Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.4.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85934	0.413
27DAP/17DAP	0.86746	0.674
39DAP/27DAP	1.45557	0.579
41DAP/39DAP	0.79244	0.281
42DAP/41DAP	1.06847	1
43DAP/42DAP	1.10312	1
47DAP/43DAP	0.92819	0.736
52DAP/47DAP	1.16507	0.804
57DAP/52DAP	1.24936	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29808	0.685
17DAP/reference	1.01189	0.904
27DAP/reference	0.94516	0.581
39DAP/reference	0.86113	0.118
41DAP/reference	1.10853	0.714
42DAP/reference	1.17249	0.504
43DAP/reference	0.87689	0.234
47DAP/reference	1.20717	0.136
52DAP/reference	1.47494	0.158
57DAP/reference	1.33159	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96444	0.644
27DAP/17DAP	0.97626	0.887
39DAP/27DAP	1.11876	0.394
41DAP/39DAP	1.05557	0.69
42DAP/41DAP	0.99679	0.887
43DAP/42DAP	0.99645	1
47DAP/43DAP	0.9843	0.886
52DAP/47DAP	0.93873	0.726
57DAP/52DAP	0.93284	0.566
57DAP/7DAP	0.92598	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.64599	0.052
17DAP/reference	2.36451	0.008
27DAP/reference	2.08966	0.017
39DAP/reference	3.39537	0.005
41DAP/reference	3.76952	0.015
42DAP/reference	4.61973	0.006
43DAP/reference	3.48349	0.007
47DAP/reference	2.28189	0.324
52DAP/reference	2.33835	0.007
57DAP/reference	1.64834	0.082

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.005	0.592
17DAP/reference	0.62552	0.017
27DAP/reference	1.2721	0.419
39DAP/reference	0.96131	0.526
41DAP/reference	1.07713	0.944
42DAP/reference	1.30241	0.066
43DAP/reference	0.93412	0.414
47DAP/reference	1.13496	0.377
52DAP/reference	1.12074	0.747
57DAP/reference	0.95345	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54291	0.025
17DAP/reference	1.65209	0.273
27DAP/reference	1.88959	0.025
39DAP/reference	2.88181	0.004
41DAP/reference	2.11461	0.056
42DAP/reference	2.32366	0.012
43DAP/reference	1.594	0.026
47DAP/reference	1.02876	0.626
52DAP/reference	2.73755	0.061
57DAP/reference	1.68836	0.511

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.79173	0.407
26DAP/20DAP	0.66934	0.244
34DAP/26DAP	1.43062	0.819
51DAP/34DAP	0.67746	0.504
52DAP/51DAP	1.07174	0.651
53DAP/52DAP	1.33662	0.044
55DAP/53DAP	1.13044	0.547
57DAP/55DAP	0.83263	0.337
62DAP/57DAP	0.90942	0.681
68DAP/62DAP	0.95556	0.885
68DAP/14DAP	0.90828	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.35313	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.12693	0.149
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.12569	N/A
Mature Eggplant/Ripe Tomato	0.46564	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97738	N/A
1-1-2/M82	0.94777	1
12-2/M82	0.69366	N/A
12-4/M82	1.2709	1
1-3/M82	1.36919	0.479
2-1-1/M82	0.91894	N/A
2-1/M82	0.79306	N/A
2-6/M82	0.89437	1
3-2/M82	1.28699	0.463
4-1-1/M82	1.00372	1
4-1/M82	1.10875	N/A
4-3-2/M82	1.30666	0.508
4-3/M82	0.74584	0.72
5-3/M82	1.43134	0.455
6-2/M82	0.82076	N/A
6-3/M82	N/A	N/A
7-1/M82	1.29697	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.32194	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08401	0.277
IL2-6/WTpooled	0.9134	0.473
IL7-5/WTpooled	1.0731	1
IL7-3/WTpooled	1.05659	1
IL12-4/WTpooled	0.93619	0.71
IL1-4/WTpooled	1.06175	1
WT/WTpooled	0.90725	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	1.01256	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.86407	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.21009	1
DC3000/delta hrp 24h	1.69282	0.039

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.70929	0.025
DC3000 delta B/DC3000 delta AB	0.8332	0.189

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	1.03542	1
Var 0h	0.53447	0.936
Var 12h I row2-row1	0.92722	0.705
Var 12h NI row2-row1	0.95233	0.713
Var 36h I row2-row1	0.96655	1
Var 36h NI row2-row1	0.90431	0.706
Var 60h I row2-row1	0.95402	0.952
Var 60h NI row2-row1	0.8166	0.359
Time course 0hI-0hNI	1.06214	0.377
Time course 12hI-12hNI	1.0142	0.818
Time course 36hI-36hNI	1.16052	0.013
Time course 60hI-60hNI	1.73376	0.009

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.25494	1
transgenic ySAMdc/azygous control (red)	1.03232	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.33352	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.76649	0.228

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)	0.91996	0.333
Manapal/WT (red)	1.10393	1