Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.6.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00502	0.83
27DAP/17DAP	1.17026	0.841
39DAP/27DAP	0.91552	0.62
41DAP/39DAP	0.79666	0.353
42DAP/41DAP	0.92951	1
43DAP/42DAP	1.01339	0.937
47DAP/43DAP	0.92193	0.724
52DAP/47DAP	1.29228	0.649
57DAP/52DAP	1.238	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0841	0.71
17DAP/reference	1.17847	0.011
27DAP/reference	1.12903	0.339
39DAP/reference	1.12855	0.393
41DAP/reference	1.30074	0.012
42DAP/reference	0.92978	0.278
43DAP/reference	1.05001	0.471
47DAP/reference	1.04151	0.666
52DAP/reference	0.83993	0.118
57DAP/reference	0.78	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.40762	0.103
27DAP/17DAP	1.02235	1
39DAP/27DAP	0.97737	0.844
41DAP/39DAP	1.19002	0.371
42DAP/41DAP	0.77563	0.037
43DAP/42DAP	0.88421	0.293
47DAP/43DAP	1.02209	0.973
52DAP/47DAP	0.96113	0.797
57DAP/52DAP	1.16735	0.442
57DAP/7DAP	0.98505	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85654	0.073
17DAP/reference	0.89101	0.035
27DAP/reference	0.97689	0.43
39DAP/reference	0.90422	0.17
41DAP/reference	0.96114	0.326
42DAP/reference	1.10279	0.405
43DAP/reference	1.00623	0.665
47DAP/reference	0.91515	0.222
52DAP/reference	0.97153	0.477
57DAP/reference	0.96116	0.367

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14526	0.246
17DAP/reference	1.20048	0.068
27DAP/reference	1.12662	0.543
39DAP/reference	1.0061	0.722
41DAP/reference	0.9567	0.331
42DAP/reference	0.78802	0.02
43DAP/reference	1.29082	0.014
47DAP/reference	0.85586	0.173
52DAP/reference	1.11848	0.069
57DAP/reference	1.27021	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94224	0.362
17DAP/reference	0.95042	0.462
27DAP/reference	0.88732	0.092
39DAP/reference	0.90228	0.092
41DAP/reference	0.95364	0.371
42DAP/reference	0.8306	0.071
43DAP/reference	0.85523	0.165
47DAP/reference	0.95431	0.434
52DAP/reference	1.42473	0.826
57DAP/reference	0.53687	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04767	1
26DAP/20DAP	1.51714	0.112
34DAP/26DAP	0.78957	0.301
51DAP/34DAP	0.77378	0.094
52DAP/51DAP	0.91335	1
53DAP/52DAP	1.06884	0.83
55DAP/53DAP	1.03462	1
57DAP/55DAP	1.3195	0.265
62DAP/57DAP	1.00496	1
68DAP/62DAP	0.76481	0.195
68DAP/14DAP	0.55234	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.67254	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.25053	0.016
Immature Eggplant/Mature Eggplant	1.96765	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	14.0523	0.268

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	N/A	N/A
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	1.37264
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	N/A	N/A
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	0.96366

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	1.16897
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.88203	1
IL1-4/WTpooled	1.22844
WT/WTpooled	0.8719	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	1.01273	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9259	1
DC3000/delta hrp 6h	0.95846	0.95
DC3000/delta hrp 12h	1.12476	1
DC3000/delta hrp 24h	1.17221	0.049

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.64459
DC3000 delta B/DC3000 delta AB	1.20436	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05188	1
Exp 36h	2.74595	1
Exp 60h	1.47507	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98444	1
Var 0h	1.07046	0.98
Var 12h I row2-row1	1.0846	0.613
Var 12h NI row2-row1	1.32866	0.235
Var 36h I row2-row1	0.89319	1
Var 36h NI row2-row1	0.92048	0.706
Var 60h I row2-row1	0.88064	0.285
Var 60h NI row2-row1	0.95068	0.69
Time course 0hI-0hNI	0.98298	0.935
Time course 12hI-12hNI	1.10382	0.301
Time course 36hI-36hNI	1.33371	0.006
Time course 60hI-60hNI	0.98793	1

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)	0.99588	0.931
transgenic ySAMdc/azygous control (breaker)	1.12062	1
transgenic ySAMdc/azygous control (red)	1.04079	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98475	0.517

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.18047	0.307
Manapal/WT (break)	0.99847	1
Manapal/WT (red)	1.10562	1