Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.3.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17189	0.534
27DAP/17DAP	1.05352	1
39DAP/27DAP	1.15544	0.8
41DAP/39DAP	1.10976	1
42DAP/41DAP	1.12561	0.898
43DAP/42DAP	1.12116	0.991
47DAP/43DAP	0.90736	0.663
52DAP/47DAP	1.13217	0.832
57DAP/52DAP	1.17001	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02556	1
17DAP/reference	1.03737	0.606
27DAP/reference	0.95411	0.552
39DAP/reference	0.90972	0.541
41DAP/reference	0.89769	0.542
42DAP/reference	0.90028	0.202
43DAP/reference	1.07115	0.928
47DAP/reference	0.91457	0.191
52DAP/reference	0.75891	0.058
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79959	0.044
27DAP/17DAP	1.32596	0.458
39DAP/27DAP	0.92659	0.87
41DAP/39DAP	0.84001	0.599
42DAP/41DAP	1.19138	0.334
43DAP/42DAP	1.08069	0.788
47DAP/43DAP	0.82665	0.543
52DAP/47DAP	0.48841	0.207
57DAP/52DAP	0.77688
57DAP/7DAP	1.47337

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.58716	0.049
17DAP/reference	1.16954	0.162
27DAP/reference	0.88916	0.348
39DAP/reference	1.05761	0.57
41DAP/reference	0.93665	0.311
42DAP/reference	1.01896	0.791
43DAP/reference	1.01333	0.727
47DAP/reference	1.07372	0.717
52DAP/reference	1.31	0.149
57DAP/reference	1.36221	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00385	0.97
17DAP/reference	1.19379	0.124
27DAP/reference	1.08898	0.516
39DAP/reference	0.82617	0.032
41DAP/reference	1.08271	0.353
42DAP/reference	0.78629	0.025
43DAP/reference	0.89615	0.404
47DAP/reference	0.89225	0.102
52DAP/reference	0.91089	0.239
57DAP/reference	0.98747	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.59123	0.015
17DAP/reference	1.15238	0.45
27DAP/reference	1.35732	0.125
39DAP/reference	1.21134	0.075
41DAP/reference	0.75916	0.05
42DAP/reference	0.9415	0.671
43DAP/reference	0.99777	0.827
47DAP/reference	1.00119	0.593
52DAP/reference	0.9973	0.871
57DAP/reference	0.95878	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00948	1
26DAP/20DAP	1.62566
34DAP/26DAP	0.90391	0.909
51DAP/34DAP	0.63661	0.069
52DAP/51DAP	0.84246	1
53DAP/52DAP	1.29287	0.356
55DAP/53DAP	0.68913	0.065
57DAP/55DAP	1.63475	0.136
62DAP/57DAP	0.76366	0.466
68DAP/62DAP	0.97021	0.81
68DAP/14DAP	0.84936	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.33879	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.61817	0.145
Mature Green Tomato/Ripe Tomato	0.79218	0.287
Immature Eggplant/Mature Eggplant	0.75879	0.092
Ripe Pepper/Ripe Tomato	2.59513	1
Mature Eggplant/Ripe Tomato	1.28293	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9662	0.961
1-1-2/M82	1.17917	1
12-2/M82	0.86743	0.955
12-4/M82	0.90513	1
1-3/M82	1.34702	0.479
2-1-1/M82	0.91483
2-1/M82	0.95528	0.322
2-6/M82	0.86192	1
3-2/M82	1.07918	0.84
4-1-1/M82	1.01939	1
4-1/M82	0.61929
4-3-2/M82	1.15916	0.508
4-3/M82	1.08441	1
5-3/M82	1.12945	0.572
6-2/M82	1.15916	0.235
6-3/M82	0.9764	1
7-1/M82	1.23791	1
7-2/M82	1.05327	1
9-3-2/M82	1.16818	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05367	0.493
IL2-6/WTpooled	0.73159	0.473
IL7-5/WTpooled	0.64366	1
IL7-3/WTpooled	1.02931	1
IL12-4/WTpooled	1.08739	0.538
IL1-4/WTpooled	0.97229	0.562
WT/WTpooled	0.98357	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	0.94584	1
DC3000/delta hrp 6h	0.88156	0.95
DC3000/delta hrp 12h	1.02977	1
DC3000/delta hrp 24h	0.88496	0.33

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	1.09684	1
Exp 36h	0.8744	0.504
Exp 60h	0.81264	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97477
Var 0h	0.40598	0.933
Var 12h I row2-row1	0.79439	0.363
Var 12h NI row2-row1	1.00849	1
Var 36h I row2-row1	1.19211	0.304
Var 36h NI row2-row1	0.95212
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.85803	0.866
Time course 0hI-0hNI	1.13751	0.323
Time course 12hI-12hNI	0.8268	0.142
Time course 36hI-36hNI	1.0547	0.58
Time course 60hI-60hNI	1.74646	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)	0.87905	0.229
transgenic ySAMdc/azygous control (breaker)	0.94646	0.49
transgenic ySAMdc/azygous control (red)	1.01584	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07839	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98912	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29775	0.084
Manapal/WT (break)	1.11743	0.381
Manapal/WT (red)	0.94225	0.315