Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.7.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89378	0.522
27DAP/17DAP	1.00394	0.941
39DAP/27DAP	0.82119	0.507
41DAP/39DAP	1.30264	0.367
42DAP/41DAP	1.60072	0.514
43DAP/42DAP	0.89723	0.829
47DAP/43DAP	1.0296	0.909
52DAP/47DAP	1.21678	0.624
57DAP/52DAP	1.0252	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05791	0.846
17DAP/reference	1.04275	0.412
27DAP/reference	0.94953	0.215
39DAP/reference	1.04626	0.504
41DAP/reference	1.05695	0.421
42DAP/reference	0.9055	0.043
43DAP/reference	1.09347	0.05
47DAP/reference	0.88012	0.003
52DAP/reference	0.79597	0.046
57DAP/reference	0.72567	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94028	0.509
27DAP/17DAP	1.03692	0.912
39DAP/27DAP	1.04854	0.626
41DAP/39DAP	0.96915	0.945
42DAP/41DAP	1.05841	0.947
43DAP/42DAP	1.03514	0.585
47DAP/43DAP	0.99201	0.971
52DAP/47DAP	1.02776	0.933
57DAP/52DAP	0.96632	0.591
57DAP/7DAP	0.99567	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7074	0.086
17DAP/reference	0.60115	0.011
27DAP/reference	0.77102	0.01
39DAP/reference	0.71129	0.011
41DAP/reference	0.68647	0.022
42DAP/reference	0.79876	0.014
43DAP/reference	0.91151	0.175
47DAP/reference	0.90196	0.101
52DAP/reference	0.7029	0.012
57DAP/reference	0.49663	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06907	0.642
17DAP/reference	1.03997	0.92
27DAP/reference	0.90994	0.282
39DAP/reference	0.95433	0.359
41DAP/reference	0.8493	0.054
42DAP/reference	0.8514	0.061
43DAP/reference	1.1348	0.347
47DAP/reference	0.86639	0.056
52DAP/reference	1.072	0.528
57DAP/reference	1.44151	0.022

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74352	0.045
17DAP/reference	0.94051	0.528
27DAP/reference	0.64366	0.031
39DAP/reference	0.64671	0.015
41DAP/reference	0.80635	0.064
42DAP/reference	1.03958	0.701
43DAP/reference	0.88821	0.294
47DAP/reference	1.09853	0.519
52DAP/reference	0.97149	0.663
57DAP/reference	0.56104	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02996	0.966
26DAP/20DAP	0.83028	0.512
34DAP/26DAP	0.90887	0.488
51DAP/34DAP	0.91379	0.458
52DAP/51DAP	1.01742	0.836
53DAP/52DAP	1.03378	0.819
55DAP/53DAP	1.06983	0.584
57DAP/55DAP	1.00894	1
62DAP/57DAP	1.1562	0.133
68DAP/62DAP	0.64306	0.126
68DAP/14DAP	0.7953	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91261	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.88121	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.35792
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91891
1-1-2/M82	0.75798	0.804
12-2/M82	1.09074	1
12-4/M82	1.1189
1-3/M82	0.87128
2-1-1/M82	1.08096
2-1/M82	N/A	N/A
2-6/M82	1.28928
3-2/M82	0.99901	1
4-1-1/M82	1.1309	0.968
4-1/M82	1.06863
4-3-2/M82	0.85165	1
4-3/M82	1.04489	1
5-3/M82	0.9026	0.642
6-2/M82	1.13183
6-3/M82	0.89679
7-1/M82	1.05559
7-2/M82	1.03824	1
9-3-2/M82	0.98939	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.76619
IL2-6/WTpooled	1.16967	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97291	1
IL12-4/WTpooled	1.0731	0.737
IL1-4/WTpooled	0.87524
WT/WTpooled	1.00132	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	1.05962	0.914
DC3000/delta hrp 6h	1.32067	0.582
DC3000/delta hrp 12h	1.26295	1
DC3000/delta hrp 24h	0.9977	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95874	0.841
DC3000 delta B/DC3000 delta AB	0.99312	1

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	1.04578	1
Var 0h	1.02744	0.782
Var 12h I row2-row1	1.15073	0.348
Var 12h NI row2-row1	0.97769	0.82
Var 36h I row2-row1	0.86838	0.805
Var 36h NI row2-row1	0.99933	1
Var 60h I row2-row1	1.17307	1
Var 60h NI row2-row1	1.2505	0.904
Time course 0hI-0hNI	1.1408	0.537
Time course 12hI-12hNI	0.95702	0.725
Time course 36hI-36hNI	0.90266	0.044
Time course 60hI-60hNI	1.268	0.015

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)	1.01434	0.921
transgenic ySAMdc/azygous control (breaker)	1.20879	1
transgenic ySAMdc/azygous control (red)	0.98779	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04955	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91182	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89514	1
Manapal/WT (break)	0.84989	0.299
Manapal/WT (red)	1.08663	1