Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.1.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	3.08416	0.755
27DAP/17DAP	1.40642	0.881
39DAP/27DAP	1.16935	1
41DAP/39DAP	1.01743	0.949
42DAP/41DAP	0.99888	1
43DAP/42DAP	1.69619	0.968
47DAP/43DAP	0.75524	0.298
52DAP/47DAP	1.0282	0.746
57DAP/52DAP	0.80147	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25002	0.057
17DAP/reference	1.66469	0.055
27DAP/reference	1.22507	0.271
39DAP/reference	1.16415
41DAP/reference	1.53216	0.203
42DAP/reference	1.13561	0.276
43DAP/reference	0.87005
47DAP/reference	1.42241	0.003
52DAP/reference	N/A	N/A
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80833	0.062
27DAP/17DAP	1.7436	0.885
39DAP/27DAP	N/A	N/A
41DAP/39DAP	2.20435
42DAP/41DAP	1.22737	0.773
43DAP/42DAP	1.17205
47DAP/43DAP	0.67349
52DAP/47DAP	1.55696	0.57
57DAP/52DAP	1.14216	0.806
57DAP/7DAP	0.88839

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	5.76535	0.024
17DAP/reference	3.01982	0.006
27DAP/reference	1.38946	0.035
39DAP/reference	5.26304	0.005
41DAP/reference	2.27684	0.011
42DAP/reference	2.10766	0.024
43DAP/reference	2.06167	0.012
47DAP/reference	2.46831	0.015
52DAP/reference	1.18937	0.328
57DAP/reference	1.19674	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20743	0.885
17DAP/reference	2.62261	0.028
27DAP/reference	2.04142	0.015
39DAP/reference	2.04404	0.011
41DAP/reference	1.58042	0.025
42DAP/reference	2.06342	0.016
43DAP/reference	1.69312	0.119
47DAP/reference	1.7876	0.01
52DAP/reference	2.16344	0.065
57DAP/reference	2.28376	0.182

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.74851	0.017
17DAP/reference	2.71442	0.093
27DAP/reference	1.94378	0.013
39DAP/reference	3.47001	0.005
41DAP/reference	2.64138	0.006
42DAP/reference	1.71235	0.032
43DAP/reference	1.56952	0.032
47DAP/reference	0.99244	0.626
52DAP/reference	1.50639	0.908
57DAP/reference	1.09075	0.858

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.75271	0.807
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.26992	0.819
51DAP/34DAP	3.95083	0.054
52DAP/51DAP	0.96036	1
53DAP/52DAP	2.16026	0.58
55DAP/53DAP	0.49203
57DAP/55DAP	0.98073	0.927
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03769	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.6928
Mature Eggplant/Ripe Tomato	3.99775	0.268

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	1.20354	0.277
IL2-6/WTpooled	0.37465
IL7-5/WTpooled	0.96218	1
IL7-3/WTpooled	1.10185	1
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.03138	1
WT/WTpooled	1.27874	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	1.00594	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A

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	N/A	N/A
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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.70274	0.242