Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.5.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95408	0.699
27DAP/17DAP	0.92459	0.853
39DAP/27DAP	0.90681	0.62
41DAP/39DAP	1.01056	0.849
42DAP/41DAP	0.94649	1
43DAP/42DAP	0.80684	0.705
47DAP/43DAP	1.05547	0.756
52DAP/47DAP	0.85297	0.593
57DAP/52DAP	0.9545	0.949

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96565	0.489
17DAP/reference	1.04546	0.74
27DAP/reference	1.03288	0.782
39DAP/reference	1.13994	0.017
41DAP/reference	1.23068	0.015
42DAP/reference	0.99754	0.531
43DAP/reference	0.99865	0.861
47DAP/reference	0.98421	0.445
52DAP/reference	0.91187	0.25
57DAP/reference	0.91876	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35596	0.038
27DAP/17DAP	0.84051	0.339
39DAP/27DAP	0.87143	0.334
41DAP/39DAP	0.81799	0.228
42DAP/41DAP	1.00746	0.934
43DAP/42DAP	0.97737	0.774
47DAP/43DAP	0.91902	0.476
52DAP/47DAP	0.82543	0.066
57DAP/52DAP	0.89306	0.359
57DAP/7DAP	0.52956	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96131	0.402
17DAP/reference	0.977	0.253
27DAP/reference	1.28219	0.008
39DAP/reference	0.98664	0.552
41DAP/reference	0.78143	0.038
42DAP/reference	0.91182	0.082
43DAP/reference	0.89139	0.139
47DAP/reference	0.97938	0.671
52DAP/reference	1.00208	0.802
57DAP/reference	1.05517	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33176	0.055
17DAP/reference	1.34736	0.02
27DAP/reference	1.50586	0.018
39DAP/reference	1.16355	0.281
41DAP/reference	1.31477	0.031
42DAP/reference	1.33616	0.026
43DAP/reference	1.79479	0.021
47DAP/reference	1.38298	0.016
52DAP/reference	1.54704	0.085
57DAP/reference	1.42549	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2653	0.019
17DAP/reference	1.24082	0.084
27DAP/reference	1.38663	0.015
39DAP/reference	1.28674	0.011
41DAP/reference	1.34375	0.039
42DAP/reference	1.2817	0.038
43DAP/reference	1.26637	0.032
47DAP/reference	1.16499	0.089
52DAP/reference	1.41991	0.059
57DAP/reference	1.3833	0.104

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21701	0.966
26DAP/20DAP	1.15903	0.875
34DAP/26DAP	1.16146	1
51DAP/34DAP	0.89168	0.579
52DAP/51DAP	0.94438	1
53DAP/52DAP	0.62116	0.049
55DAP/53DAP	0.7058	0.111
57DAP/55DAP	1.40416	0.51
62DAP/57DAP	1.52313
68DAP/62DAP	0.94267	0.81
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.64598	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95448	0.605
Mature Green Tomato/Ripe Tomato	1.31302	0.363
Immature Eggplant/Mature Eggplant	0.92843	0.808
Ripe Pepper/Ripe Tomato	2.38738	0.258
Mature Eggplant/Ripe Tomato	1.57942	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.23793	0.574
1-1-2/M82	1.02415	1
12-2/M82	N/A	N/A
12-4/M82	0.96714	1
1-3/M82	0.90221	0.501
2-1-1/M82	1.05804
2-1/M82	0.94129	0.322
2-6/M82	0.95029	1
3-2/M82	0.83675
4-1-1/M82	0.76813	1
4-1/M82	0.8203	1
4-3-2/M82	1.47718
4-3/M82	1.212	1
5-3/M82	1.02415	1
6-2/M82	0.90125
6-3/M82	1.00556
7-1/M82	0.94127
7-2/M82	0.88091	0.599
9-3-2/M82	1.04605	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90481	0.321
IL2-6/WTpooled	1.07529	0.46
IL7-5/WTpooled	1.59963	0.792
IL7-3/WTpooled	0.88844	1
IL12-4/WTpooled	1.01086	0.891
IL1-4/WTpooled	0.9551	0.834
WT/WTpooled	0.98539	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	0.81705	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01712	0.921
DC3000/delta hrp 6h	0.78072	0.95
DC3000/delta hrp 12h	1.17773	1
DC3000/delta hrp 24h	1.09249	0.397

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.77034	0.365
DC3000 delta B/DC3000 delta AB	0.65723	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84921	0.245
Exp 36h	1.08952	1
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	1.01835	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.86768	0.39
Var 12h NI row2-row1	0.89725	0.546
Var 36h I row2-row1	1.00968	1
Var 36h NI row2-row1	1.11353	1
Var 60h I row2-row1	0.92457	0.832
Var 60h NI row2-row1	0.98353	1
Time course 0hI-0hNI	0.99928	1
Time course 12hI-12hNI	0.91787	0.185
Time course 36hI-36hNI	0.85089	0.06
Time course 60hI-60hNI	0.25848	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)	1.0785	0.541
transgenic ySAMdc/azygous control (breaker)	0.7836	0.49
transgenic ySAMdc/azygous control (red)	0.94714	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0006	0.911

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)	1.07872	1
Manapal/WT (break)	1.18755	0.381
Manapal/WT (red)	1.15794	0.413