Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.9.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32724	0.303
27DAP/17DAP	3.48591	0.065
39DAP/27DAP	2.59981	0.215
41DAP/39DAP	1.58515	0.904
42DAP/41DAP	2.64099	0.021
43DAP/42DAP	0.92653	0.865
47DAP/43DAP	0.4538	0.049
52DAP/47DAP	0.92017	0.641
57DAP/52DAP	0.70208	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77823	0.068
17DAP/reference	0.80179	0.016
27DAP/reference	0.94508	0.275
39DAP/reference	1.04621	0.76
41DAP/reference	1.00741	1
42DAP/reference	1.22834	0.05
43DAP/reference	0.90284	0.222
47DAP/reference	0.96302	0.345
52DAP/reference	0.84781	0.139
57DAP/reference	0.97424	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88507	0.336
27DAP/17DAP	0.92874	0.724
39DAP/27DAP	2.35063	0.044
41DAP/39DAP	2.32447	0.008
42DAP/41DAP	0.71026	0.008
43DAP/42DAP	0.59087	0.022
47DAP/43DAP	1.15882	0.065
52DAP/47DAP	0.95817	0.884
57DAP/52DAP	0.75063	0.308
57DAP/7DAP	1.34687	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80936	0.108
17DAP/reference	0.81681	0.012
27DAP/reference	1.31384	0.06
39DAP/reference	1.14037	1
41DAP/reference	0.85405	0.103
42DAP/reference	1.08071	1
43DAP/reference	0.89485	0.22
47DAP/reference	1.5534	0.21
52DAP/reference	2.31617	0.007
57DAP/reference	2.95235	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81797	0.048
17DAP/reference	0.91647	0.297
27DAP/reference	1.01237	0.765
39DAP/reference	1.41514	0.281
41DAP/reference	0.97198	0.459
42DAP/reference	1.51377	0.015
43DAP/reference	2.26878	0.009
47DAP/reference	1.80975	0.008
52DAP/reference	1.4574	0.027
57DAP/reference	3.02943	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74204	0.052
17DAP/reference	0.94582	0.519
27DAP/reference	0.72986	0.041
39DAP/reference	1.1806	0.318
41DAP/reference	1.28761	0.096
42DAP/reference	1.0165	1
43DAP/reference	0.78013	0.106
47DAP/reference	0.99552	0.646
52DAP/reference	0.77949	0.119
57DAP/reference	1.14783	0.462

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0185	1
26DAP/20DAP	0.84056	0.512
34DAP/26DAP	1.29689	0.819
51DAP/34DAP	0.95638	0.758
52DAP/51DAP	1.02793	1
53DAP/52DAP	1.08419	0.623
55DAP/53DAP	1.17206	0.375
57DAP/55DAP	0.73013	0.149
62DAP/57DAP	1.07759	0.868
68DAP/62DAP	0.81309	0.177
68DAP/14DAP	1.15771	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.75392	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.84534	0.377
Immature Eggplant/Mature Eggplant	1.34401	0.142
Ripe Pepper/Ripe Tomato	0.25833	0.224
Mature Eggplant/Ripe Tomato	0.65835	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.7197
12-2/M82	N/A	N/A
12-4/M82	0.86244	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.61605	0.465
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	0.90594
4-3-2/M82	1.2999
4-3/M82	0.80081
5-3/M82	1.56012	0.572
6-2/M82	2.7193	0.235
6-3/M82	N/A	N/A
7-1/M82	2.31174	0.598
7-2/M82	N/A	N/A
9-3-2/M82	1.05667	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0048	1
IL2-6/WTpooled	1.01561	1
IL7-5/WTpooled	0.99514	1
IL7-3/WTpooled	0.91933	1
IL12-4/WTpooled	1.06679	0.785
IL1-4/WTpooled	1.09401	0.426
WT/WTpooled	0.94862	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	2.02974	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83738	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.01119	1
DC3000/delta hrp 24h	0.9822	0.91

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.87025	0.042
DC3000 delta B/DC3000 delta AB	3.04812	0.031

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.6523	0.201
Exp 36h	1.45749	0.693
Exp 60h	2.24727	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04052	1
Var 0h	0.92425	0.933
Var 12h I row2-row1	1.00993	1
Var 12h NI row2-row1	1.60578	0.34
Var 36h I row2-row1	1.41928	0.41
Var 36h NI row2-row1	0.51282	0.478
Var 60h I row2-row1	1.18283	0.487
Var 60h NI row2-row1	0.82391	0.292
Time course 0hI-0hNI	1.55934	0.451
Time course 12hI-12hNI	0.95154	0.752
Time course 36hI-36hNI	3.7286	0.005
Time course 60hI-60hNI	24.9604	0.008

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)	0.37996	0.227
transgenic ySAMdc/azygous control (breaker)	19.9945	0.172
transgenic ySAMdc/azygous control (red)	5.84515	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03386	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.41519	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.23413	0.105
Manapal/WT (break)	12.2417	0.381
Manapal/WT (red)	N/A	N/A