Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.19.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90235	0.627
27DAP/17DAP	1.40054	0.629
39DAP/27DAP	1.1657	0.972
41DAP/39DAP	1.03707	0.905
42DAP/41DAP	0.99619	1
43DAP/42DAP	0.88305	0.829
47DAP/43DAP	1.15539	0.809
52DAP/47DAP	1.71742	0.268
57DAP/52DAP	1.19053	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87024	0.125
17DAP/reference	1.07946	0.27
27DAP/reference	1.16224	0.018
39DAP/reference	1.04959	0.514
41DAP/reference	1.0512	0.393
42DAP/reference	1.27191	0.001
43DAP/reference	1.24262	0.012
47DAP/reference	1.43899	0.001
52DAP/reference	1.07869	0.498
57DAP/reference	0.97048	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78065	0.109
27DAP/17DAP	0.99723	0.943
39DAP/27DAP	1.24131	0.471
41DAP/39DAP	1.63224	0.021
42DAP/41DAP	0.56185	0.007
43DAP/42DAP	1.18593	0.072
47DAP/43DAP	1.2329	0.276
52DAP/47DAP	1.92009	0.058
57DAP/52DAP	1.89707	0.03
57DAP/7DAP	2.07513

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83288	0.058
17DAP/reference	1.14829	0.627
27DAP/reference	1.07068	1
39DAP/reference	0.83214	0.17
41DAP/reference	0.80644	0.166
42DAP/reference	0.75676	0.046
43DAP/reference	1.0437	1
47DAP/reference	1.35244	0.048
52DAP/reference	1.10127	0.401
57DAP/reference	1.11769	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85802	0.176
17DAP/reference	1.06691	0.357
27DAP/reference	1.1036	0.516
39DAP/reference	1.22377	0.039
41DAP/reference	1.24975	0.012
42DAP/reference	1.14552	0.094
43DAP/reference	1.09164	0.977
47DAP/reference	1.0197	0.965
52DAP/reference	1.18551	0.009
57DAP/reference	1.09589	0.172

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84334	0.092
17DAP/reference	0.90573	0.162
27DAP/reference	1.13419	0.357
39DAP/reference	1.04848	0.437
41DAP/reference	0.98854	0.682
42DAP/reference	1.03959	0.893
43DAP/reference	1.08245	0.388
47DAP/reference	1.60402	0.005
52DAP/reference	1.966	0.158
57DAP/reference	1.19472	0.075

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85706	0.566
26DAP/20DAP	0.58536
34DAP/26DAP	1.07805	1
51DAP/34DAP	1.11736
52DAP/51DAP	0.93066	1
53DAP/52DAP	1.22991	0.054
55DAP/53DAP	1.04097	0.519
57DAP/55DAP	5.95969	0.826
62DAP/57DAP	0.86565	0.466
68DAP/62DAP	1.08006	1
68DAP/14DAP	1.39588	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.12711	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.34823	0.078
Mature Green Tomato/Ripe Tomato	0.38129	0.026
Immature Eggplant/Mature Eggplant	1.90013	0.05
Ripe Pepper/Ripe Tomato	3.31476	1
Mature Eggplant/Ripe Tomato	0.16785	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.00425
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	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.6056
4-3/M82	N/A	N/A
5-3/M82	0.33142
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	1.27606	0.277
IL2-6/WTpooled	0.68868
IL7-5/WTpooled	0.79124
IL7-3/WTpooled	1.05742
IL12-4/WTpooled	0.92415	1
IL1-4/WTpooled	1.19843	1
WT/WTpooled	1.01417	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	1.28294	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92	1
DC3000/delta hrp 6h	0.95144	0.95
DC3000/delta hrp 12h	0.96369	1
DC3000/delta hrp 24h	1.71467	0.057

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	2.26078	0.282

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26474	1
Exp 36h	1.14004	0.326
Exp 60h	1.45471	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02886	1
Var 0h	1.25137	1
Var 12h I row2-row1	1.26192	0.198
Var 12h NI row2-row1	1.80551	0.649
Var 36h I row2-row1	1.33084	0.489
Var 36h NI row2-row1	0.73046	0.482
Var 60h I row2-row1	0.91385	0.285
Var 60h NI row2-row1	0.77499	0.298
Time course 0hI-0hNI	0.94349	0.699
Time course 12hI-12hNI	2.46613	0.004
Time course 36hI-36hNI	3.801	0.004
Time course 60hI-60hNI	7.9168	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)	1.02935	0.482
transgenic ySAMdc/azygous control (breaker)	1.07882	1
transgenic ySAMdc/azygous control (red)	0.94619	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01848	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92814	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.21112	0.14
Manapal/WT (break)	1.08434	1
Manapal/WT (red)	0.61475	0.229