Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.4.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16129	0.755
27DAP/17DAP	1.19669	0.841
39DAP/27DAP	0.9921	0.769
41DAP/39DAP	0.89027	0.563
42DAP/41DAP	0.99549	1
43DAP/42DAP	0.90919	0.865
47DAP/43DAP	1.18469	0.215
52DAP/47DAP	0.84326	0.581
57DAP/52DAP	1.20098	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92157	0.231
17DAP/reference	0.97493	0.63
27DAP/reference	1.11483	0.161
39DAP/reference	1.08753	0.722
41DAP/reference	0.94064	0.434
42DAP/reference	1.03519	0.901
43DAP/reference	1.04797	0.617
47DAP/reference	1.01475	0.72
52DAP/reference	1.20448	0.242
57DAP/reference	1.18278	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32406	0.151
27DAP/17DAP	0.84537	0.418
39DAP/27DAP	1.24355	0.171
41DAP/39DAP	0.88051	0.495
42DAP/41DAP	1.17168	0.935
43DAP/42DAP	1.07373	0.212
47DAP/43DAP	0.91573	0.525
52DAP/47DAP	0.98301	0.93
57DAP/52DAP	0.86155	0.145
57DAP/7DAP	0.87635	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97952	0.55
17DAP/reference	1.01404	1
27DAP/reference	1.02564	1
39DAP/reference	0.92183	0.146
41DAP/reference	0.94048	0.326
42DAP/reference	1.0981	0.534
43DAP/reference	0.85282	0.061
47DAP/reference	1.02476	1
52DAP/reference	1.01693	0.941
57DAP/reference	1.03362	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05505	0.903
17DAP/reference	0.73881	0.143
27DAP/reference	2.49312	0.078
39DAP/reference	1.02131	0.891
41DAP/reference	1.04423	1
42DAP/reference	1.3644	0.259
43DAP/reference	1.3004	0.101
47DAP/reference	1.0438	0.377
52DAP/reference	0.89074	0.22
57DAP/reference	0.97844	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8472	0.071
17DAP/reference	1.07078	0.641
27DAP/reference	1.06667	0.575
39DAP/reference	1.02475	0.813
41DAP/reference	1.05821	0.674
42DAP/reference	1.08811	0.443
43DAP/reference	1.07898	0.768
47DAP/reference	1.11884	0.11
52DAP/reference	0.85392	0.242
57DAP/reference	1.49029	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.78673	0.42
26DAP/20DAP	1.40275	0.839
34DAP/26DAP	1.45432	1
51DAP/34DAP	0.97873	0.844
52DAP/51DAP	0.96115	1
53DAP/52DAP	0.91533	0.649
55DAP/53DAP	1.02925	1
57DAP/55DAP	1.07052
62DAP/57DAP	0.92988
68DAP/62DAP	1.41428	0.242
68DAP/14DAP	1.17704	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02295	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.41819	0.015
Immature Eggplant/Mature Eggplant	2.50725
Ripe Pepper/Ripe Tomato	3.40906
Mature Eggplant/Ripe Tomato	1.17271

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.7273	0.477
1-1-2/M82	1.17351	1
12-2/M82	1.4192	1
12-4/M82	0.69423	0.619
1-3/M82	0.71216	0.378
2-1-1/M82	0.54018
2-1/M82	1.23201	1
2-6/M82	0.67605	1
3-2/M82	0.8146
4-1-1/M82	0.53311	0.959
4-1/M82	1.02721	1
4-3-2/M82	N/A	N/A
4-3/M82	0.60618	0.611
5-3/M82	1.03301	1
6-2/M82	0.59684	0.497
6-3/M82	1.39171	1
7-1/M82	0.98447	1
7-2/M82	0.61299
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7117	0.321
IL2-6/WTpooled	0.94274	1
IL7-5/WTpooled	0.9784	1
IL7-3/WTpooled	0.90287	1
IL12-4/WTpooled	0.87022	0.71
IL1-4/WTpooled	1.04363	1
WT/WTpooled	0.93199	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	0.86684	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05688
DC3000/delta hrp 6h	0.84292	0.95
DC3000/delta hrp 12h	0.94699	1
DC3000/delta hrp 24h	1.00137	1

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	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	1.00765	1
Var 0h	1.05069	0.98
Var 12h I row2-row1	0.95449	0.514
Var 12h NI row2-row1	0.99106	1
Var 36h I row2-row1	1.05635	0.41
Var 36h NI row2-row1	1.01376	1
Var 60h I row2-row1	0.78125	0.285
Var 60h NI row2-row1	1.01102	1
Time course 0hI-0hNI	0.9854	0.97
Time course 12hI-12hNI	0.97269	0.795
Time course 36hI-36hNI	1.07228	0.218
Time course 60hI-60hNI	0.67802	0.009

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)	0.90649	0.428
transgenic ySAMdc/azygous control (breaker)	0.66346	0.15
transgenic ySAMdc/azygous control (red)	1.29749	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99149	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79246	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.12224	0.381
Manapal/WT (red)	0.8975	0.315