Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.14.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.75436	0.697
27DAP/17DAP	0.24441	0.039
39DAP/27DAP	1.14224	0.82
41DAP/39DAP	1.80451	0.938
42DAP/41DAP	1.59106	0.903
43DAP/42DAP	1.46237	1
47DAP/43DAP	1.17319	0.769
52DAP/47DAP	1.77754	0.496
57DAP/52DAP	1.03698	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75253	0.024
17DAP/reference	0.63061	0.012
27DAP/reference	0.83175
39DAP/reference	0.52865	0.025
41DAP/reference	0.89302	0.667
42DAP/reference	0.92869	0.315
43DAP/reference	0.77912
47DAP/reference	0.91581	0.568
52DAP/reference	1.19304	1
57DAP/reference	0.79903

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22171	1
27DAP/17DAP	1.23474	0.943
39DAP/27DAP	0.95415	0.925
41DAP/39DAP	1.52183
42DAP/41DAP	0.97907	0.69
43DAP/42DAP	0.62933	0.051
47DAP/43DAP	0.85538	0.637
52DAP/47DAP	1.34677	0.301
57DAP/52DAP	0.55209
57DAP/7DAP	0.77964	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.50848	0.07
17DAP/reference	0.4269	0.011
27DAP/reference	0.47047	0.01
39DAP/reference	0.47492	0.011
41DAP/reference	0.53977	0.023
42DAP/reference	0.47574	0.01
43DAP/reference	0.36302	0.011
47DAP/reference	0.84615	0.383
52DAP/reference	0.37895	0.011
57DAP/reference	0.28843	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76854	0.1
17DAP/reference	1.08893	0.924
27DAP/reference	2.00985	0.012
39DAP/reference	1.24428
41DAP/reference	1.6926	0.45
42DAP/reference	2.88558
43DAP/reference	0.64573	0.034
47DAP/reference	1.20018
52DAP/reference	1.86451	0.023
57DAP/reference	0.86242	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.476	0.039
17DAP/reference	0.8609	0.308
27DAP/reference	0.39654	0.022
39DAP/reference	0.62476	0.031
41DAP/reference	0.46708	0.018
42DAP/reference	0.66628	0.087
43DAP/reference	0.53007	0.016
47DAP/reference	0.95722	0.434
52DAP/reference	0.66282	0.137
57DAP/reference	1.14571	0.933

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00704	1
26DAP/20DAP	0.57664
34DAP/26DAP	0.85833	0.92
51DAP/34DAP	1.23443	0.814
52DAP/51DAP	1.04205	0.86
53DAP/52DAP	1.16584	0.858
55DAP/53DAP	2.0607	0.671
57DAP/55DAP	N/A	N/A
62DAP/57DAP	1.58012	0.902
68DAP/62DAP	2.65843
68DAP/14DAP	0.85717	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.44845

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	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	0.76401	0.321
IL2-6/WTpooled	1.10705	0.788
IL7-5/WTpooled	1.42012	0.75
IL7-3/WTpooled	1.2485	1
IL12-4/WTpooled	1.41347	0.52
IL1-4/WTpooled	0.96132	1
WT/WTpooled	1.04682	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	N/A	N/A
DC3000/delta hrp 12h	4.08417
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	1.10237	0.98
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)	N/A	N/A