Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.20.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98153	0.839
27DAP/17DAP	0.95347	0.947
39DAP/27DAP	2.2234	0.062
41DAP/39DAP	1.66441	0.203
42DAP/41DAP	0.93338	1
43DAP/42DAP	0.96404	0.912
47DAP/43DAP	1.14134	0.776
52DAP/47DAP	0.72162	0.429
57DAP/52DAP	0.93295	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4716	0.154
17DAP/reference	1.09287	1
27DAP/reference	1.15239
39DAP/reference	1.03512	1
41DAP/reference	1.2956	0.013
42DAP/reference	0.90286	0.176
43DAP/reference	1.43871
47DAP/reference	0.93054	0.242
52DAP/reference	0.99767	0.709
57DAP/reference	3.43535

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06859	0.826
27DAP/17DAP	1.13207	0.826
39DAP/27DAP	1.1724	0.373
41DAP/39DAP	0.83519	0.059
42DAP/41DAP	1.21894	0.663
43DAP/42DAP	1.00711	0.902
47DAP/43DAP	0.94433	0.712
52DAP/47DAP	1.05217	0.835
57DAP/52DAP	0.93428	0.566
57DAP/7DAP	0.70507	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84703	0.115
17DAP/reference	0.80681	0.019
27DAP/reference	0.77106	0.01
39DAP/reference	0.48083	0.011
41DAP/reference	0.76202	0.133
42DAP/reference	0.5976	0.01
43DAP/reference	0.61338	0.013
47DAP/reference	0.78683	0.168
52DAP/reference	0.84614	0.115
57DAP/reference	0.85573	0.054

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97278	0.706
17DAP/reference	0.9798	0.487
27DAP/reference	0.96531	0.483
39DAP/reference	0.88075	0.189
41DAP/reference	0.93431	0.231
42DAP/reference	0.83923	0.016
43DAP/reference	1.02384	0.692
47DAP/reference	0.90218	0.032
52DAP/reference	0.98027	0.537
57DAP/reference	1.12829	0.166

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9017	0.044
17DAP/reference	0.87407	0.186
27DAP/reference	0.75586	0.038
39DAP/reference	0.79773	0.016
41DAP/reference	0.87845	0.046
42DAP/reference	0.73674	0.019
43DAP/reference	0.83772	0.143
47DAP/reference	0.95038	0.348
52DAP/reference	0.80658	0.158
57DAP/reference	0.63016	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1135	0.966
26DAP/20DAP	1.03764	1
34DAP/26DAP	2.17295	1
51DAP/34DAP	1.24386	0.115
52DAP/51DAP	1.07909	0.651
53DAP/52DAP	0.97533	0.902
55DAP/53DAP	1.18202	0.893
57DAP/55DAP	0.81542	0.282
62DAP/57DAP	1.00814	1
68DAP/62DAP	0.96284	0.787
68DAP/14DAP	0.95425	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12162	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.48262	0.107
Mature Green Tomato/Ripe Tomato	0.41856	0.017
Immature Eggplant/Mature Eggplant	1.33381	0.239
Ripe Pepper/Ripe Tomato	1.04567	1
Mature Eggplant/Ripe Tomato	0.48135	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87781	0.907
1-1-2/M82	0.83698	0.958
12-2/M82	1.03981	1
12-4/M82	0.95339	1
1-3/M82	0.77286	0.378
2-1-1/M82	1.08002	0.764
2-1/M82	N/A	N/A
2-6/M82	1.34495	0.374
3-2/M82	1.00983	1
4-1-1/M82	0.98954	1
4-1/M82	1.05982
4-3-2/M82	0.7259
4-3/M82	0.84214	0.72
5-3/M82	0.89435	1
6-2/M82	1.00289	1
6-3/M82	0.95103	1
7-1/M82	0.98059
7-2/M82	1.08841	1
9-3-2/M82	1.01373	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11615	0.277
IL2-6/WTpooled	0.95607	1
IL7-5/WTpooled	1.07022	0.792
IL7-3/WTpooled	0.96305	1
IL12-4/WTpooled	1.06227	0.839
IL1-4/WTpooled	1.0106	1
WT/WTpooled	0.93803	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99594	1
DC3000/delta hrp 6h	1.28342	1
DC3000/delta hrp 12h	1.00879	1
DC3000/delta hrp 24h	1.12812	0.516

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	0.15798

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09719	1
Exp 36h	1.05015	1
Exp 60h	1.35533	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98876	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.891	0.467
Var 12h NI row2-row1	0.87559	0.627
Var 36h I row2-row1	1.23585	1
Var 36h NI row2-row1	1.27712	0.482
Var 60h I row2-row1	1.07326	1
Var 60h NI row2-row1	1.01085	1
Time course 0hI-0hNI	0.88363	0.143
Time course 12hI-12hNI	0.88972	0.133
Time course 36hI-36hNI	0.74972	0.023
Time course 60hI-60hNI	0.69621	0.009

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)	1.27279	0.321
transgenic ySAMdc/azygous control (breaker)	0.72148	0.15
transgenic ySAMdc/azygous control (red)	0.92312	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93298	0.136

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04095	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1264	0.096
Manapal/WT (break)	0.98944	1
Manapal/WT (red)	0.96121	0.728