Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.20.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78847	0.503
27DAP/17DAP	1.70336	0.738
39DAP/27DAP	0.78023	0.544
41DAP/39DAP	1.16471	0.894
42DAP/41DAP	0.99099	1
43DAP/42DAP	1.03411	0.912
47DAP/43DAP	1.68155	0.216
52DAP/47DAP	1.17255	0.856
57DAP/52DAP	1.39051	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65645	0.058
17DAP/reference	0.54789	0.01
27DAP/reference	0.5065	0.012
39DAP/reference	0.63067	0.034
41DAP/reference	0.70775	0.026
42DAP/reference	1.36838	0.001
43DAP/reference	1.25752
47DAP/reference	1.91653	0.071
52DAP/reference	0.79567	0.115
57DAP/reference	0.86051

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.95362	0.184
27DAP/17DAP	0.94702	0.878
39DAP/27DAP	0.8355	0.344
41DAP/39DAP	1.16011	0.817
42DAP/41DAP	0.66013	0.019
43DAP/42DAP	1.02839	0.774
47DAP/43DAP	1.48213	0.765
52DAP/47DAP	1.30843	0.776
57DAP/52DAP	1.43437	0.504
57DAP/7DAP	1.18673	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71318	0.072
17DAP/reference	0.8178	0.056
27DAP/reference	0.76251	0.017
39DAP/reference	0.56443	0.011
41DAP/reference	0.61202	0.018
42DAP/reference	0.63818	0.03
43DAP/reference	1.03537	0.421
47DAP/reference	0.80867	0.128
52DAP/reference	0.77908	0.097
57DAP/reference	0.84075	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74907	0.029
17DAP/reference	0.52534	0.003
27DAP/reference	0.62016	0.087
39DAP/reference	0.61086	0.037
41DAP/reference	0.56398	0.061
42DAP/reference	0.82649	0.189
43DAP/reference	0.72821	0.09
47DAP/reference	0.80838	0.154
52DAP/reference	0.51146	0.004
57DAP/reference	0.71885	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.60196	0.044
17DAP/reference	0.71048	0.121
27DAP/reference	0.79771	0.055
39DAP/reference	0.80549	0.012
41DAP/reference	0.78585	0.055
42DAP/reference	0.93952	0.361
43DAP/reference	1.0836	0.867
47DAP/reference	2.39891	0.004
52DAP/reference	2.31642	0.04
57DAP/reference	0.9002	0.41

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21228	0.966
26DAP/20DAP	1.61818	0.683
34DAP/26DAP	1.29875	1
51DAP/34DAP	1.2468	0.706
52DAP/51DAP	0.87057	1
53DAP/52DAP	1.08273	0.901
55DAP/53DAP	0.90612	0.619
57DAP/55DAP	1.31324	0.947
62DAP/57DAP	0.90225	0.681
68DAP/62DAP	1.99405	0.047
68DAP/14DAP	1.74882	0.031

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70467	0.062

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	0.22072
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	0.86327
12-2/M82	N/A	N/A
12-4/M82	1.21778
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	0.78402
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	1.37745
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	0.95152	0.321
IL2-6/WTpooled	0.82257	1
IL7-5/WTpooled	1.27565	0.792
IL7-3/WTpooled	0.98337	1
IL12-4/WTpooled	1.06079	0.839
IL1-4/WTpooled	1.04371	1
WT/WTpooled	1.05142	0.957

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	0.98758	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88049	1
DC3000/delta hrp 6h	1.41759
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	2.50091

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	0.90254	0.855

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.00622	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.11409	0.654
Var 12h NI row2-row1	1.43451	1
Var 36h I row2-row1	1.03306	1
Var 36h NI row2-row1	0.97511	0.791
Var 60h I row2-row1	1.06903	1
Var 60h NI row2-row1	1.45943	0.904
Time course 0hI-0hNI	0.86994	0.157
Time course 12hI-12hNI	1.00764	1
Time course 36hI-36hNI	0.95098	0.433
Time course 60hI-60hNI	0.31438	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)	0.73991	0.324
transgenic ySAMdc/azygous control (breaker)	0.7409	0.173
transgenic ySAMdc/azygous control (red)	1.28338	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18656	0.086

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88218	0.308

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)	1.20685	1