Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.13.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87999	0.456
27DAP/17DAP	1.16474	0.859
39DAP/27DAP	0.98721	0.749
41DAP/39DAP	1.54719	0.293
42DAP/41DAP	1.22797	0.945
43DAP/42DAP	0.91256	0.829
47DAP/43DAP	0.9142	0.64
52DAP/47DAP	1.876	0.242
57DAP/52DAP	0.94894	0.947

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95489	0.284
17DAP/reference	1.04921	0.108
27DAP/reference	1.00983	0.996
39DAP/reference	1.00525	0.8
41DAP/reference	1.02038	0.759
42DAP/reference	0.98912	0.425
43DAP/reference	1.00513	0.924
47DAP/reference	1.01556	0.885
52DAP/reference	0.97698	0.504
57DAP/reference	1.10234	0.419

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96607	0.663
27DAP/17DAP	1.06265	0.863
39DAP/27DAP	1.07381	0.581
41DAP/39DAP	1.2253	0.55
42DAP/41DAP	0.93337	0.52
43DAP/42DAP	1.06351	0.554
47DAP/43DAP	0.97565	0.886
52DAP/47DAP	1.01052	1
57DAP/52DAP	0.93107	0.467
57DAP/7DAP	1.09004	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99843	0.758
17DAP/reference	0.87573	0.108
27DAP/reference	0.91375	0.024
39DAP/reference	0.8386	0.02
41DAP/reference	0.8597	0.021
42DAP/reference	0.91786	0.073
43DAP/reference	0.7774	0.014
47DAP/reference	0.87354	0.293
52DAP/reference	0.97548	0.398
57DAP/reference	0.86349	0.114

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12806	0.234
17DAP/reference	0.98064	0.594
27DAP/reference	0.94319	0.381
39DAP/reference	0.91035	0.221
41DAP/reference	0.91646	0.199
42DAP/reference	1.05541	0.73
43DAP/reference	1.06485	0.697
47DAP/reference	1.14337	0.059
52DAP/reference	1.03818	0.596
57DAP/reference	1.09519	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85997	0.044
17DAP/reference	1.04018	0.563
27DAP/reference	0.92688	0.047
39DAP/reference	0.94504	0.147
41DAP/reference	0.92042	0.148
42DAP/reference	0.92897	0.361
43DAP/reference	0.80534	0.049
47DAP/reference	1.01807	1
52DAP/reference	0.95058	0.464
57DAP/reference	0.75383	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01225	1
26DAP/20DAP	0.93985	1
34DAP/26DAP	0.91701	0.783
51DAP/34DAP	1.04392	0.627
52DAP/51DAP	1.01872	0.904
53DAP/52DAP	1.08914	0.688
55DAP/53DAP	1.12504	0.555
57DAP/55DAP	1.05915	0.986
62DAP/57DAP	1.05997	1
68DAP/62DAP	0.86107	0.464
68DAP/14DAP	0.70207	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9833	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.86273	0.411
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	5.0413

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01468	1
1-1-2/M82	0.85246	0.958
12-2/M82	1.20708	1
12-4/M82	0.91113	1
1-3/M82	0.86924	0.33
2-1-1/M82	1.23293	0.422
2-1/M82	N/A	N/A
2-6/M82	1.10202	0.695
3-2/M82	0.91472
4-1-1/M82	0.94243	1
4-1/M82	0.90485	0.665
4-3-2/M82	0.92954	0.698
4-3/M82	0.70677	0.551
5-3/M82	0.9536	1
6-2/M82	0.8266	1
6-3/M82	1.01642	1
7-1/M82	1.14178
7-2/M82	0.96091	1
9-3-2/M82	0.72451	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.85563	0.473
IL7-5/WTpooled	0.93985
IL7-3/WTpooled	1.12012	1
IL12-4/WTpooled	1.03697	1
IL1-4/WTpooled	1.06926	1
WT/WTpooled	1.01559	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	1.1157	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00959	1
DC3000/delta hrp 6h	0.51667
DC3000/delta hrp 12h	1.48469	1
DC3000/delta hrp 24h	0.96445	0.769

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20124
DC3000 delta B/DC3000 delta AB	1.20312	0.296

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01088	1
Exp 36h	1.44093	1
Exp 60h	1.11398	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95128	1
Var 0h	0.77929	1
Var 12h I row2-row1	1.21776	0.324
Var 12h NI row2-row1	0.90019	0.627
Var 36h I row2-row1	0.92164	0.805
Var 36h NI row2-row1	0.94018	0.706
Var 60h I row2-row1	1.48185	1
Var 60h NI row2-row1	1.3608	0.904
Time course 0hI-0hNI	1.08628	0.799
Time course 12hI-12hNI	1.08885	0.445
Time course 36hI-36hNI	0.90006	0.198
Time course 60hI-60hNI	1.06213	0.302

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)	1.23186	0.921
transgenic ySAMdc/azygous control (breaker)	0.8823	0.251
transgenic ySAMdc/azygous control (red)	1.04319	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00385	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95806	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97407	1
Manapal/WT (break)	0.80787	1
Manapal/WT (red)	N/A	N/A