Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.15.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99419	0.847
27DAP/17DAP	1.12979	0.849
39DAP/27DAP	1.16753	0.718
41DAP/39DAP	1.28381	0.413
42DAP/41DAP	0.66084	0.397
43DAP/42DAP	1.01308	0.937
47DAP/43DAP	0.88943	0.628
52DAP/47DAP	1.20767	0.665
57DAP/52DAP	0.8488	0.768

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76564	0.039
17DAP/reference	0.79204	0.01
27DAP/reference	0.85823	0.08
39DAP/reference	0.85943	0.106
41DAP/reference	0.79023	0.01
42DAP/reference	0.8658	0.03
43DAP/reference	0.82639	0.077
47DAP/reference	0.94115	0.279
52DAP/reference	1.15002	0.229
57DAP/reference	1.20407	0.07

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92883	0.56
27DAP/17DAP	1.08168	1
39DAP/27DAP	0.93713	0.639
41DAP/39DAP	1.1373	0.663
42DAP/41DAP	0.88205	0.495
43DAP/42DAP	1.25049	0.25
47DAP/43DAP	1.41889	0.359
52DAP/47DAP	1.16814	0.519
57DAP/52DAP	1.21451	0.857
57DAP/7DAP	0.76768

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99304	0.682
17DAP/reference	1.03492	0.896
27DAP/reference	0.97465	0.494
39DAP/reference	0.96809	0.474
41DAP/reference	0.99435	0.677
42DAP/reference	1.00278	0.713
43DAP/reference	1.03983	0.537
47DAP/reference	1.06122	0.647
52DAP/reference	1.005	0.802
57DAP/reference	1.15209	0.198

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.025	0.933
17DAP/reference	0.87022	0.026
27DAP/reference	0.83646	0.104
39DAP/reference	0.88785	0.074
41DAP/reference	0.9832	0.481
42DAP/reference	0.8891	0.135
43DAP/reference	0.89836	0.25
47DAP/reference	0.918	0.116
52DAP/reference	0.89742	0.06
57DAP/reference	0.85371	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97057	0.526
17DAP/reference	0.94747	0.528
27DAP/reference	1.06533	0.425
39DAP/reference	1.06118	0.733
41DAP/reference	1.05005	1
42DAP/reference	0.89209	0.287
43DAP/reference	0.96809	0.545
47DAP/reference	0.94047	0.057
52DAP/reference	0.83831	0.2
57DAP/reference	1.03195	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90307	1
26DAP/20DAP	1.13798	0.558
34DAP/26DAP	1.96526	0.19
51DAP/34DAP	0.90126	0.698
52DAP/51DAP	1.68085	0.413
53DAP/52DAP	1.20269	0.712
55DAP/53DAP	1.06037	0.927
57DAP/55DAP	1.27044	0.906
62DAP/57DAP	1.08799	1
68DAP/62DAP	1.25744	0.392
68DAP/14DAP	2.80617	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35665	0.061

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.07494	0.267
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.15432

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9412	0.961
1-1-2/M82	0.85948
12-2/M82	N/A	N/A
12-4/M82	1.09265
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	1.09069	0.405
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	1.32606
4-3/M82	0.91445
5-3/M82	0.83738	0.642
6-2/M82	N/A	N/A
6-3/M82	1.09776	1
7-1/M82	N/A	N/A
7-2/M82	0.73936
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.15685	0.277
IL2-6/WTpooled	1.02484	1
IL7-5/WTpooled	0.61556	0.167
IL7-3/WTpooled	1.2718	1
IL12-4/WTpooled	1.18997	0.538
IL1-4/WTpooled	0.99702	1
WT/WTpooled	0.99755	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	1.1758	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07827	0.758
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.83815
DC3000/delta hrp 24h	3.70298	0.021

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	1.32599	1
Exp 36h	2.33696	0.693
Exp 60h	1.61353	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07624
Var 0h	1.07886	1
Var 12h I row2-row1	0.99779	1
Var 12h NI row2-row1	0.95585	0.82
Var 36h I row2-row1	0.84063	1
Var 36h NI row2-row1	0.71344	1
Var 60h I row2-row1	0.96644	0.952
Var 60h NI row2-row1	0.75016	1
Time course 0hI-0hNI	1.04456	0.852
Time course 12hI-12hNI	1.67535	0.313
Time course 36hI-36hNI	1.46249	0.006
Time course 60hI-60hNI	2.96697	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)	1.28272	0.286
transgenic ySAMdc/azygous control (breaker)	0.77487	0.139
transgenic ySAMdc/azygous control (red)	1.09129	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00244	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.37062	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.5766	0.172
Manapal/WT (break)	0.89738	1
Manapal/WT (red)	0.45836	0.181