Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.8.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47181	0.162
27DAP/17DAP	1.18749	0.845
39DAP/27DAP	1.16188	0.789
41DAP/39DAP	1.13823	0.423
42DAP/41DAP	2.17443	0.021
43DAP/42DAP	1.42297	0.724
47DAP/43DAP	2.00356	0.3
52DAP/47DAP	0.54757	0.126
57DAP/52DAP	1.29526	0.859

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94996	0.402
17DAP/reference	1.00687	0.874
27DAP/reference	0.94488	0.201
39DAP/reference	0.96944	0.475
41DAP/reference	1.01431	0.963
42DAP/reference	0.88113	0.014
43DAP/reference	1.00825	1
47DAP/reference	0.92329	0.046
52DAP/reference	0.91882	0.202
57DAP/reference	0.94346	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9887	0.763
27DAP/17DAP	1.0628	0.872
39DAP/27DAP	1.52408	0.065
41DAP/39DAP	0.68464	0.087
42DAP/41DAP	1.38178	0.003
43DAP/42DAP	1.91771	0.013
47DAP/43DAP	1.54256	0.012
52DAP/47DAP	1.25129	0.463
57DAP/52DAP	0.66452	0.11
57DAP/7DAP	1.71359	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00696	0.758
17DAP/reference	0.99346	0.599
27DAP/reference	1.08211	0.804
39DAP/reference	1.08827	0.779
41DAP/reference	0.95138	0.375
42DAP/reference	1.02621	1
43DAP/reference	1.07073	0.707
47DAP/reference	0.94091	0.222
52DAP/reference	1.05002	0.563
57DAP/reference	1.12174	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11152	0.241
17DAP/reference	0.90523	0.195
27DAP/reference	0.9588	0.467
39DAP/reference	1.02166	1
41DAP/reference	0.89695	0.152
42DAP/reference	0.87838	0.135
43DAP/reference	1.0492	0.751
47DAP/reference	0.96991	0.277
52DAP/reference	0.91616	0.121
57DAP/reference	1.20558	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09122	0.602
17DAP/reference	1.02362	0.934
27DAP/reference	0.95391	0.465
39DAP/reference	0.96157	0.36
41DAP/reference	1.02193	1
42DAP/reference	0.82671	0.036
43DAP/reference	0.883	0.188
47DAP/reference	0.90869	0.215
52DAP/reference	1.40853	0.657
57DAP/reference	0.81653	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94098	1
26DAP/20DAP	1.10965	0.85
34DAP/26DAP	1.01433	1
51DAP/34DAP	1.28578	0.387
52DAP/51DAP	0.88188	1
53DAP/52DAP	1.176	0.458
55DAP/53DAP	0.95004	0.735
57DAP/55DAP	1.15704	0.854
62DAP/57DAP	1.00797	1
68DAP/62DAP	1.00074	0.914
68DAP/14DAP	0.74837	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.878	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.68076	0.187
Mature Green Tomato/Ripe Tomato	0.42567	0.017
Immature Eggplant/Mature Eggplant	1.02564	0.633
Ripe Pepper/Ripe Tomato	1.0272	1
Mature Eggplant/Ripe Tomato	2.16957	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09169	0.591
1-1-2/M82	1.59906	1
12-2/M82	1.16331	1
12-4/M82	1.38612	1
1-3/M82	N/A	N/A
2-1-1/M82	0.96919	1
2-1/M82	N/A	N/A
2-6/M82	0.93612
3-2/M82	1.15417	0.463
4-1-1/M82	N/A	N/A
4-1/M82	4.08616
4-3-2/M82	2.00456	0.508
4-3/M82	1.33474	0.268
5-3/M82	1.06033	1
6-2/M82	0.95383
6-3/M82	0.72881
7-1/M82	0.48141	1
7-2/M82	1.162	1
9-3-2/M82	1.6808	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07891
IL2-6/WTpooled	1.16617
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.84848
IL12-4/WTpooled	0.3964	0.71
IL1-4/WTpooled	1.00513
WT/WTpooled	1.11187	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	1.27555	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10206	1
DC3000/delta hrp 6h	1.08216	1
DC3000/delta hrp 12h	1.09738	1
DC3000/delta hrp 24h	0.9903	0.769

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87867
DC3000 delta B/DC3000 delta AB	1.31394	0.169

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.04575	1
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	1.05289	1
Var 0h	1.27788	0.98
Var 12h I row2-row1	1.01595	1
Var 12h NI row2-row1	1.2961	0.649
Var 36h I row2-row1	0.99491	1
Var 36h NI row2-row1	1.00429	0.852
Var 60h I row2-row1	1.54671	1
Var 60h NI row2-row1	0.89074	0.516
Time course 0hI-0hNI	1.03534	0.852
Time course 12hI-12hNI	1.00528	0.892
Time course 36hI-36hNI	1.10855	0.401
Time course 60hI-60hNI	1.34754	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)	0.97734	0.567
transgenic ySAMdc/azygous control (breaker)	0.62784	0.132
transgenic ySAMdc/azygous control (red)	0.92235	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05002	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80586	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00472	1
Manapal/WT (break)	1.34457	1
Manapal/WT (red)	1.08001	0.15