Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.20.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.43524	0.414
27DAP/17DAP	1.52916	0.793
39DAP/27DAP	1.65673	0.56
41DAP/39DAP	0.98654	0.962
42DAP/41DAP	0.52385	0.262
43DAP/42DAP	1.52334	1
47DAP/43DAP	0.97823	0.66
52DAP/47DAP	1.00926	0.959
57DAP/52DAP	1.61735	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81865	0.058
17DAP/reference	0.95935	0.368
27DAP/reference	0.90417	0.208
39DAP/reference	1.06562	0.445
41DAP/reference	0.7543	0.201
42DAP/reference	0.86903	0.027
43DAP/reference	1.0195	0.866
47DAP/reference	0.90069	0.025
52DAP/reference	0.85873	0.082
57DAP/reference	1.0157	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	3.04263	0.196
27DAP/17DAP	1.10339	0.905
39DAP/27DAP	0.82021	0.222
41DAP/39DAP	1.60485	0.362
42DAP/41DAP	0.69834	0.037
43DAP/42DAP	0.53911	0.065
47DAP/43DAP	1.4027	0.492
52DAP/47DAP	0.98284	0.925
57DAP/52DAP	1.31409	0.933
57DAP/7DAP	1.20082	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87684	0.07
17DAP/reference	0.82984	0.018
27DAP/reference	0.76149	0.01
39DAP/reference	0.75893	0.027
41DAP/reference	0.66808	0.018
42DAP/reference	0.74993	0.013
43DAP/reference	0.68977	0.011
47DAP/reference	0.88807	0.293
52DAP/reference	0.76531	0.02
57DAP/reference	0.74315	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90097	0.17
17DAP/reference	0.87482	0.07
27DAP/reference	0.80566	0.031
39DAP/reference	0.78806	0.043
41DAP/reference	0.87084	0.083
42DAP/reference	0.74764	0.012
43DAP/reference	1.06268	1
47DAP/reference	0.875	0.042
52DAP/reference	0.87593	0.086
57DAP/reference	0.93476	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83882	0.044
17DAP/reference	0.92454	0.358
27DAP/reference	0.7978	0.081
39DAP/reference	0.78062	0.008
41DAP/reference	0.85983	0.07
42DAP/reference	0.87121	0.287
43DAP/reference	0.93914	0.384
47DAP/reference	0.95829	0.286
52DAP/reference	0.86733	0.303
57DAP/reference	0.86273	0.138

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07562	0.966
26DAP/20DAP	0.92312	1
34DAP/26DAP	1.13875	0.819
51DAP/34DAP	1.21432
52DAP/51DAP	0.97462	1
53DAP/52DAP	0.68311	0.242
55DAP/53DAP	1.0733	0.938
57DAP/55DAP	0.67748	0.333
62DAP/57DAP	0.73934	0.162
68DAP/62DAP	1.15664	0.869
68DAP/14DAP	1.00185	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.39864	0.055

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.35905	0.094
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.1332	0.05
Ripe Pepper/Ripe Tomato	4.49243	0.256
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	0.76878	0.243
IL2-6/WTpooled	1.38211	0.415
IL7-5/WTpooled	0.91985	1
IL7-3/WTpooled	1.06887	1
IL12-4/WTpooled	1.31901	0.538
IL1-4/WTpooled	0.93354	0.834
WT/WTpooled	1.03272	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	1.95138	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.5457
DC3000/delta hrp 6h	0.62627
DC3000/delta hrp 12h	1.37792	1
DC3000/delta hrp 24h	0.89244

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.19671	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.3617	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.69878	0.736
Var 12h NI row2-row1	1.45027	1
Var 36h I row2-row1	0.61413
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	1.1591	1
Var 60h NI row2-row1	0.92264	1
Time course 0hI-0hNI	1.48205	0.719
Time course 12hI-12hNI	2.81492	0.854
Time course 36hI-36hNI	1.66283	0.651
Time course 60hI-60hNI	0.93769	0.359

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)	0.95063	0.338
transgenic ySAMdc/azygous control (breaker)	0.96886	0.131
transgenic ySAMdc/azygous control (red)	0.88601	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15466	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87181	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69222	1
Manapal/WT (break)	0.90703	1
Manapal/WT (red)	0.83334	0.315