Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.4.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07109	0.739
27DAP/17DAP	1.0132	1
39DAP/27DAP	0.88398	0.522
41DAP/39DAP	1.11928	0.58
42DAP/41DAP	0.89205	1
43DAP/42DAP	1.11153	0.885
47DAP/43DAP	1.22861	0.563
52DAP/47DAP	0.94114	0.803
57DAP/52DAP	1.07934	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05613	0.241
17DAP/reference	1.09861	0.049
27DAP/reference	1.05616	0.365
39DAP/reference	1.02521	0.514
41DAP/reference	1.01214	0.963
42DAP/reference	1.0726	0.287
43DAP/reference	1.01541	0.787
47DAP/reference	1.0071	1
52DAP/reference	0.99291	0.654
57DAP/reference	1.00996	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90691	0.299
27DAP/17DAP	1.10502	0.664
39DAP/27DAP	1.04979	0.677
41DAP/39DAP	1.02663	1
42DAP/41DAP	0.99271	0.87
43DAP/42DAP	1.15023	0.061
47DAP/43DAP	0.96716	0.781
52DAP/47DAP	1.04966	0.819
57DAP/52DAP	1.01654	0.957
57DAP/7DAP	1.13872	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95111	0.445
17DAP/reference	0.80743	0.016
27DAP/reference	0.94109	0.375
39DAP/reference	1.10407	0.486
41DAP/reference	1.12978	0.491
42DAP/reference	1.10336	0.534
43DAP/reference	0.91724	0.22
47DAP/reference	1.06154	0.7
52DAP/reference	1.12653	0.563
57DAP/reference	0.94772	0.328

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31991	0.39
17DAP/reference	1.13654	0.081
27DAP/reference	1.08635	0.292
39DAP/reference	1.25602	0.182
41DAP/reference	1.1967	0.255
42DAP/reference	1.04943	0.621
43DAP/reference	1.0167	0.919
47DAP/reference	1.00554	1
52DAP/reference	1.27542	0.156
57DAP/reference	1.01332	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08173	0.444
17DAP/reference	1.127	0.394
27DAP/reference	0.99067	0.763
39DAP/reference	1.12863	0.078
41DAP/reference	1.05925	0.357
42DAP/reference	1.35549	0.106
43DAP/reference	1.34657	0.065
47DAP/reference	1.03321	0.655
52DAP/reference	1.10301	0.558
57DAP/reference	1.19141	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96092	1
26DAP/20DAP	1.11948	0.778
34DAP/26DAP	0.9783	0.936
51DAP/34DAP	1.03953	0.627
52DAP/51DAP	1.15295	0.413
53DAP/52DAP	0.90623	0.27
55DAP/53DAP	0.9932	0.894
57DAP/55DAP	1.09333	0.492
62DAP/57DAP	0.96979	0.994
68DAP/62DAP	0.86827	0.722
68DAP/14DAP	0.98442	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.49144	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.94087	0.058
Mature Green Tomato/Ripe Tomato	1.14238	0.577
Immature Eggplant/Mature Eggplant	0.8494	0.111
Ripe Pepper/Ripe Tomato	0.38217	0.224
Mature Eggplant/Ripe Tomato	2.02374	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13586
1-1-2/M82	0.91608
12-2/M82	N/A	N/A
12-4/M82	1.32454
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	1.20409	0.594
3-2/M82	0.94413
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.99628	1
4-3/M82	1.3453
5-3/M82	0.94748	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.09062
7-2/M82	N/A	N/A
9-3-2/M82	0.73401	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1501	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.14734	1
IL12-4/WTpooled	1.16435	0.695
IL1-4/WTpooled	0.86701
WT/WTpooled	1.02275	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	0.78887	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95181	1
DC3000/delta hrp 6h	1.20094	1
DC3000/delta hrp 12h	0.97095	1
DC3000/delta hrp 24h	1.09363	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.9371	0.691
DC3000 delta B/DC3000 delta AB	1.02008	0.687

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.22049	1
Exp 36h	1.00598	0.879
Exp 60h	1.01404	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.01954	0.421
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.42788	0.347
transgenic ySAMdc/azygous control (breaker)	0.79299	0.173
transgenic ySAMdc/azygous control (red)	1.14672	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94261	0.156

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.47599	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87098	1
Manapal/WT (break)	1.19506	0.14
Manapal/WT (red)	1.35063	0.142