Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.9.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99734	0.801
27DAP/17DAP	1.0192	1
39DAP/27DAP	0.83746	0.512
41DAP/39DAP	1.23449	0.67
42DAP/41DAP	1.52377	0.681
43DAP/42DAP	0.96337	0.898
47DAP/43DAP	0.92395	0.609
52DAP/47DAP	1.1665	0.645
57DAP/52DAP	1.71209	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0273	0.844
17DAP/reference	0.93278	0.368
27DAP/reference	0.99721	0.867
39DAP/reference	0.91663	0.412
41DAP/reference	0.69719	0.009
42DAP/reference	0.81815	0.107
43DAP/reference	0.95268	0.394
47DAP/reference	0.85325	0.015
52DAP/reference	0.98804	0.53
57DAP/reference	1.20232	0.088

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16784	0.774
27DAP/17DAP	1.25829	0.576
39DAP/27DAP	1.02187	1
41DAP/39DAP	1.47357	0.063
42DAP/41DAP	1.48282	0.065
43DAP/42DAP	0.96661	0.709
47DAP/43DAP	1.00015	0.997
52DAP/47DAP	1.05107	0.8
57DAP/52DAP	0.9713	0.726
57DAP/7DAP	1.72508

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10207	0.393
17DAP/reference	1.01624	1
27DAP/reference	0.96165	0.171
39DAP/reference	0.92974	0.264
41DAP/reference	0.86394	0.133
42DAP/reference	0.91413	0.2
43DAP/reference	0.82658	0.014
47DAP/reference	1.01267	1
52DAP/reference	0.92007	0.196
57DAP/reference	0.84295	0.045

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11134	0.463
17DAP/reference	1.04736	0.557
27DAP/reference	0.84647	0.049
39DAP/reference	0.9551	0.442
41DAP/reference	1.2344	0.209
42DAP/reference	0.67592	0.015
43DAP/reference	0.93944	0.385
47DAP/reference	0.79217	0.046
52DAP/reference	0.99258	0.619
57DAP/reference	0.87614	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01379	1
17DAP/reference	0.99792	0.792
27DAP/reference	1.05158	0.621
39DAP/reference	0.9826	0.504
41DAP/reference	1.03373	0.637
42DAP/reference	1.12801	0.612
43DAP/reference	1.03012	0.91
47DAP/reference	0.99042	0.626
52DAP/reference	0.93939	0.505
57DAP/reference	1.01362	0.954

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0638	0.966
26DAP/20DAP	1.07973	0.855
34DAP/26DAP	0.93234	0.861
51DAP/34DAP	0.77876	0.419
52DAP/51DAP	1.12405	0.873
53DAP/52DAP	1.37444	0.806
55DAP/53DAP	0.77537	0.445
57DAP/55DAP	0.94126	0.715
62DAP/57DAP	1.25827	0.833
68DAP/62DAP	0.93329	0.863
68DAP/14DAP	0.86831	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22786	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.13367	0.666
Mature Green Tomato/Ripe Tomato	0.77737	0.165
Immature Eggplant/Mature Eggplant	1.16929	0.485
Ripe Pepper/Ripe Tomato	1.47339
Mature Eggplant/Ripe Tomato	1.61602	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00252
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.9217	1
1-3/M82	N/A	N/A
2-1-1/M82	1.05005
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.04815
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	1.0944	0.496
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	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	1.01086	1
IL7-5/WTpooled	1.44163	0.65
IL7-3/WTpooled	0.8165	0.418
IL12-4/WTpooled	0.97983	1
IL1-4/WTpooled	0.88932	0.699
WT/WTpooled	0.9784	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	1.18171	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9679	1
DC3000/delta hrp 6h	1.00306	0.95
DC3000/delta hrp 12h	1.00736
DC3000/delta hrp 24h	1.06454	0.633

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	0.86439	0.242
Exp 36h	0.90394	0.749
Exp 60h	0.94975	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01121	1
Var 0h	1.33956	0.594
Var 12h I row2-row1	1.02315	1
Var 12h NI row2-row1	1.09352	1
Var 36h I row2-row1	0.99079	1
Var 36h NI row2-row1	0.91527	0.478
Var 60h I row2-row1	1.20917	0.543
Var 60h NI row2-row1	0.80382	0.866
Time course 0hI-0hNI	0.99734	1
Time course 12hI-12hNI	0.98942	0.968
Time course 36hI-36hNI	1.23947	0.101
Time course 60hI-60hNI	1.28312	0.019

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)	1.04794	0.331
transgenic ySAMdc/azygous control (breaker)	1.1932	0.172
transgenic ySAMdc/azygous control (red)	1.11266	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95966	0.153

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.65542	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0786	0.14
Manapal/WT (break)	0.85296	1
Manapal/WT (red)	0.89877	0.36