74342	0.297
Manapal/WT (red)	0.8336	0.181