Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.1.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.66935	0.394
27DAP/17DAP	1.21233	0.922
39DAP/27DAP	1.39015	1
41DAP/39DAP	1.21017
42DAP/41DAP	0.86393	1
43DAP/42DAP	0.90033	0.865
47DAP/43DAP	0.96115	0.773
52DAP/47DAP	0.98428	0.774
57DAP/52DAP	1.03701	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84373	0.068
17DAP/reference	0.78467	0.01
27DAP/reference	0.91645	0.176
39DAP/reference	0.79664	0.026
41DAP/reference	0.73904	0.009
42DAP/reference	0.90575	0.056
43DAP/reference	0.92096	0.051
47DAP/reference	0.99245	0.568
52DAP/reference	1.10426	0.371
57DAP/reference	1.21506	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01244	0.826
27DAP/17DAP	1.41722	0.378
39DAP/27DAP	1.04913	0.698
41DAP/39DAP	1.89594	0.371
42DAP/41DAP	0.68337	0.023
43DAP/42DAP	0.94032	0.618
47DAP/43DAP	1.42136	0.234
52DAP/47DAP	0.79661	0.452
57DAP/52DAP	1.26653	0.497
57DAP/7DAP	1.90939	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96628	0.55
17DAP/reference	0.99737	0.693
27DAP/reference	1.24179	0.088
39DAP/reference	0.88057	0.23
41DAP/reference	1.1188	0.402
42DAP/reference	1.33233	0.405
43DAP/reference	1.13689	0.974
47DAP/reference	0.97425	0.504
52DAP/reference	1.37562	0.034
57DAP/reference	1.14014	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80115	0.049
17DAP/reference	0.7248	0.012
27DAP/reference	1.0631	0.66
39DAP/reference	1.05314	0.686
41DAP/reference	0.95782	0.322
42DAP/reference	1.02921	0.899
43DAP/reference	0.86543	0.058
47DAP/reference	1.01269	1
52DAP/reference	0.92804	0.093
57DAP/reference	0.87737	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08788	0.809
17DAP/reference	1.03161	0.9
27DAP/reference	1.05422
39DAP/reference	0.89101	0.122
41DAP/reference	1.06291	0.637
42DAP/reference	1.05463	1
43DAP/reference	1.19352	0.547
47DAP/reference	0.92286	0.269
52DAP/reference	1.58533	0.509
57DAP/reference	1.12508	0.279

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21583	0.966
26DAP/20DAP	0.50693
34DAP/26DAP	1.10346	1
51DAP/34DAP	1.09608	0.937
52DAP/51DAP	0.94563	1
53DAP/52DAP	0.96631	0.902
55DAP/53DAP	0.91356	0.417
57DAP/55DAP	0.95339	0.789
62DAP/57DAP	1.31692	0.35
68DAP/62DAP	1.88228	0.026
68DAP/14DAP	1.69388	0.039

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05589	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	14.2142
Mature Green Tomato/Ripe Tomato	0.349	0.018
Immature Eggplant/Mature Eggplant	4496.13	0.067
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	5.77278

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	1.30982
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	0.18452
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05321	1
IL2-6/WTpooled	1.55167
IL7-5/WTpooled	1.03396	1
IL7-3/WTpooled	1.00939	1
IL12-4/WTpooled	0.98619	1
IL1-4/WTpooled	1.19745	1
WT/WTpooled	0.98816	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	1.58103	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.27703	0.921
DC3000/delta hrp 6h	1.29098	0.609
DC3000/delta hrp 12h	1.27179	1
DC3000/delta hrp 24h	1.84577	0.182

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	2.82371

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.29076	0.254
Exp 36h	1.5572	0.693
Exp 60h	1.26949	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0318	1
Var 0h	1.01225	1
Var 12h I row2-row1	0.78435	0.627
Var 12h NI row2-row1	1.80708	0.34
Var 36h I row2-row1	1.40784	0.41
Var 36h NI row2-row1	0.49408	0.522
Var 60h I row2-row1	1.34499	0.562
Var 60h NI row2-row1	0.52489	0.458
Time course 0hI-0hNI	1.06646	0.719
Time course 12hI-12hNI	2.61677	0.005
Time course 36hI-36hNI	3.02917	0.005
Time course 60hI-60hNI	4.00769	0.008

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)	1.02228	0.862
transgenic ySAMdc/azygous control (breaker)	0.26253	0.122
transgenic ySAMdc/azygous control (red)	0.73653	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.86754	0.067

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72065	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.67698	1
Manapal/WT (break)	1.1111	1
Manapal/WT (red)	1.48373	1