Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.4.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99342	0.891
27DAP/17DAP	0.91924	0.833
39DAP/27DAP	1.13656	0.796
41DAP/39DAP	1.18873	0.498
42DAP/41DAP	1.09409	0.877
43DAP/42DAP	0.97385	0.91
47DAP/43DAP	1.12043	0.746
52DAP/47DAP	0.75342	0.499
57DAP/52DAP	1.16369	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88955	0.075
17DAP/reference	0.91299	0.158
27DAP/reference	1.19212	0.156
39DAP/reference	1.04702	0.465
41DAP/reference	0.99449	0.814
42DAP/reference	0.99803	0.567
43DAP/reference	1.17834	0.014
47DAP/reference	1.27362	0.002
52DAP/reference	1.2392	0.019
57DAP/reference	1.20583	0.05

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14959	0.422
27DAP/17DAP	1.10816	0.724
39DAP/27DAP	1.02578	1
41DAP/39DAP	0.91343	0.68
42DAP/41DAP	1.01295	0.773
43DAP/42DAP	1.10114	0.788
47DAP/43DAP	1.05136	0.853
52DAP/47DAP	1.05451	0.862
57DAP/52DAP	1.39036	0.289
57DAP/7DAP	0.80254	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00665	1
17DAP/reference	1.07849	0.754
27DAP/reference	1.01254	1
39DAP/reference	1.35592	0.069
41DAP/reference	1.19976	0.057
42DAP/reference	1.41557	0.018
43DAP/reference	1.17748	0.083
47DAP/reference	1.19008	0.187
52DAP/reference	1.04951	0.781
57DAP/reference	0.99828	0.53

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92934	0.487
17DAP/reference	0.77883	0.075
27DAP/reference	0.88617	0.15
39DAP/reference	0.78377	0.074
41DAP/reference	0.93639	0.331
42DAP/reference	0.92517	0.169
43DAP/reference	0.76808	0.019
47DAP/reference	0.91637	0.133
52DAP/reference	0.87227	0.047
57DAP/reference	0.78307	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94958	0.391
17DAP/reference	0.89283	0.217
27DAP/reference	0.94568	0.416
39DAP/reference	1.12537	0.496
41DAP/reference	0.96473	0.512
42DAP/reference	1.12896	0.327
43DAP/reference	1.12911	0.229
47DAP/reference	1.02503	0.754
52DAP/reference	1.02919	0.89
57DAP/reference	1.11037	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14659	0.966
26DAP/20DAP	2.56417	0.097
34DAP/26DAP	0.46173	0.046
51DAP/34DAP	1.99148	0.033
52DAP/51DAP	0.79917	1
53DAP/52DAP	1.31436	0.458
55DAP/53DAP	0.913	0.515
57DAP/55DAP	0.89203	0.568
62DAP/57DAP	0.80424	0.871
68DAP/62DAP	1.24784	0.145
68DAP/14DAP	1.37097	0.453

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13825	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95651	0.635
Mature Green Tomato/Ripe Tomato	1.47846	1
Immature Eggplant/Mature Eggplant	1.38625	0.05
Ripe Pepper/Ripe Tomato	0.79988	0.293
Mature Eggplant/Ripe Tomato	1.06312	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.5188	0.591
1-1-2/M82	1.22372	0.977
12-2/M82	0.87111	0.955
12-4/M82	1.05738	1
1-3/M82	1.65278	0.248
2-1-1/M82	1.10239	0.764
2-1/M82	1.21275
2-6/M82	0.93361	1
3-2/M82	1.82407
4-1-1/M82	0.93834	1
4-1/M82	1.04064
4-3-2/M82	1.16042	0.284
4-3/M82	1.15086	1
5-3/M82	1.17282	0.496
6-2/M82	1.12132
6-3/M82	0.96959	1
7-1/M82	0.85431	0.476
7-2/M82	1.26307
9-3-2/M82	1.32418	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9747	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.887	1
IL12-4/WTpooled	0.94227	1
IL1-4/WTpooled	1.48101
WT/WTpooled	1.03281	0.874

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	1.07766	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99674	1
DC3000/delta hrp 6h	0.90709	0.95
DC3000/delta hrp 12h	0.91498	1
DC3000/delta hrp 24h	1.0457	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28924	0.042
DC3000 delta B/DC3000 delta AB	1.15008	0.249

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06652	1
Exp 36h	1.42138	0.693
Exp 60h	1.3467	0.399

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	0.82714
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)	0.99879	1
transgenic ySAMdc/azygous control (breaker)	0.78365	0.131
transgenic ySAMdc/azygous control (red)	1.1068	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16166	0.037

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.48459	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76092	0.172
Manapal/WT (break)	0.76204	0.333
Manapal/WT (red)	0.83625	0.242