Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.20.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.25663	0.523
27DAP/17DAP	0.81239	0.433
39DAP/27DAP	3.00133	0.236
41DAP/39DAP	1.29298	0.344
42DAP/41DAP	1.1321	1
43DAP/42DAP	0.81858	0.827
47DAP/43DAP	1.09873	0.999
52DAP/47DAP	1.18256	0.856
57DAP/52DAP	1.05965	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76175	0.04
17DAP/reference	0.73667	0.018
27DAP/reference	0.99042	0.741
39DAP/reference	0.81899	0.018
41DAP/reference	0.80909	0.049
42DAP/reference	0.95152	0.25
43DAP/reference	0.93077	0.48
47DAP/reference	0.93597	0.258
52DAP/reference	1.02408	0.768
57DAP/reference	1.17224	0.229

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45846	0.398
27DAP/17DAP	0.96229	0.887
39DAP/27DAP	2.6665	0.117
41DAP/39DAP	2.39753	0.007
42DAP/41DAP	0.89248	0.358
43DAP/42DAP	0.64191	0.024
47DAP/43DAP	1.72036	0.041
52DAP/47DAP	0.78271	0.345
57DAP/52DAP	0.9447	0.651
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77186	0.066
17DAP/reference	1.0853	0.477
27DAP/reference	0.91594	0.185
39DAP/reference	0.6823	0.017
41DAP/reference	0.63323	0.013
42DAP/reference	0.68995	0.015
43DAP/reference	0.84624	0.121
47DAP/reference	1.13299	0.67
52DAP/reference	1.22468	0.183
57DAP/reference	1.67463	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64921	0.014
17DAP/reference	0.63787	0.01
27DAP/reference	0.83833	0.134
39DAP/reference	0.91026	0.178
41DAP/reference	0.82653	0.073
42DAP/reference	0.77868	0.039
43DAP/reference	0.86774	0.166
47DAP/reference	0.83258	0.097
52DAP/reference	0.8248	0.04
57DAP/reference	1.1058	0.462

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65896	0.026
17DAP/reference	0.79489	0.13
27DAP/reference	0.74695	0.042
39DAP/reference	0.78953	0.028
41DAP/reference	0.77995	0.148
42DAP/reference	0.7407	0.032
43DAP/reference	0.92152	0.334
47DAP/reference	0.83061	0.034
52DAP/reference	1.08366	0.526
57DAP/reference	1.29289	0.196

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05919	1
26DAP/20DAP	0.69199	0.512
34DAP/26DAP	0.68878	0.693
51DAP/34DAP	1.33943	0.535
52DAP/51DAP	1.26617	0.467
53DAP/52DAP	0.99849	0.835
55DAP/53DAP	0.79095	0.159
57DAP/55DAP	0.74104	0.271
62DAP/57DAP	1.13649	0.515
68DAP/62DAP	1.9263	0.017
68DAP/14DAP	2.02757	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.06578	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94243	0.605
Mature Green Tomato/Ripe Tomato	0.81447	0.411
Immature Eggplant/Mature Eggplant	1.13893	0.174
Ripe Pepper/Ripe Tomato	0.54972	1
Mature Eggplant/Ripe Tomato	0.39821	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.40851	0.581
1-1-2/M82	0.59532	1
12-2/M82	1.20726	1
12-4/M82	0.72939	0.619
1-3/M82	0.68961	0.378
2-1-1/M82	0.99148	1
2-1/M82	1.00069	1
2-6/M82	0.66442	1
3-2/M82	0.48794	0.752
4-1-1/M82	0.41588	1
4-1/M82	0.6677
4-3-2/M82	0.37813	0.487
4-3/M82	0.2517	0.388
5-3/M82	1.28361	1
6-2/M82	0.48964
6-3/M82	N/A	N/A
7-1/M82	1.01348	1
7-2/M82	0.63357	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91581	0.321
IL2-6/WTpooled	1.03485	1
IL7-5/WTpooled	0.88579	1
IL7-3/WTpooled	0.88949	0.418
IL12-4/WTpooled	1.05566	0.695
IL1-4/WTpooled	0.92858	0.699
WT/WTpooled	1.02969	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	1.58772	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10751	0.921
DC3000/delta hrp 6h	1.17581	1
DC3000/delta hrp 12h	0.8943	1
DC3000/delta hrp 24h	1.13587

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	1.62707	0.079

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.29841	1
Exp 36h	1.6647	0.489
Exp 60h	1.91289	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0775	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.92737	0.856
Var 12h NI row2-row1	2.82539	0.649
Var 36h I row2-row1	1.37128	0.489
Var 36h NI row2-row1	0.77958	0.61
Var 60h I row2-row1	1.06451	1
Var 60h NI row2-row1	1.08802	1
Time course 0hI-0hNI	1.10159	0.719
Time course 12hI-12hNI	1.1675	0.615
Time course 36hI-36hNI	3.41354	0.005
Time course 60hI-60hNI	4.55077	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)	0.9298	0.409
transgenic ySAMdc/azygous control (breaker)	3.1807	0.248
transgenic ySAMdc/azygous control (red)	1.53319	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.26094	0.066

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5404	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2942	1
Manapal/WT (break)	1.045	1
Manapal/WT (red)	0.94308	0.728