Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.4.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02219	0.876
27DAP/17DAP	1.02117	0.92
39DAP/27DAP	0.80525	0.487
41DAP/39DAP	0.91601	0.69
42DAP/41DAP	0.99397	1
43DAP/42DAP	1.2704	0.327
47DAP/43DAP	0.77427	0.334
52DAP/47DAP	1.28276	0.541
57DAP/52DAP	1.27356	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23079	0.126
17DAP/reference	1.08179	0.294
27DAP/reference	1.07894	0.66
39DAP/reference	0.79759	0.437
41DAP/reference	1.17237	0.047
42DAP/reference	0.77756	0.007
43DAP/reference	1.07035
47DAP/reference	0.97203	0.535
52DAP/reference	0.99685	0.73
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0273	1
27DAP/17DAP	0.8844	0.363
39DAP/27DAP	0.94969	0.682
41DAP/39DAP	0.94317	0.747
42DAP/41DAP	1.15183	0.635
43DAP/42DAP	0.94985	0.709
47DAP/43DAP	0.91461	0.687
52DAP/47DAP	0.89557	0.634
57DAP/52DAP	0.77237	0.088
57DAP/7DAP	0.72438	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32638	0.087
17DAP/reference	1.10434	0.525
27DAP/reference	1.07178	0.698
39DAP/reference	1.47929	0.012
41DAP/reference	1.47704	0.046
42DAP/reference	1.15722	0.308
43DAP/reference	1.11536	0.386
47DAP/reference	0.9872	0.671
52DAP/reference	1.19993	0.031
57DAP/reference	1.1019	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08175	0.926
17DAP/reference	1.0842	0.739
27DAP/reference	1.19836	0.133
39DAP/reference	1.04795	0.571
41DAP/reference	1.0643	0.683
42DAP/reference	0.89852	0.15
43DAP/reference	1.14943	0.112
47DAP/reference	0.82486	0.068
52DAP/reference	0.9447	0.433
57DAP/reference	1.5167	0.027

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	7.48981	0.015
17DAP/reference	1.25804	0.043
27DAP/reference	1.10584	0.672
39DAP/reference	1.09413	0.406
41DAP/reference	1.24032	0.022
42DAP/reference	6.71367	0.013
43DAP/reference	4.25928	0.028
47DAP/reference	0.90586	0.145
52DAP/reference	7.92687	0.041
57DAP/reference	0.89965	0.321

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.29816	0.966
26DAP/20DAP	1.41532	0.855
34DAP/26DAP	1.15753	0.819
51DAP/34DAP	1.23924	0.377
52DAP/51DAP	0.73606
53DAP/52DAP	1.22026	0.356
55DAP/53DAP	1.23376	0.452
57DAP/55DAP	1.27133	0.61
62DAP/57DAP	0.94974	0.994
68DAP/62DAP	0.99574	0.939
68DAP/14DAP	0.78212

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.00483	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.27458	0.176
Mature Green Tomato/Ripe Tomato	4.13242	0.149
Immature Eggplant/Mature Eggplant	0.58473	0.117
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.91327	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.26631	0.742
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.28493	1
1-3/M82	0.67864
2-1-1/M82	0.92872
2-1/M82	N/A	N/A
2-6/M82	1.29519	0.695
3-2/M82	1.13194
4-1-1/M82	0.90204	1
4-1/M82	N/A	N/A
4-3-2/M82	1.0404
4-3/M82	N/A	N/A
5-3/M82	0.8446	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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.26587	1
WT/WTpooled	N/A	N/A

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	0.84996	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89213	1
DC3000/delta hrp 6h	0.87294	0.95
DC3000/delta hrp 12h	1.23503	1
DC3000/delta hrp 24h	0.71662	0.036

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61378	0.029
DC3000 delta B/DC3000 delta AB	0.41981	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90155	1
Exp 36h	0.96464	0.879
Exp 60h	0.7373	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97389
Var 0h	0.94688	1
Var 12h I row2-row1	0.94533
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.98585	0.805
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.83177
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	1.07289	0.833
Time course 12hI-12hNI	1.03836	0.709
Time course 36hI-36hNI	1.05187	0.58
Time course 60hI-60hNI	1.14889	0.029

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)	1.0261	0.748
transgenic ySAMdc/azygous control (breaker)	1.66528	0.178
transgenic ySAMdc/azygous control (red)	1.1045	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91913	0.064

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.24985	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.58969	0.096
Manapal/WT (break)	1.98637	0.183
Manapal/WT (red)	1.84671	0.126