Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.11.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0405	0.997
27DAP/17DAP	0.92423	0.879
39DAP/27DAP	1.02722	0.84
41DAP/39DAP	1.30043	0.153
42DAP/41DAP	1.20923	0.825
43DAP/42DAP	0.82974	0.787
47DAP/43DAP	1.00883	0.864
52DAP/47DAP	0.96797	0.837
57DAP/52DAP	1.05683	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83351	0.074
17DAP/reference	0.92751	0.448
27DAP/reference	1.09635	0.75
39DAP/reference	0.98634	0.75
41DAP/reference	0.83942	0.201
42DAP/reference	0.78765	0.002
43DAP/reference	0.95162	0.41
47DAP/reference	0.82273	0.019
52DAP/reference	0.88824	0.077
57DAP/reference	1.09741	0.355

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.5588	0.389
27DAP/17DAP	0.84866	0.227
39DAP/27DAP	1.16879	0.534
41DAP/39DAP	1.4629	0.284
42DAP/41DAP	1.13005	1
43DAP/42DAP	1.32965	0.192
47DAP/43DAP	1.14656	0.997
52DAP/47DAP	1.23498	0.619
57DAP/52DAP	2.12629	0.188
57DAP/7DAP	1.66547	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67707	0.039
17DAP/reference	0.73868	0.013
27DAP/reference	0.7458	0.012
39DAP/reference	0.69049	0.023
41DAP/reference	0.72906	0.012
42DAP/reference	0.73885	0.014
43DAP/reference	0.68566	0.012
47DAP/reference	0.67832	0.057
52DAP/reference	0.65411	0.012
57DAP/reference	0.71506	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8966	0.503
17DAP/reference	0.9423	0.576
27DAP/reference	0.72314	0.058
39DAP/reference	1.09858	1
41DAP/reference	0.88055	0.188
42DAP/reference	1.04689	0.969
43DAP/reference	1.16211	0.582
47DAP/reference	1.08552	1
52DAP/reference	1.32587	0.629
57DAP/reference	1.15379	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88843	0.029
17DAP/reference	0.94674	0.56
27DAP/reference	0.76805	0.036
39DAP/reference	0.75919	0.026
41DAP/reference	0.72539	0.018
42DAP/reference	0.62103	0.014
43DAP/reference	0.854	0.12
47DAP/reference	1.08957	0.424
52DAP/reference	0.83471	0.262
57DAP/reference	0.94998	0.534

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20582	0.966
26DAP/20DAP	0.82629	0.512
34DAP/26DAP	1.55804	0.819
51DAP/34DAP	1.10126	0.854
52DAP/51DAP	1.14167	0.742
53DAP/52DAP	0.91128	0.715
55DAP/53DAP	1.48979	0.312
57DAP/55DAP	1.12047	0.935
62DAP/57DAP	0.84508	0.681
68DAP/62DAP	2.65928	0.413
68DAP/14DAP	0.77857

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78275	0.493

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	N/A	N/A
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	0.86374
12-2/M82	0.88603
12-4/M82	N/A	N/A
1-3/M82	0.21613
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.81834
3-2/M82	N/A	N/A
4-1-1/M82	1.32582
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	0.90416
6-2/M82	N/A	N/A
6-3/M82	1.68525
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	1.14653	0.277
IL2-6/WTpooled	0.78542	0.358
IL7-5/WTpooled	0.92744	0.559
IL7-3/WTpooled	1.04387	1
IL12-4/WTpooled	1.00802	1
IL1-4/WTpooled	1.02971	1
WT/WTpooled	0.9942	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	0.91947

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.45188	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.00705	1
DC3000/delta hrp 24h	1.30345	0.71

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	1.2321	1
Var 0h	0.60168	0.261
Var 12h I row2-row1	0.73849	0.736
Var 12h NI row2-row1	0.70032	1
Var 36h I row2-row1	0.8006
Var 36h NI row2-row1	0.75544	1
Var 60h I row2-row1	1.23428
Var 60h NI row2-row1	0.89275	1
Time course 0hI-0hNI	1.54546	0.662
Time course 12hI-12hNI	0.56174	0.14
Time course 36hI-36hNI	3.26891	0.651
Time course 60hI-60hNI	1.09855	0.254

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)	1.28256	1
transgenic ySAMdc/azygous control (breaker)	0.9073	0.49
transgenic ySAMdc/azygous control (red)	1.17152	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	0.82224	0.297
Manapal/WT (red)	0.97955	0.863