Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2326	0.485
27DAP/17DAP	1.24193	0.749
39DAP/27DAP	0.81642	0.425
41DAP/39DAP	0.98101	0.837
42DAP/41DAP	0.90586	1
43DAP/42DAP	1.24444	0.772
47DAP/43DAP	1.09813	0.999
52DAP/47DAP	0.85372	0.612
57DAP/52DAP	1.03398	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90778	0.211
17DAP/reference	1.05138	0.442
27DAP/reference	1.0798	0.135
39DAP/reference	0.98047	0.663
41DAP/reference	1.06084	0.759
42DAP/reference	0.88047	0.004
43DAP/reference	1.00858	0.942
47DAP/reference	0.98804	0.473
52DAP/reference	0.91873	0.275
57DAP/reference	1.21684	0.032

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2575	0.445
27DAP/17DAP	1.03806	1
39DAP/27DAP	1.00886	0.874
41DAP/39DAP	1.45114	0.084
42DAP/41DAP	1.14131	0.752
43DAP/42DAP	0.74667	0.029
47DAP/43DAP	1.01986	1
52DAP/47DAP	1.05824	0.868
57DAP/52DAP	1.14191	0.547
57DAP/7DAP	1.26589	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82052	0.047
17DAP/reference	0.93743	0.015
27DAP/reference	0.86728	0.01
39DAP/reference	0.90299	0.095
41DAP/reference	0.8766	0.107
42DAP/reference	0.90081	0.01
43DAP/reference	0.94953	0.03
47DAP/reference	0.90698	0.293
52DAP/reference	0.77411	0.012
57DAP/reference	0.9278	0.123

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87812	0.152
17DAP/reference	0.84868	0.022
27DAP/reference	0.83311	0.067
39DAP/reference	0.8006	0.077
41DAP/reference	0.83156	0.094
42DAP/reference	0.91407	0.237
43DAP/reference	1.04579	0.854
47DAP/reference	1.06844	0.332
52DAP/reference	0.99009	0.619
57DAP/reference	0.88528	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91404	0.087
17DAP/reference	0.95981	0.579
27DAP/reference	0.98048	0.516
39DAP/reference	0.93357	0.076
41DAP/reference	0.89387	0.022
42DAP/reference	0.82083	0.087
43DAP/reference	0.80253	0.025
47DAP/reference	0.9984	0.708
52DAP/reference	0.97488	0.65
57DAP/reference	0.90495	0.217

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11188	0.966
26DAP/20DAP	1.17234	0.647
34DAP/26DAP	1.31766	1
51DAP/34DAP	1.11591	0.666
52DAP/51DAP	1.03266	1
53DAP/52DAP	1.38812	0.166
55DAP/53DAP	1.05211	0.927
57DAP/55DAP	1.40539	0.51
62DAP/57DAP	1.001	1
68DAP/62DAP	1.20602	0.899
68DAP/14DAP	0.71041	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8478	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.94813	0.569
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.86204
Mature Eggplant/Ripe Tomato	0.6925	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.02549	1
12-2/M82	1.03181
12-4/M82	0.64394
1-3/M82	0.75545
2-1-1/M82	0.86585
2-1/M82	N/A	N/A
2-6/M82	0.85346	1
3-2/M82	0.773
4-1-1/M82	0.69885
4-1/M82	0.99968	1
4-3-2/M82	0.8164	0.698
4-3/M82	N/A	N/A
5-3/M82	0.89109	1
6-2/M82	0.52623
6-3/M82	N/A	N/A
7-1/M82	0.97489
7-2/M82	0.88247	0.434
9-3-2/M82	0.96108	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.07148	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.87702	0.418
IL12-4/WTpooled	0.90365	0.581
IL1-4/WTpooled	0.84728	0.415
WT/WTpooled	1.00583	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	0.93632	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97696	1
DC3000/delta hrp 6h	0.95968	0.95
DC3000/delta hrp 12h	1.05353	1
DC3000/delta hrp 24h	1.09703	0.535

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	1.08614
Var 0h	0.85508	0.196
Var 12h I row2-row1	0.88298	0.77
Var 12h NI row2-row1	0.94844	0.36
Var 36h I row2-row1	1.14859	0.908
Var 36h NI row2-row1	0.83809	0.584
Var 60h I row2-row1	0.94119	0.292
Var 60h NI row2-row1	0.74385	1
Time course 0hI-0hNI	1.0302	0.662
Time course 12hI-12hNI	0.82361	0.393
Time course 36hI-36hNI	1.33828	0.011
Time course 60hI-60hNI	1.4282	0.019

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)	0.9015	0.286
transgenic ySAMdc/azygous control (breaker)	1.07649	1
transgenic ySAMdc/azygous control (red)	1.03781	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9864	0.256

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96466	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09978	1
Manapal/WT (break)	0.84377	1
Manapal/WT (red)	0.986	0.863