Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11089	0.863
27DAP/17DAP	1.15922	0.833
39DAP/27DAP	1.16327	0.845
41DAP/39DAP	0.96481	0.789
42DAP/41DAP	1.2597	0.949
43DAP/42DAP	0.97502	0.918
47DAP/43DAP	0.99248	0.859
52DAP/47DAP	1.05949	0.941
57DAP/52DAP	0.93763	0.932

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12316	0.522
17DAP/reference	1.06194	0.077
27DAP/reference	0.96088	0.525
39DAP/reference	1.06537	0.664
41DAP/reference	1.06886	0.187
42DAP/reference	1.09776	0.231
43DAP/reference	0.99755	0.882
47DAP/reference	0.98243	0.473
52DAP/reference	1.01376	1
57DAP/reference	0.95779	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76697	0.363
27DAP/17DAP	1.03748	1
39DAP/27DAP	1.16607	0.453
41DAP/39DAP	1.29189	0.55
42DAP/41DAP	0.89457	0.374
43DAP/42DAP	1.34458	0.122
47DAP/43DAP	1.16731	0.822
52DAP/47DAP	1.16501	0.71
57DAP/52DAP	1.02611	0.804
57DAP/7DAP	1.08906	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9236	0.168
17DAP/reference	0.88791	0.144
27DAP/reference	0.89309	0.146
39DAP/reference	0.8275	0.049
41DAP/reference	0.79734	0.107
42DAP/reference	0.76742	0.016
43DAP/reference	0.83799	0.072
47DAP/reference	0.88168	0.128
52DAP/reference	0.98828	0.621
57DAP/reference	0.82711	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92831	0.296
17DAP/reference	0.96458	0.487
27DAP/reference	1.08707	0.66
39DAP/reference	0.9615	0.442
41DAP/reference	0.862	0.112
42DAP/reference	1.0385	1
43DAP/reference	1.43188	0.067
47DAP/reference	1.51798	0.008
52DAP/reference	1.05891	0.498
57DAP/reference	1.05596	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85128	0.068
17DAP/reference	0.96656	0.47
27DAP/reference	0.91943	0.184
39DAP/reference	1.01489	0.912
41DAP/reference	0.85152	0.058
42DAP/reference	0.93498	0.361
43DAP/reference	0.88326	0.092
47DAP/reference	0.91038	0.306
52DAP/reference	0.92407	0.505
57DAP/reference	1.00074	0.814

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06823	0.966
26DAP/20DAP	0.73823	1
34DAP/26DAP	0.88536	0.783
51DAP/34DAP	1.0528	0.927
52DAP/51DAP	1.09784	0.323
53DAP/52DAP	1.09076	0.797
55DAP/53DAP	1.0077	1
57DAP/55DAP	0.84612	0.596
62DAP/57DAP	0.99481	1
68DAP/62DAP	1.36098	0.089
68DAP/14DAP	1.90536	0.041

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.39978	0.151

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.16111	0.044
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.21533	0.224
Mature Eggplant/Ripe Tomato	0.51346	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.71052	0.581
1-1-2/M82	1.03489	1
12-2/M82	1.69011
12-4/M82	1.15215	0.611
1-3/M82	0.63356	0.378
2-1-1/M82	0.8846
2-1/M82	N/A	N/A
2-6/M82	0.87916
3-2/M82	0.89332
4-1-1/M82	0.89676	1
4-1/M82	1.03764	1
4-3-2/M82	1.15596
4-3/M82	N/A	N/A
5-3/M82	0.85576	0.364
6-2/M82	1.02002	1
6-3/M82	1.01616
7-1/M82	0.95285	1
7-2/M82	0.85938	0.881
9-3-2/M82	0.95258

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01618
IL2-6/WTpooled	0.96041
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.38783	1
IL12-4/WTpooled	1.0519	0.839
IL1-4/WTpooled	1.04794	1
WT/WTpooled	1.07199	0.777

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	1.14515	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03627	0.921
DC3000/delta hrp 6h	0.82474	0.95
DC3000/delta hrp 12h	1.08324	1
DC3000/delta hrp 24h	1.08757	0.182

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	1.1231	1
Exp 36h	1.06187	1
Exp 60h	0.95946	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96185	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.04605	0.795
Var 12h NI row2-row1	1.31392	0.649
Var 36h I row2-row1	0.98727	1
Var 36h NI row2-row1	0.70647	0.791
Var 60h I row2-row1	0.72698	0.285
Var 60h NI row2-row1	1.12894	0.904
Time course 0hI-0hNI	1.06253	0.451
Time course 12hI-12hNI	2.02002	0.004
Time course 36hI-36hNI	1.38091	0.031
Time course 60hI-60hNI	1.31827	0.009

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)	1.43997	0.261
transgenic ySAMdc/azygous control (breaker)	0.35645	0.119
transgenic ySAMdc/azygous control (red)	0.97136	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96832	0.371

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.67432	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.98366	0.09
Manapal/WT (break)	1.19831	1
Manapal/WT (red)	0.52303	0.229