Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.15.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95186	0.779
27DAP/17DAP	0.98092	1
39DAP/27DAP	0.93054	0.67
41DAP/39DAP	1.1223	0.202
42DAP/41DAP	1.20339	0.85
43DAP/42DAP	1.30164	0.793
47DAP/43DAP	0.75237	0.286
52DAP/47DAP	1.4844	0.772
57DAP/52DAP	1.11626	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01133	0.994
17DAP/reference	1.16516	0.017
27DAP/reference	1.09697	0.111
39DAP/reference	1.0963	0.061
41DAP/reference	1.18492	0.041
42DAP/reference	0.96942	0.188
43DAP/reference	1.00337	1
47DAP/reference	0.95801	0.224
52DAP/reference	0.93219	0.3
57DAP/reference	0.96451	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25022	0.525
27DAP/17DAP	0.81682	0.508
39DAP/27DAP	0.98312	0.919
41DAP/39DAP	1.04314	1
42DAP/41DAP	1.03194	0.812
43DAP/42DAP	1.32405	0.014
47DAP/43DAP	1.15511	0.708
52DAP/47DAP	1.23202	0.38
57DAP/52DAP	1.4483	0.192
57DAP/7DAP	1.17705	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05981	0.691
17DAP/reference	0.97817	0.447
27DAP/reference	1.01328	0.974
39DAP/reference	1.13648	0.114
41DAP/reference	1.03797	0.678
42DAP/reference	1.10519	0.174
43DAP/reference	1.06878	0.273
47DAP/reference	0.95397	0.383
52DAP/reference	1.0763	0.599
57DAP/reference	1.03568	0.67

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98043	0.706
17DAP/reference	0.85994	0.075
27DAP/reference	0.78996	0.076
39DAP/reference	0.8903	0.178
41DAP/reference	0.86621	0.105
42DAP/reference	0.89528	0.169
43DAP/reference	0.93652	0.336
47DAP/reference	1.08835	0.059
52DAP/reference	0.95052	0.187
57DAP/reference	0.95617	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0628	0.644
17DAP/reference	1.13993	0.427
27DAP/reference	1.09713	0.143
39DAP/reference	0.94084	0.179
41DAP/reference	1.03558	0.796
42DAP/reference	0.92672	0.361
43DAP/reference	0.92021	0.305
47DAP/reference	0.98249	0.538
52DAP/reference	0.9965	0.854
57DAP/reference	0.88494	0.158

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02417	0.966
26DAP/20DAP	1.23053	0.293
34DAP/26DAP	1.24485	1
51DAP/34DAP	1.15477	0.293
52DAP/51DAP	1.16371	0.358
53DAP/52DAP	0.75663	0.221
55DAP/53DAP	1.24219	0.452
57DAP/55DAP	0.96624	0.731
62DAP/57DAP	0.99225	0.994
68DAP/62DAP	1.06692	0.971
68DAP/14DAP	0.70133	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78016	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.20997	0.113
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.30262	0.363
Ripe Pepper/Ripe Tomato	0.86883
Mature Eggplant/Ripe Tomato	1.43925

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.30416
12-2/M82	N/A	N/A
12-4/M82	0.77632	0.358
1-3/M82	0.94112
2-1-1/M82	0.95242	0.92
2-1/M82	1.16766	1
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	N/A	N/A
4-3/M82	1.33507	1
5-3/M82	1.08357	1
6-2/M82	N/A	N/A
6-3/M82	1.12104	1
7-1/M82	1.03808	1
7-2/M82	0.9745	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	0.78402
IL2-6/WTpooled	1.07099	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.80819	1
IL12-4/WTpooled	1.13408	0.737
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.90753	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	0.86897	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.17896	1
DC3000/delta hrp 12h	1.07806	1
DC3000/delta hrp 24h	1.86956	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12545	1
Exp 36h	N/A	N/A
Exp 60h	1.12315	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.64866
Var 0h	1.24533	0.216
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	1.92674	0.281
Var 36h I row2-row1	0.93766
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.16744	1
Time course 0hI-0hNI	1.47504	0.833
Time course 12hI-12hNI	1.13927	0.703
Time course 36hI-36hNI	2.04538	0.401
Time course 60hI-60hNI	1.33447	0.022

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)	0.86339	0.324
transgenic ySAMdc/azygous control (breaker)	1.37546	0.248
transgenic ySAMdc/azygous control (red)	1.00903	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97718	0.393

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19445	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.74807	0.333
Manapal/WT (red)	0.84316	0.181