Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.5.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09142	0.798
27DAP/17DAP	0.92421	0.86
39DAP/27DAP	1.27745	0.8
41DAP/39DAP	1.58349	0.295
42DAP/41DAP	0.89564	0.774
43DAP/42DAP	1.04196	0.937
47DAP/43DAP	0.97923	0.868
52DAP/47DAP	0.98804	0.964
57DAP/52DAP	0.97371	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81841	0.154
17DAP/reference	1.09096	0.154
27DAP/reference	1.02546	0.981
39DAP/reference	1.081	0.262
41DAP/reference	1.14717	0.451
42DAP/reference	1.06937	0.585
43DAP/reference	1.27254	0.069
47DAP/reference	1.13005	0.306
52DAP/reference	1.00861	1
57DAP/reference	1.07049	0.355

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02108	0.899
27DAP/17DAP	1.14076	0.632
39DAP/27DAP	1.01021	1
41DAP/39DAP	1.13994	0.727
42DAP/41DAP	0.9249	0.481
43DAP/42DAP	1.0611	0.554
47DAP/43DAP	1.01059	1
52DAP/47DAP	0.90226	0.452
57DAP/52DAP	0.97021	0.773
57DAP/7DAP	1.09801	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83911	0.108
17DAP/reference	0.83384	0.025
27DAP/reference	0.90479	0.094
39DAP/reference	0.80682	0.011
41DAP/reference	0.77668	0.022
42DAP/reference	0.71503	0.023
43DAP/reference	0.65615	0.013
47DAP/reference	0.91063	0.383
52DAP/reference	0.70991	0.009
57DAP/reference	0.66681	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20529	0.224
17DAP/reference	1.19209	0.243
27DAP/reference	1.24651	0.171
39DAP/reference	1.11049	0.935
41DAP/reference	0.9707	0.441
42DAP/reference	1.22501	0.032
43DAP/reference	1.46117	0.073
47DAP/reference	1.0969	0.205
52DAP/reference	1.465	0.181
57DAP/reference	1.1948	0.286

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91026	0.087
17DAP/reference	1.03897	1
27DAP/reference	0.8234	0.108
39DAP/reference	0.7849	0.028
41DAP/reference	0.76974	0.019
42DAP/reference	0.84774	0.134
43DAP/reference	0.82191	0.042
47DAP/reference	1.20343	0.133
52DAP/reference	1.20378	0.639
57DAP/reference	1.332	0.262

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.009	1
26DAP/20DAP	1.05491	0.962
34DAP/26DAP	1.09397	1
51DAP/34DAP	0.872	0.498
52DAP/51DAP	1.05786	1
53DAP/52DAP	1.11298	0.768
55DAP/53DAP	1.06428	0.885
57DAP/55DAP	1.24126	0.559
62DAP/57DAP	4.21749	0.569
68DAP/62DAP	0.85416	0.747
68DAP/14DAP	2.43647	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.53899	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.16929
Mature Green Tomato/Ripe Tomato	0.98685	0.611
Immature Eggplant/Mature Eggplant	0.88392
Ripe Pepper/Ripe Tomato	1.22307	1
Mature Eggplant/Ripe Tomato	0.8962	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90386	0.478
1-1-2/M82	0.93461	1
12-2/M82	0.9445
12-4/M82	0.87308	1
1-3/M82	0.91581
2-1-1/M82	N/A	N/A
2-1/M82	0.93158
2-6/M82	0.9676	1
3-2/M82	1.04672
4-1-1/M82	0.92955	1
4-1/M82	1.0078	1
4-3-2/M82	N/A	N/A
4-3/M82	0.88681	1
5-3/M82	1.00809	1
6-2/M82	0.89469
6-3/M82	1.01938
7-1/M82	1.12683	0.741
7-2/M82	N/A	N/A
9-3-2/M82	0.75218	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89934	1
IL2-6/WTpooled	1.25153	0.456
IL7-5/WTpooled	0.89556	1
IL7-3/WTpooled	0.98304	1
IL12-4/WTpooled	0.82061	0.71
IL1-4/WTpooled	0.94508	0.457
WT/WTpooled	0.92035	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	1.32619	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97268	1
DC3000/delta hrp 6h	1.05534	1
DC3000/delta hrp 12h	1.15735	1
DC3000/delta hrp 24h	1.0866	0.322

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	0.90944	0.605

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19672	1
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	1.09461	1
Var 0h	1.06961	0.782
Var 12h I row2-row1	1.04516	0.736
Var 12h NI row2-row1	0.89296	0.394
Var 36h I row2-row1	0.95039	0.805
Var 36h NI row2-row1	0.96125	0.706
Var 60h I row2-row1	1.09177	0.543
Var 60h NI row2-row1	0.96313	1
Time course 0hI-0hNI	1.02239	0.852
Time course 12hI-12hNI	1.04122	0.633
Time course 36hI-36hNI	1.27382	0.007
Time course 60hI-60hNI	1.34655	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)	0.98695	0.789
transgenic ySAMdc/azygous control (breaker)	0.96558	0.49
transgenic ySAMdc/azygous control (red)	0.92175	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01625	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8071	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86535	1
Manapal/WT (break)	1.07761	0.381
Manapal/WT (red)	1.1914	0.413