Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.12.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33463	0.63
27DAP/17DAP	1.15158	0.849
39DAP/27DAP	1.05313	1
41DAP/39DAP	0.92143	0.727
42DAP/41DAP	0.98417	1
43DAP/42DAP	1.73538	0.593
47DAP/43DAP	1.28783	0.856
52DAP/47DAP	1.10481	0.915
57DAP/52DAP	1.09063	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26233	0.32
17DAP/reference	1.30401	0.022
27DAP/reference	1.29647	0.139
39DAP/reference	1.27905	0.076
41DAP/reference	1.7441	0.016
42DAP/reference	1.34816	0.015
43DAP/reference	1.09111	0.287
47DAP/reference	1.24022	0.065
52DAP/reference	1.19001	0.167
57DAP/reference	0.97465	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	0.75196	0.724
39DAP/27DAP	2.15565
41DAP/39DAP	N/A	N/A
42DAP/41DAP	1.23173	0.904
43DAP/42DAP	0.86273
47DAP/43DAP	1.37854	0.961
52DAP/47DAP	2.19453	0.213
57DAP/52DAP	1.06058
57DAP/7DAP	0.6822	0.157

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85638	0.078
17DAP/reference	0.76981	0.016
27DAP/reference	0.80394	0.02
39DAP/reference	0.7631	0.015
41DAP/reference	0.84205	0.067
42DAP/reference	0.73804	0.013
43DAP/reference	0.7396	0.017
47DAP/reference	0.90425	0.383
52DAP/reference	0.99031	0.621
57DAP/reference	0.93181	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26311	0.23
17DAP/reference	1.49089	0.015
27DAP/reference	1.49933	0.014
39DAP/reference	1.19327	0.048
41DAP/reference	1.3109	0.215
42DAP/reference	1.19013	0.094
43DAP/reference	1.47825	0.048
47DAP/reference	1.2898	0.008
52DAP/reference	1.33766	0.013
57DAP/reference	1.42948	0.119

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87762	0.127
17DAP/reference	1.02504	1
27DAP/reference	0.73591	0.062
39DAP/reference	1.0509	0.858
41DAP/reference	0.88507	0.264
42DAP/reference	1.04247	0.979
43DAP/reference	1.09407	0.935
47DAP/reference	1.06501	1
52DAP/reference	0.80618	0.238
57DAP/reference	0.76222	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21701	0.47
26DAP/20DAP	1.26657
34DAP/26DAP	1.12452
51DAP/34DAP	1.25656	0.869
52DAP/51DAP	0.71901
53DAP/52DAP	0.5598	0.066
55DAP/53DAP	0.57377	0.263
57DAP/55DAP	0.95139	0.819
62DAP/57DAP	0.95705	0.994
68DAP/62DAP	0.5444	0.126
68DAP/14DAP	0.87395	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.60692	0.496

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.15771
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	N/A	N/A
IL2-6/WTpooled	1.27355	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.92449	1
IL12-4/WTpooled	0.89446	1
IL1-4/WTpooled	1.34063
WT/WTpooled	0.92784	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	N/A	N/A

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	0.07442
DC3000/delta hrp 12h	1.10602	1
DC3000/delta hrp 24h	14.2399

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	1.07057	1
Exp 36h	1.00101	0.943
Exp 60h	0.64025	0.251

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	0.94686	1
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)	0.95919	0.722
transgenic ySAMdc/azygous control (breaker)	0.6867	0.15
transgenic ySAMdc/azygous control (red)	0.95058	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97399	0.459

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.32919	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27811	0.105
Manapal/WT (break)	1.11004	1
Manapal/WT (red)	N/A	N/A