Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12978	0.947
27DAP/17DAP	1.0252	1
39DAP/27DAP	1.28567	0.372
41DAP/39DAP	0.80973	0.317
42DAP/41DAP	0.92724	1
43DAP/42DAP	0.93167	0.841
47DAP/43DAP	0.96992	0.804
52DAP/47DAP	0.94767	0.789
57DAP/52DAP	1.22887	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92342	0.352
17DAP/reference	0.75708	0.021
27DAP/reference	1.13292	0.306
39DAP/reference	0.74663	0.018
41DAP/reference	0.64975	0.01
42DAP/reference	1.01112	0.484
43DAP/reference	0.92762	0.247
47DAP/reference	1.07415	0.674
52DAP/reference	1.66083	0.013
57DAP/reference	1.57759	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89361	0.376
27DAP/17DAP	1.10578	0.576
39DAP/27DAP	1.00105	1
41DAP/39DAP	1.08136	0.382
42DAP/41DAP	0.97423	0.759
43DAP/42DAP	0.85519	0.049
47DAP/43DAP	1.02736	0.892
52DAP/47DAP	0.86393	0.389
57DAP/52DAP	0.97072	0.745
57DAP/7DAP	0.70672	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08307	0.461
17DAP/reference	1.1138	0.574
27DAP/reference	1.30643	0.197
39DAP/reference	1.18654	0.222
41DAP/reference	1.16059	0.223
42DAP/reference	1.35741	0.059
43DAP/reference	1.08151	0.603
47DAP/reference	1.09783	0.561
52DAP/reference	1.60383	0.007
57DAP/reference	1.2521	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59161	0.011
17DAP/reference	0.62315	0.008
27DAP/reference	1.08932	1
39DAP/reference	1.31795	0.272
41DAP/reference	1.72809	0.01
42DAP/reference	1.43694	0.008
43DAP/reference	0.52291	0.011
47DAP/reference	0.89829	0.188
52DAP/reference	0.95068	0.28
57DAP/reference	0.50442	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16745	0.422
17DAP/reference	1.10731	0.918
27DAP/reference	1.24345	0.111
39DAP/reference	1.50938	0.064
41DAP/reference	1.57089	0.039
42DAP/reference	1.68809	0.084
43DAP/reference	2.32551	0.008
47DAP/reference	1.04726	0.667
52DAP/reference	1.69741	0.121
57DAP/reference	3.54583	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.79378	0.733
26DAP/20DAP	1.08956	1
34DAP/26DAP	1.31382	1
51DAP/34DAP	0.72755	0.102
52DAP/51DAP	0.73004	0.151
53DAP/52DAP	0.94818	0.83
55DAP/53DAP	0.75257	0.163
57DAP/55DAP	1.07109	0.831
62DAP/57DAP	0.88526	0.681
68DAP/62DAP	3.44573	0.091
68DAP/14DAP	4.06539	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.64597	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.35476	0.134
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.01043
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	1.48495
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	1.29741

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.38863
WT/WTpooled	N/A	N/A

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	1.24692	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93095	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.94316	1
DC3000/delta hrp 24h	1.20663	0.924

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.58983	0.229
DC3000 delta B/DC3000 delta AB	1.08487	0.694

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9539	1
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	0.9663	1
Var 0h	0.96299	0.933
Var 12h I row2-row1	0.98083	0.948
Var 12h NI row2-row1	1.13318	0.34
Var 36h I row2-row1	0.99219	1
Var 36h NI row2-row1	0.59825	0.361
Var 60h I row2-row1	0.94839	0.832
Var 60h NI row2-row1	0.76168	0.301
Time course 0hI-0hNI	0.87882	0.11
Time course 12hI-12hNI	1.01589	0.818
Time course 36hI-36hNI	1.28511	0.044
Time course 60hI-60hNI	1.46589	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)	1.21737	0.455
transgenic ySAMdc/azygous control (breaker)	0.92393	0.49
transgenic ySAMdc/azygous control (red)	1.05579	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04878	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.50813	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15985	0.09
Manapal/WT (break)	1.38144	0.13
Manapal/WT (red)	1.52092	1