Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.15.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9765	0.511
27DAP/17DAP	6.33957	0.105
39DAP/27DAP	0.66481	0.397
41DAP/39DAP	1.2242	0.788
42DAP/41DAP	1.28023	0.722
43DAP/42DAP	0.82679	0.694
47DAP/43DAP	0.98718	0.828
52DAP/47DAP	2.12503	0.044
57DAP/52DAP	0.65087	0.39

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92663	0.109
17DAP/reference	0.96319	0.448
27DAP/reference	1.01504	0.934
39DAP/reference	0.96756	0.446
41DAP/reference	0.995	1
42DAP/reference	1.20431	0.001
43DAP/reference	0.98039	0.653
47DAP/reference	0.96332	0.224
52DAP/reference	0.89515	0.086
57DAP/reference	0.96298	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8848	0.442
27DAP/17DAP	1.03316	0.893
39DAP/27DAP	0.92504	0.279
41DAP/39DAP	1.52988	0.037
42DAP/41DAP	0.80353	0.074
43DAP/42DAP	1.36934	0.031
47DAP/43DAP	1.0486	0.857
52DAP/47DAP	2.21487	0.048
57DAP/52DAP	5.2994	0.029
57DAP/7DAP	7.54088	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00363	1
17DAP/reference	1.12928	0.014
27DAP/reference	0.94333	0.051
39DAP/reference	1.03681	0.601
41DAP/reference	1.09784	0.314
42DAP/reference	1.07198	0.686
43DAP/reference	1.43739	0.007
47DAP/reference	0.87517	0.057
52DAP/reference	0.95014	0.254
57DAP/reference	1.45883	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03125	0.62
17DAP/reference	1.06658	0.131
27DAP/reference	0.88154	0.188
39DAP/reference	0.89629	0.136
41DAP/reference	1.13849	0.157
42DAP/reference	0.95881	0.355
43DAP/reference	1.16243	0.144
47DAP/reference	1.11489	0.024
52DAP/reference	1.0612	0.098
57DAP/reference	1.14547	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99667	0.75
17DAP/reference	1.02126	0.784
27DAP/reference	1.09123	0.227
39DAP/reference	1.00314	0.889
41DAP/reference	0.99815	0.826
42DAP/reference	0.9369	0.287
43DAP/reference	1.13919	0.375
47DAP/reference	1.16107	0.06
52DAP/reference	1.08819	0.683
57DAP/reference	1.43779	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98859	1
26DAP/20DAP	0.89319	1
34DAP/26DAP	0.989	1
51DAP/34DAP	0.98084	0.799
52DAP/51DAP	1.14665	0.182
53DAP/52DAP	1.06424	0.662
55DAP/53DAP	0.97097	0.784
57DAP/55DAP	0.9412	0.724
62DAP/57DAP	1.1283	0.723
68DAP/62DAP	1.00866	0.885
68DAP/14DAP	1.29564	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49095	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.30857	0.018
Immature Eggplant/Mature Eggplant	0.61357	0.071
Ripe Pepper/Ripe Tomato	0.12205	0.224
Mature Eggplant/Ripe Tomato	0.42538	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96583	0.841
1-1-2/M82	0.85603	0.958
12-2/M82	1.14832
12-4/M82	0.83497	1
1-3/M82	0.76207
2-1-1/M82	0.97156	1
2-1/M82	N/A	N/A
2-6/M82	0.97792
3-2/M82	0.96312
4-1-1/M82	0.81514
4-1/M82	0.8625	1
4-3-2/M82	1.05455	1
4-3/M82	0.76809	0.551
5-3/M82	0.85864	0.49
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.13012	0.385
9-3-2/M82	0.73431	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01102	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.97531
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.90749	0.834
WT/WTpooled	N/A	N/A

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	0.97803	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07571	0.894
DC3000/delta hrp 6h	0.94668	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.9428	0.554

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01889
DC3000 delta B/DC3000 delta AB	0.95403	0.657

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	0.88143	0.754

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	1.04849	1
Var 12h I row2-row1	1.07973	0.613
Var 12h NI row2-row1	0.87131	0.82
Var 36h I row2-row1	0.90037	1
Var 36h NI row2-row1	0.9458	0.852
Var 60h I row2-row1	1.10545
Var 60h NI row2-row1	1.32591	0.904
Time course 0hI-0hNI	1.12019	0.63
Time course 12hI-12hNI	0.92897	0.435
Time course 36hI-36hNI	1.04901	0.316
Time course 60hI-60hNI	2.10195	0.053

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)	1.80769	0.511
transgenic ySAMdc/azygous control (breaker)	0.29245	0.142
transgenic ySAMdc/azygous control (red)	1.62022	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00999	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.3462	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.64335	0.172
Manapal/WT (break)	0.6756	1
Manapal/WT (red)	1.08448	1