Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.20.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86903	0.405
27DAP/17DAP	0.96561	0.939
39DAP/27DAP	0.84864	0.537
41DAP/39DAP	1.34619	0.32
42DAP/41DAP	1.3071	0.958
43DAP/42DAP	0.86292	0.631
47DAP/43DAP	0.91706	0.667
52DAP/47DAP	1.79669	0.224
57DAP/52DAP	0.98468	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85587	0.075
17DAP/reference	1.06524	0.528
27DAP/reference	1.04639	0.539
39DAP/reference	0.9927	0.885
41DAP/reference	0.99238	0.814
42DAP/reference	0.9261	0.046
43DAP/reference	1.05398	0.233
47DAP/reference	1.03447	0.728
52DAP/reference	1.05546	0.607
57DAP/reference	1.13958	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25812	0.356
27DAP/17DAP	0.95372	0.854
39DAP/27DAP	1.15	0.465
41DAP/39DAP	2.16178	0.801
42DAP/41DAP	1.14489	0.947
43DAP/42DAP	0.95482	0.665
47DAP/43DAP	1.19646	0.822
52DAP/47DAP	1.99921	0.048
57DAP/52DAP	1.91953	0.045
57DAP/7DAP	1.67501	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88767	0.224
17DAP/reference	0.90508	0.22
27DAP/reference	1.04867	0.974
39DAP/reference	0.82359	0.109
41DAP/reference	0.76926	0.103
42DAP/reference	0.64554	0.033
43DAP/reference	0.73408	0.028
47DAP/reference	1.11815	1
52DAP/reference	0.88614	0.163
57DAP/reference	0.87175	0.207

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80062	0.087
17DAP/reference	0.68277	0.009
27DAP/reference	0.8208	0.09
39DAP/reference	0.96789	0.37
41DAP/reference	1.16398	0.188
42DAP/reference	0.98046	0.534
43DAP/reference	0.67528	0.068
47DAP/reference	1.04058	0.658
52DAP/reference	1.06434	0.498
57DAP/reference	0.97311	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89132	0.119
17DAP/reference	0.8727	0.243
27DAP/reference	0.93862	0.302
39DAP/reference	0.9249	0.246
41DAP/reference	0.83299	0.02
42DAP/reference	1.08596	0.576
43DAP/reference	0.91701	0.319
47DAP/reference	1.05855	0.82
52DAP/reference	0.99168	0.838
57DAP/reference	1.20823	0.378

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12406	0.966
26DAP/20DAP	1.3463	0.818
34DAP/26DAP	1.46903	1
51DAP/34DAP	1.38215	0.759
52DAP/51DAP	2.47509	0.034
53DAP/52DAP	0.82906	0.198
55DAP/53DAP	1.32069	0.056
57DAP/55DAP	0.55537	0.026
62DAP/57DAP	3.33462	0.445
68DAP/62DAP	1.93959	0.051
68DAP/14DAP	1.65814	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.18839	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.08786	0.948
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.88506
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	0.49596
4-3-2/M82	0.67334
4-3/M82	N/A	N/A
5-3/M82	0.97932
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.74845	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89409	0.243
IL2-6/WTpooled	1.37213	0.659
IL7-5/WTpooled	1.11815	1
IL7-3/WTpooled	1.27985	0.362
IL12-4/WTpooled	1.09339	0.646
IL1-4/WTpooled	0.80292	0.699
WT/WTpooled	1.05516	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	1.13829	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09886
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.13107	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96502	1
DC3000 delta B/DC3000 delta AB	0.77251	0.147

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	1.00059	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.71541	0.39
Var 12h NI row2-row1	1.30475	1
Var 36h I row2-row1	1.07158	1
Var 36h NI row2-row1	1.6445
Var 60h I row2-row1	0.77483
Var 60h NI row2-row1	0.76101	0.904
Time course 0hI-0hNI	0.86366	0.306
Time course 12hI-12hNI	0.9975	0.978
Time course 36hI-36hNI	0.78376	0.265
Time course 60hI-60hNI	2.34013	0.359

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)	0.97615	0.789
transgenic ySAMdc/azygous control (breaker)	1.19381	1
transgenic ySAMdc/azygous control (red)	1.14794	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95554	0.117

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05495	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.12948	1
Manapal/WT (break)	1.14474	1
Manapal/WT (red)	1.31704	0.164