Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.2.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8439	0.324
27DAP/17DAP	0.96108	0.957
39DAP/27DAP	1.08845	1
41DAP/39DAP	1.3013	0.685
42DAP/41DAP	0.97206	1
43DAP/42DAP	0.91047	0.851
47DAP/43DAP	0.71176	0.245
52DAP/47DAP	2.11146	0.153
57DAP/52DAP	0.69085	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05577	0.384
17DAP/reference	0.94877	0.24
27DAP/reference	1.05674	0.548
39DAP/reference	1.21918	0.018
41DAP/reference	1.05205	0.393
42DAP/reference	1.04536	0.842
43DAP/reference	0.99135	0.805
47DAP/reference	1.04969	1
52DAP/reference	1.15353	0.108
57DAP/reference	1.31068	0.097

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97756	0.716
27DAP/17DAP	0.96471	0.821
39DAP/27DAP	1.07969	0.541
41DAP/39DAP	1.107	0.781
42DAP/41DAP	0.86646	0.35
43DAP/42DAP	1.06698	0.746
47DAP/43DAP	0.94732	0.796
52DAP/47DAP	0.98878	0.925
57DAP/52DAP	0.97218	0.732
57DAP/7DAP	0.85417	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80537	0.168
17DAP/reference	0.91907	0.124
27DAP/reference	1.30501	0.026
39DAP/reference	0.73697	0.015
41DAP/reference	0.93719	0.341
42DAP/reference	1.04911	0.686
43DAP/reference	0.75448	0.025
47DAP/reference	0.80667	0.066
52DAP/reference	0.93567	0.15
57DAP/reference	0.72262	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25282	0.246
17DAP/reference	1.4719	0.009
27DAP/reference	1.46536	0.029
39DAP/reference	1.53399	0.015
41DAP/reference	1.47774	0.01
42DAP/reference	1.46247	0.031
43DAP/reference	2.43084	0.011
47DAP/reference	1.35012	0.036
52DAP/reference	1.59444	0.006
57DAP/reference	1.38051	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87934	0.183
17DAP/reference	1.09125	0.699
27DAP/reference	0.84931	0.113
39DAP/reference	0.92629	0.246
41DAP/reference	1.23049	0.439
42DAP/reference	1.3186	0.019
43DAP/reference	1.03383	0.59
47DAP/reference	1.17512	0.018
52DAP/reference	1.04374	0.657
57DAP/reference	1.69462	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12583	0.966
26DAP/20DAP	1.05457	1
34DAP/26DAP	1.16669	1
51DAP/34DAP	0.88949	0.442
52DAP/51DAP	1.01004	1
53DAP/52DAP	1.09999	0.797
55DAP/53DAP	1.21143	0.162
57DAP/55DAP	0.82203	0.403
62DAP/57DAP	1.17981	0.303
68DAP/62DAP	0.97995	0.769
68DAP/14DAP	0.99791	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.66687	0.061

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.89179	0.347
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.64896	0.293
Mature Eggplant/Ripe Tomato	0.72555	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10048	1
1-1-2/M82	1.02254
12-2/M82	1.29208	1
12-4/M82	1.0775	1
1-3/M82	0.86416	0.501
2-1-1/M82	1.0154	0.375
2-1/M82	N/A	N/A
2-6/M82	0.91735	1
3-2/M82	0.82554
4-1-1/M82	1.07485	0.613
4-1/M82	1.30285
4-3-2/M82	0.96455	1
4-3/M82	0.72639
5-3/M82	0.99676	1
6-2/M82	0.91347	0.481
6-3/M82	0.95119	0.236
7-1/M82	0.87817
7-2/M82	0.85955	0.54
9-3-2/M82	0.95447	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.71145	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96764	1
IL12-4/WTpooled	0.92007	1
IL1-4/WTpooled	0.76163
WT/WTpooled	0.92885	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	0.98587	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00924	0.921
DC3000/delta hrp 6h	0.90984	0.95
DC3000/delta hrp 12h	1.31833	1
DC3000/delta hrp 24h	0.96711	0.725

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	1.0601

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.4186	1
Exp 60h	1.69128	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9651	1
Var 0h	0.80461	1
Var 12h I row2-row1	1.04776	0.544
Var 12h NI row2-row1	0.89625	0.713
Var 36h I row2-row1	0.94571	0.805
Var 36h NI row2-row1	0.70581	0.645
Var 60h I row2-row1	1.20386	0.543
Var 60h NI row2-row1	0.92867	0.977
Time course 0hI-0hNI	0.90102	0.207
Time course 12hI-12hNI	1.05923	0.482
Time course 36hI-36hNI	1.22724	0.011
Time course 60hI-60hNI	1.4534	0.022

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)	0.87792	0.278
transgenic ySAMdc/azygous control (breaker)	1.61725	0.178
transgenic ySAMdc/azygous control (red)	1.14297	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05985	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85457	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88275	1
Manapal/WT (break)	1.16926	0.381
Manapal/WT (red)	1.02799	1