Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.2.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.44528	0.078
27DAP/17DAP	0.568	0.029
39DAP/27DAP	0.55388	0.315
41DAP/39DAP	0.81759	0.325
42DAP/41DAP	0.7652	0.774
43DAP/42DAP	1.20171	0.848
47DAP/43DAP	0.88081	0.603
52DAP/47DAP	0.76476	0.421
57DAP/52DAP	1.02862	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.54297	0.028
17DAP/reference	0.34558	0.007
27DAP/reference	0.34263	0.011
39DAP/reference	0.33502	0.01
41DAP/reference	0.27266	0.008
42DAP/reference	0.41783	0.001
43DAP/reference	0.32357	0.012
47DAP/reference	0.36366	0.001
52DAP/reference	0.3608	0.013
57DAP/reference	0.48152	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18612	0.736
27DAP/17DAP	0.71804	0.279
39DAP/27DAP	0.45333	0.035
41DAP/39DAP	1.47808	0.304
42DAP/41DAP	1.05461	0.87
43DAP/42DAP	0.79998	0.137
47DAP/43DAP	1.00633	1
52DAP/47DAP	1.36063	0.619
57DAP/52DAP	0.71118	0.451
57DAP/7DAP	0.32693	0.143

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64464	0.056
17DAP/reference	0.48038	0.011
27DAP/reference	0.42663	0.01
39DAP/reference	0.36019	0.011
41DAP/reference	0.38308	0.009
42DAP/reference	0.34677	0.01
43DAP/reference	0.34652	0.009
47DAP/reference	0.33797	0.026
52DAP/reference	0.3532	0.009
57DAP/reference	0.29205	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.38407	0.005
17DAP/reference	0.50539	0.005
27DAP/reference	0.60874	0.039
39DAP/reference	0.36076	0.01
41DAP/reference	0.43562	0.007
42DAP/reference	0.44184	0.021
43DAP/reference	0.23827	0.002
47DAP/reference	0.40584	0.007
52DAP/reference	0.2932	0.003
57DAP/reference	0.28488	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0297	1
17DAP/reference	1.20493	0.347
27DAP/reference	0.73971	0.05
39DAP/reference	0.56081	0.008
41DAP/reference	0.51899	0.018
42DAP/reference	0.46687	0.019
43DAP/reference	0.42745	0.016
47DAP/reference	0.31581	0.004
52DAP/reference	0.27794	0.032
57DAP/reference	0.83229	0.203

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13706	0.966
26DAP/20DAP	1.31111	0.663
34DAP/26DAP	0.97256	0.97
51DAP/34DAP	0.54533	0.057
52DAP/51DAP	0.80949	1
53DAP/52DAP	0.96394	0.868
55DAP/53DAP	1.03714	0.775
57DAP/55DAP	2.06006	0.927
62DAP/57DAP	0.97284	0.994
68DAP/62DAP	1.03524	0.984
68DAP/14DAP	0.70973	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.35389	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.84827	0.058
Mature Green Tomato/Ripe Tomato	8.92364	0.015
Immature Eggplant/Mature Eggplant	0.37508	0.057
Ripe Pepper/Ripe Tomato	9.27835	1
Mature Eggplant/Ripe Tomato	24.3216	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.94547	1
12-2/M82	0.67145	0.727
12-4/M82	0.9535
1-3/M82	0.55783
2-1-1/M82	1.10393
2-1/M82	N/A	N/A
2-6/M82	0.96535	1
3-2/M82	0.99589	1
4-1-1/M82	1.16016
4-1/M82	N/A	N/A
4-3-2/M82	0.93552
4-3/M82	N/A	N/A
5-3/M82	1.26871	1
6-2/M82	0.46084
6-3/M82	0.95754
7-1/M82	1.05962
7-2/M82	0.80646	0.54
9-3-2/M82	1.08938

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89843	0.321
IL2-6/WTpooled	0.94053	1
IL7-5/WTpooled	1.63467
IL7-3/WTpooled	1.28454	1
IL12-4/WTpooled	0.82965	0.71
IL1-4/WTpooled	1.04978	1
WT/WTpooled	0.91169	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	0.96916	0.95
DC3000/delta hrp 12h	1.26556	1
DC3000/delta hrp 24h	0.96101	0.67

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.29946	0.024
DC3000 delta B/DC3000 delta AB	2.57006

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01389	1
Exp 36h	0.87024	0.749
Exp 60h	0.78703	0.522

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	N/A	N/A
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)	0.95549	0.722
transgenic ySAMdc/azygous control (breaker)	2.0314	0.172
transgenic ySAMdc/azygous control (red)	1.09452	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.42635	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.16504	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	27.6418	0.083
Manapal/WT (break)	3.71837	0.123
Manapal/WT (red)	1.94617	1