Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.1.15.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.43688	0.014
27DAP/17DAP	0.81483	0.496
39DAP/27DAP	1.04942	1
41DAP/39DAP	0.88005	0.615
42DAP/41DAP	0.91838	1
43DAP/42DAP	1.22233	0.607
47DAP/43DAP	1.06032	0.364
52DAP/47DAP	1.05114	0.906
57DAP/52DAP	1.07283	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04555	0.638
17DAP/reference	1.0508	0.412
27DAP/reference	0.98074	0.694
39DAP/reference	0.96994	0.638
41DAP/reference	1.06996	0.421
42DAP/reference	0.88047	0.011
43DAP/reference	0.97291	0.576
47DAP/reference	0.85122	0.011
52DAP/reference	0.78344	0.024
57DAP/reference	0.8674	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.44885	0.038
27DAP/17DAP	0.8228	0.259
39DAP/27DAP	0.87779	0.334
41DAP/39DAP	1.20042	0.727
42DAP/41DAP	0.72074	0.265
43DAP/42DAP	1.27348	0.413
47DAP/43DAP	0.95256	0.87
52DAP/47DAP	1.3935	0.301
57DAP/52DAP	1.88661	0.171
57DAP/7DAP	0.72653	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98671	0.613
17DAP/reference	0.8716	0.144
27DAP/reference	1.04342	1
39DAP/reference	0.92223	0.146
41DAP/reference	0.7923	0.064
42DAP/reference	0.8715	0.13
43DAP/reference	0.79537	0.061
47DAP/reference	0.77911	0.066
52DAP/reference	0.86936	0.15
57DAP/reference	0.89081	0.109

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22985	0.35
17DAP/reference	0.81083	0.031
27DAP/reference	0.7813	0.05
39DAP/reference	0.79759	0.032
41DAP/reference	0.83991	0.083
42DAP/reference	0.79742	0.027
43DAP/reference	0.88996	0.201
47DAP/reference	0.91504	0.094
52DAP/reference	0.83962	0.023
57DAP/reference	0.93765	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44229	0.024
17DAP/reference	0.86646	0.221
27DAP/reference	0.89257	0.092
39DAP/reference	0.85943	0.05
41DAP/reference	1.03329	0.984
42DAP/reference	0.83008	0.172
43DAP/reference	0.75502	0.017
47DAP/reference	0.8731	0.08
52DAP/reference	0.70156	0.15
57DAP/reference	0.61442	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13213	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.76651	0.519
51DAP/34DAP	1.14641	0.692
52DAP/51DAP	1.75346	0.522
53DAP/52DAP	1.08743	0.806
55DAP/53DAP	1.19126	0.898
57DAP/55DAP	0.79861	0.294
62DAP/57DAP	0.84707	0.28
68DAP/62DAP	1.37579	0.759
68DAP/14DAP	0.82337	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13397	0.7

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.81883	0.119
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.69542	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	1.23253	N/A
IL2-6/WTpooled	1.13326	N/A
IL7-5/WTpooled	0.85134	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.98937	1
IL1-4/WTpooled	0.99188	N/A
WT/WTpooled	0.91809	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	0.90833	0.941
DC3000/delta hrp 6h	0.98668	0.95
DC3000/delta hrp 12h	0.98742	1
DC3000/delta hrp 24h	6.10295	0.022

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79341	0.183
DC3000 delta B/DC3000 delta AB	0.50803	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.59211	1
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	1.0589	1
Var 0h	0.49513	0.332
Var 12h I row2-row1	0.77067	0.565
Var 12h NI row2-row1	0.79391	0.235
Var 36h I row2-row1	1.12048	0.908
Var 36h NI row2-row1	0.25413	0.478
Var 60h I row2-row1	0.9613	1
Var 60h NI row2-row1	0.98807	1
Time course 0hI-0hNI	0.66739	0.111
Time course 12hI-12hNI	0.96287	0.746
Time course 36hI-36hNI	0.80624	0.198
Time course 60hI-60hNI	1.31994	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)	1.42496	0.297
transgenic ySAMdc/azygous control (breaker)	2.08717	1
transgenic ySAMdc/azygous control (red)	1.81318	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92213	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97798	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.25107	0.105
Manapal/WT (break)	1.01391	1
Manapal/WT (red)	N/A	N/A