Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09556	0.664
27DAP/17DAP	1.58558	0.62
39DAP/27DAP	1.78832	0.137
41DAP/39DAP	1.68536	0.159
42DAP/41DAP	4.59087	0.016
43DAP/42DAP	3.63864	0.88
47DAP/43DAP	1.25393	0.668
52DAP/47DAP	0.71723	0.319
57DAP/52DAP	1.20519	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11184	0.735
17DAP/reference	0.79334	0.029
27DAP/reference	1.10881	0.904
39DAP/reference	1.04417	0.108
41DAP/reference	0.81529	0.039
42DAP/reference	1.21306	0.008
43DAP/reference	0.81197
47DAP/reference	0.87673	0.258
52DAP/reference	1.21858	0.498
57DAP/reference	1.50852

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11269	0.934
27DAP/17DAP	1.00369	1
39DAP/27DAP	1.88225	0.044
41DAP/39DAP	0.59014	0.035
42DAP/41DAP	1.45314	0.005
43DAP/42DAP	2.5551	0.014
47DAP/43DAP	1.20876	0.036
52DAP/47DAP	1.27833	0.338
57DAP/52DAP	1.11406	0.79
57DAP/7DAP	1.84865	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.51802	0.063
17DAP/reference	0.46694	0.011
27DAP/reference	0.45593	0.01
39DAP/reference	0.57964	0.012
41DAP/reference	0.6367	0.018
42DAP/reference	0.83932	0.055
43DAP/reference	0.76347	0.024
47DAP/reference	0.86187	0.168
52DAP/reference	0.60508	0.011
57DAP/reference	0.46745	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73232	0.268
17DAP/reference	0.83746	0.113
27DAP/reference	1.36216	0.463
39DAP/reference	0.87728	0.159
41DAP/reference	1.16291	0.372
42DAP/reference	1.49642	0.038
43DAP/reference	0.97395	0.62
47DAP/reference	1.09502	0.867
52DAP/reference	0.9684	0.327
57DAP/reference	1.05028	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.53167	0.026
17DAP/reference	0.79226	0.275
27DAP/reference	0.55776	0.031
39DAP/reference	0.72069	0.046
41DAP/reference	0.59978	0.028
42DAP/reference	1.61098	0.007
43DAP/reference	1.37548	0.038
47DAP/reference	0.8277	0.161
52DAP/reference	1.34807	0.201
57DAP/reference	0.98743	0.765

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20324	0.966
26DAP/20DAP	0.66011	0.244
34DAP/26DAP	1.49212	1
51DAP/34DAP	1.09771	0.949
52DAP/51DAP	1.10643	0.733
53DAP/52DAP	0.9074	0.677
55DAP/53DAP	1.06672	1
57DAP/55DAP	1.27722	0.311
62DAP/57DAP	1.02334	1
68DAP/62DAP	1.05902	1
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	10.8672	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.06291	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.06906
Mature Eggplant/Ripe Tomato	0.0684	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10868	0.742
1-1-2/M82	1.11113	1
12-2/M82	1.26074	1
12-4/M82	2.57217	1
1-3/M82	2.48962	0.248
2-1-1/M82	1.21758	1
2-1/M82	1.33712	1
2-6/M82	1.46141	0.405
3-2/M82	1.14289	0.717
4-1-1/M82	1.99178	0.977
4-1/M82	1.26867	1
4-3-2/M82	2.36177	0.253
4-3/M82	1.23324	0.268
5-3/M82	0.94683	1
6-2/M82	2.02696	1
6-3/M82	1.09976	1
7-1/M82	0.83998	0.803
7-2/M82	1.31639	0.385
9-3-2/M82	2.31594	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20919	0.277
IL2-6/WTpooled	0.99927	1
IL7-5/WTpooled	0.83728	1
IL7-3/WTpooled	1.59756	1
IL12-4/WTpooled	1.21462	0.516
IL1-4/WTpooled	0.8979	0.476
WT/WTpooled	0.92517	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	1.43654	0.083

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10533	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.14033	0.271

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	1.00934	1

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	0.96944	1
Var 0h	0.2539
Var 12h I row2-row1	0.88636	0.77
Var 12h NI row2-row1	0.97558	0.82
Var 36h I row2-row1	1.0355	1
Var 36h NI row2-row1	0.87323	0.645
Var 60h I row2-row1	1.04263	1
Var 60h NI row2-row1	0.90743	0.866
Time course 0hI-0hNI	0.93783	0.501
Time course 12hI-12hNI	0.95044	0.329
Time course 36hI-36hNI	1.25253	0.019
Time course 60hI-60hNI	1.27733	0.033

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)	0.98884	1
transgenic ySAMdc/azygous control (red)	0.87061	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.17572	0.045

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.4306	0.239

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)	0.65469	0.181