Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.9.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18265	0.452
27DAP/17DAP	1.00972	1
39DAP/27DAP	0.96807	0.749
41DAP/39DAP	1.16003	0.949
42DAP/41DAP	1.4594	0.544
43DAP/42DAP	0.86027	0.795
47DAP/43DAP	1.72625	0.513
52DAP/47DAP	0.99147	0.933
57DAP/52DAP	1.19904	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97212	0.526
17DAP/reference	0.92513	0.24
27DAP/reference	0.98578	0.725
39DAP/reference	1.11778	0.122
41DAP/reference	1.05193	0.421
42DAP/reference	0.91633	0.225
43DAP/reference	1.04702	0.899
47DAP/reference	0.93561	0.258
52DAP/reference	0.93675	0.341
57DAP/reference	1.06067	0.643

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23089	0.34
27DAP/17DAP	0.99919	0.969
39DAP/27DAP	1.14343	0.436
41DAP/39DAP	0.90909	0.645
42DAP/41DAP	0.98003	0.726
43DAP/42DAP	1.43855	0.478
47DAP/43DAP	1.0537	0.973
52DAP/47DAP	1.00014	0.93
57DAP/52DAP	0.82079	0.308
57DAP/7DAP	1.0266	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89185	0.203
17DAP/reference	0.93817	0.072
27DAP/reference	0.86465	0.026
39DAP/reference	0.96363	0.126
41DAP/reference	0.86144	0.038
42DAP/reference	0.87843	0.014
43DAP/reference	0.89088	0.013
47DAP/reference	0.91881	0.383
52DAP/reference	0.807	0.014
57DAP/reference	0.8245	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98006	0.77
17DAP/reference	1.02376	1
27DAP/reference	1.0659	0.543
39DAP/reference	1.07513	0.978
41DAP/reference	1.05501	0.91
42DAP/reference	1.1106	1
43DAP/reference	1.12959	0.526
47DAP/reference	0.97439	0.459
52DAP/reference	1.04558	1
57DAP/reference	0.9279	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83097	0.082
17DAP/reference	0.98706	0.709
27DAP/reference	0.98659	0.624
39DAP/reference	0.93773	0.328
41DAP/reference	0.92159	0.033
42DAP/reference	0.91268	0.071
43DAP/reference	0.90735	0.294
47DAP/reference	0.88748	0.249
52DAP/reference	0.79388	0.073
57DAP/reference	1.01484	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13793	0.966
26DAP/20DAP	1.06201	1
34DAP/26DAP	1.21919	0.819
51DAP/34DAP	2.49864	0.55
52DAP/51DAP	0.99801	1
53DAP/52DAP	0.92352	0.64
55DAP/53DAP	1.15238	0.109
57DAP/55DAP	1.04264	0.935
62DAP/57DAP	2.33053	0.515
68DAP/62DAP	0.83572	0.609
68DAP/14DAP	0.89908	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08401	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.47817
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.40834	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.20712
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.7304	0.272
1-3/M82	N/A	N/A
2-1-1/M82	0.61698
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
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	N/A	N/A
4-3/M82	0.9695	1
5-3/M82	0.88488	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00776	1
IL2-6/WTpooled	0.89895	1
IL7-5/WTpooled	1.49417	0.792
IL7-3/WTpooled	0.96458	1
IL12-4/WTpooled	1.04147	0.839
IL1-4/WTpooled	0.96377	1
WT/WTpooled	0.93032	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	1.47871	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9485	1
DC3000/delta hrp 6h	1.96103	0.19
DC3000/delta hrp 12h	0.9991	1
DC3000/delta hrp 24h	0.92896	0.513

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	N/A	N/A
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	1.1684	1
Var 0h	0.90672	0.933
Var 12h I row2-row1	1.10012	0.196
Var 12h NI row2-row1	1.12047	1
Var 36h I row2-row1	1.16779	0.489
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.84115	0.306
Var 60h NI row2-row1	0.70927	0.932
Time course 0hI-0hNI	1.16238	0.764
Time course 12hI-12hNI	1.02965	0.892
Time course 36hI-36hNI	1.24509	0.011
Time course 60hI-60hNI	1.60989	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)	0.73312	0.33
transgenic ySAMdc/azygous control (breaker)	2.48547	0.172
transgenic ySAMdc/azygous control (red)	1.03579	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98439	0.393

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73367	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.79425	1
Manapal/WT (red)	0.79051	0.181