Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.3.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20293	0.912
27DAP/17DAP	1.58605	0.641
39DAP/27DAP	0.93618	0.682
41DAP/39DAP	0.83164	0.461
42DAP/41DAP	1.52885	0.527
43DAP/42DAP	0.82397	0.712
47DAP/43DAP	1.32133	0.633
52DAP/47DAP	0.91716	0.693
57DAP/52DAP	1.20589	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92297	0.336
17DAP/reference	0.91671	0.567
27DAP/reference	0.78644	0.015
39DAP/reference	0.75152	0.01
41DAP/reference	0.99819	1
42DAP/reference	0.75186	0.016
43DAP/reference	1.58463	0.569
47DAP/reference	0.70489	0.002
52DAP/reference	1.17016	0.354
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03197	0.87
27DAP/17DAP	1.14447	0.69
39DAP/27DAP	0.98958	0.908
41DAP/39DAP	1.05927	0.853
42DAP/41DAP	1.09571	0.961
43DAP/42DAP	1.01688	1
47DAP/43DAP	0.8938	0.617
52DAP/47DAP	1.00832	0.947
57DAP/52DAP	0.96359	0.75
57DAP/7DAP	0.48093	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12614	0.613
17DAP/reference	1.09334	0.627
27DAP/reference	0.87728	0.125
39DAP/reference	0.85409	0.146
41DAP/reference	0.91642	0.073
42DAP/reference	0.929	0.355
43DAP/reference	1.05498	1
47DAP/reference	0.89099	0.168
52DAP/reference	0.84604	0.053
57DAP/reference	0.96109	0.396

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77851	0.02
17DAP/reference	0.78848	0.047
27DAP/reference	0.9292	0.327
39DAP/reference	1.04298	1
41DAP/reference	0.87341	0.237
42DAP/reference	0.85202	0.042
43DAP/reference	0.72816	0.033
47DAP/reference	0.7738	0.016
52DAP/reference	0.92674	0.327
57DAP/reference	1.4246	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04932	1
17DAP/reference	0.85437	0.194
27DAP/reference	0.90353	0.022
39DAP/reference	0.87585	0.122
41DAP/reference	0.98933	0.682
42DAP/reference	0.92449	0.445
43DAP/reference	1.02794	0.738
47DAP/reference	0.86028	0.207
52DAP/reference	1.97203	0.473
57DAP/reference	1.28826	0.111

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.43264	0.966
26DAP/20DAP	1.00147	1
34DAP/26DAP	0.74247	0.702
51DAP/34DAP	1.10284	0.73
52DAP/51DAP	1.14213	0.662
53DAP/52DAP	1.52028	0.384
55DAP/53DAP	1.03774	0.955
57DAP/55DAP	1.03875	0.923
62DAP/57DAP	0.91668	0.994
68DAP/62DAP	1.42911	0.265
68DAP/14DAP	1.43211	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98438	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.81758	0.666
Mature Green Tomato/Ripe Tomato	0.52057	0.066
Immature Eggplant/Mature Eggplant	5.10779
Ripe Pepper/Ripe Tomato	0.67797	0.293
Mature Eggplant/Ripe Tomato	0.41694	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.03905	1
12-2/M82	N/A	N/A
12-4/M82	0.79542
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	N/A	N/A
5-3/M82	1.07805	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.10029
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.10243
IL1-4/WTpooled	2.43038	1
WT/WTpooled	1.20489

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	0.9807	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94345	1
DC3000/delta hrp 6h	1.17835	1
DC3000/delta hrp 12h	0.96493	1
DC3000/delta hrp 24h	0.9501	0.598

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	0.60597

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17563	1
Exp 36h	1.07412	1
Exp 60h	0.85979	0.754

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	0.52555	0.782
Var 12h I row2-row1	1.03428	0.795
Var 12h NI row2-row1	0.98054	0.906
Var 36h I row2-row1	0.68852	1
Var 36h NI row2-row1	0.93516	0.469
Var 60h I row2-row1	1.54267	0.562
Var 60h NI row2-row1	1.02673	1
Time course 0hI-0hNI	1.06945
Time course 12hI-12hNI	1.01604
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)	0.99694	1
transgenic ySAMdc/azygous control (breaker)	0.85337	0.49
transgenic ySAMdc/azygous control (red)	0.99028	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12886	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69649	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0508	1
Manapal/WT (break)	0.99149	1
Manapal/WT (red)	1.24013	0.413