Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.6.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9531	0.689
27DAP/17DAP	1.02679	0.92
39DAP/27DAP	0.84709	0.449
41DAP/39DAP	1.23561	0.765
42DAP/41DAP	0.92426	1
43DAP/42DAP	1.05489	1
47DAP/43DAP	1.15606	0.527
52DAP/47DAP	0.8967	0.695
57DAP/52DAP	1.07312	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01631	1
17DAP/reference	1.00563	0.813
27DAP/reference	1.01832	0.709
39DAP/reference	0.97564	0.663
41DAP/reference	1.06288	0.312
42DAP/reference	0.93152	0.027
43DAP/reference	0.953	0.41
47DAP/reference	0.96139	0.242
52DAP/reference	0.90902	0.223
57DAP/reference	0.85889	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93277	0.26
27DAP/17DAP	0.95905	0.508
39DAP/27DAP	1.00722	0.845
41DAP/39DAP	1.00775	0.896
42DAP/41DAP	1.00818	1
43DAP/42DAP	1.01921	0.585
47DAP/43DAP	0.95694	0.743
52DAP/47DAP	1.02514	0.892
57DAP/52DAP	0.95658	0.514
57DAP/7DAP	0.92931	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25245	0.05
17DAP/reference	1.13663	0.011
27DAP/reference	0.99638	0.698
39DAP/reference	1.07319	0.056
41DAP/reference	1.0529	0.43
42DAP/reference	1.12373	0.059
43DAP/reference	1.02177	0.672
47DAP/reference	1.00893	1
52DAP/reference	1.04181	0.352
57DAP/reference	1.01741	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05845	0.304
17DAP/reference	1.09439	0.124
27DAP/reference	0.95816	0.393
39DAP/reference	0.99647	0.661
41DAP/reference	0.89519	0.078
42DAP/reference	0.92845	0.135
43DAP/reference	1.02782	0.777
47DAP/reference	0.96764	0.261
52DAP/reference	1.14311	0.036
57DAP/reference	1.17509	0.036

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09957	0.042
17DAP/reference	0.99227	0.778
27DAP/reference	0.97065	0.133
39DAP/reference	1.08506	0.087
41DAP/reference	0.95762	0.293
42DAP/reference	0.88677	0.134
43DAP/reference	0.91841	0.179
47DAP/reference	1.00357	0.754
52DAP/reference	0.90505	0.385
57DAP/reference	0.78011	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02801	0.966
26DAP/20DAP	0.9471	1
34DAP/26DAP	0.99313	1
51DAP/34DAP	0.98348	0.893
52DAP/51DAP	0.96959	1
53DAP/52DAP	1.053	0.643
55DAP/53DAP	0.97524	0.775
57DAP/55DAP	1.14432	0.492
62DAP/57DAP	0.97752	0.994
68DAP/62DAP	0.87193	0.543
68DAP/14DAP	1.00719	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89524	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86107	0.364
Mature Green Tomato/Ripe Tomato	0.8648	0.317
Immature Eggplant/Mature Eggplant	1.25712	0.248
Ripe Pepper/Ripe Tomato	0.78639	1
Mature Eggplant/Ripe Tomato	1.2187	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00932	1
1-1-2/M82	0.98867	1
12-2/M82	0.94424	0.955
12-4/M82	0.86086	1
1-3/M82	1.00853	1
2-1-1/M82	0.95298
2-1/M82	1.53568	0.345
2-6/M82	1.00642	1
3-2/M82	1.00932	0.549
4-1-1/M82	1.07531	1
4-1/M82	1.02674	1
4-3-2/M82	1.00716	1
4-3/M82	1.04857	0.268
5-3/M82	1.04355	1
6-2/M82	1.05168	1
6-3/M82	1.02917	1
7-1/M82	1.00342	1
7-2/M82	0.9719	1
9-3-2/M82	0.96089	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.187	0.277
IL2-6/WTpooled	1.04204	0.788
IL7-5/WTpooled	1.07961
IL7-3/WTpooled	1.30807	0.362
IL12-4/WTpooled	0.81741	0.71
IL1-4/WTpooled	1.19883	1
WT/WTpooled	0.94636	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	0.95032	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01054	0.921
DC3000/delta hrp 6h	1.50622	1
DC3000/delta hrp 12h	0.9569	1
DC3000/delta hrp 24h	1.09279	0.254

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.80053	0.028
DC3000 delta B/DC3000 delta AB	0.86367	0.039

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06753	1
Exp 36h	1.68601	0.693
Exp 60h	0.78892	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01921	1
Var 0h	23.7345	1
Var 12h I row2-row1	1.00359	1
Var 12h NI row2-row1	1.00519	1
Var 36h I row2-row1	0.7999	1
Var 36h NI row2-row1	1.07683	0.482
Var 60h I row2-row1	1.38324	0.562
Var 60h NI row2-row1	1.159	0.904
Time course 0hI-0hNI	1.02624	0.833
Time course 12hI-12hNI	0.96258	0.761
Time course 36hI-36hNI	0.94712	0.38
Time course 60hI-60hNI	0.26345	0.005

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)	0.96227	0.614
transgenic ySAMdc/azygous control (breaker)	1.49515	0.248
transgenic ySAMdc/azygous control (red)	1.32131	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01789	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1808	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81886	1
Manapal/WT (break)	1.19202	1
Manapal/WT (red)	N/A	N/A