Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.13.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92362	0.568
27DAP/17DAP	0.94489	0.902
39DAP/27DAP	1.03674	0.84
41DAP/39DAP	1.19172	0.54
42DAP/41DAP	1.19004	0.813
43DAP/42DAP	0.9197	0.801
47DAP/43DAP	0.87697	0.599
52DAP/47DAP	1.39154	0.48
57DAP/52DAP	0.96551	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98085	0.476
17DAP/reference	1.02327	0.282
27DAP/reference	0.99419	0.797
39DAP/reference	0.95242	0.5
41DAP/reference	1.06297	0.203
42DAP/reference	0.91494	0.035
43DAP/reference	1.03037	0.705
47DAP/reference	0.87955	0.003
52DAP/reference	0.90271	0.147
57DAP/reference	0.85434	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9548	0.484
27DAP/17DAP	1.0438	0.887
39DAP/27DAP	1.02775	0.698
41DAP/39DAP	0.95248	0.875
42DAP/41DAP	0.98561	0.812
43DAP/42DAP	1.00344	1
47DAP/43DAP	1.02617	0.812
52DAP/47DAP	0.98786	0.925
57DAP/52DAP	0.98589	0.742
57DAP/7DAP	1.03325	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95958	0.326
17DAP/reference	0.85319	0.016
27DAP/reference	0.86086	0.01
39DAP/reference	0.91654	0.198
41DAP/reference	0.95385	0.259
42DAP/reference	0.81141	0.034
43DAP/reference	0.77251	0.105
47DAP/reference	0.93801	0.079
52DAP/reference	0.73486	0.019
57DAP/reference	0.79289	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07973	0.164
17DAP/reference	0.99606	0.786
27DAP/reference	0.99029	0.642
39DAP/reference	0.91664	0.062
41DAP/reference	0.89426	0.013
42DAP/reference	0.94036	0.189
43DAP/reference	0.96178	0.494
47DAP/reference	1.03855	0.816
52DAP/reference	0.89518	0.047
57DAP/reference	1.04488	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91938	0.183
17DAP/reference	1.00922	0.988
27DAP/reference	0.90056	0.14
39DAP/reference	0.86945	0.111
41DAP/reference	0.84532	0.096
42DAP/reference	0.73373	0.015
43DAP/reference	0.85872	0.049
47DAP/reference	0.89549	0.168
52DAP/reference	0.67048	0.076
57DAP/reference	0.6555	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00829	0.966
26DAP/20DAP	0.94173	0.512
34DAP/26DAP	0.86883	0.399
51DAP/34DAP	0.93199	0.402
52DAP/51DAP	0.96125	1
53DAP/52DAP	1.05146	0.58
55DAP/53DAP	1.04989	1
57DAP/55DAP	1.02272	0.975
62DAP/57DAP	1.1433	0.185
68DAP/62DAP	0.96818	0.81
68DAP/14DAP	0.85522	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95214	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.43161	0.089
Mature Green Tomato/Ripe Tomato	0.9441	0.522
Immature Eggplant/Mature Eggplant	1.39533	0.05
Ripe Pepper/Ripe Tomato	1.24973	1
Mature Eggplant/Ripe Tomato	1.72064	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93463	0.536
1-1-2/M82	0.96161	1
12-2/M82	1.1984	1
12-4/M82	0.9684	1
1-3/M82	0.98759	1
2-1-1/M82	1.15459	0.689
2-1/M82	1.17115	0.335
2-6/M82	0.99343	1
3-2/M82	0.98839	1
4-1-1/M82	0.95423	1
4-1/M82	1.12117
4-3-2/M82	0.974	1
4-3/M82	0.88271	1
5-3/M82	1.01378	1
6-2/M82	1.00173	1
6-3/M82	1.0832	1
7-1/M82	1.00974	1
7-2/M82	0.99424	1
9-3-2/M82	0.97867	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1656	0.441
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03332	1
IL12-4/WTpooled	1.02434	1
IL1-4/WTpooled	1.08813	1
WT/WTpooled	0.97103	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	1.00908	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11321	0.894
DC3000/delta hrp 6h	0.95503	0.95
DC3000/delta hrp 12h	1.10934	1
DC3000/delta hrp 24h	1.18415	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16479	0.06
DC3000 delta B/DC3000 delta AB	1.08251	0.423

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05221	1
Exp 36h	1.11911	1
Exp 60h	1.24276	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9759	1
Var 0h	0.87614	0.933
Var 12h I row2-row1	1.07801	0.406
Var 12h NI row2-row1	0.94632	0.82
Var 36h I row2-row1	1.08652	1
Var 36h NI row2-row1	0.79999	0.584
Var 60h I row2-row1	0.96548	0.293
Var 60h NI row2-row1	1.10981	0.904
Time course 0hI-0hNI	1.0202	0.852
Time course 12hI-12hNI	1.01905	0.82
Time course 36hI-36hNI	1.09634	0.19
Time course 60hI-60hNI	1.91932	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)	1.09085	0.431
transgenic ySAMdc/azygous control (breaker)	0.92791	0.251
transgenic ySAMdc/azygous control (red)	1.14309	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00461	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.672	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06383	1
Manapal/WT (break)	0.96871	1
Manapal/WT (red)	0.8481	0.229