Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.12.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00945	0.728
27DAP/17DAP	1.17474	0.88
39DAP/27DAP	0.8242	0.382
41DAP/39DAP	1.39546	0.118
42DAP/41DAP	1.57577	0.877
43DAP/42DAP	0.87743	0.801
47DAP/43DAP	1.09813	0.756
52DAP/47DAP	1.43576	0.538
57DAP/52DAP	0.70906	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99086	0.693
17DAP/reference	1.13192	0.044
27DAP/reference	0.97339	0.567
39DAP/reference	0.96217	0.391
41DAP/reference	1.09047	0.338
42DAP/reference	0.87705	0.012
43DAP/reference	1.06058	0.269
47DAP/reference	0.98132	0.473
52DAP/reference	0.82763	0.033
57DAP/reference	0.71463	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92238	0.526
27DAP/17DAP	1.40416	0.108
39DAP/27DAP	0.95737	0.804
41DAP/39DAP	0.99865	0.968
42DAP/41DAP	1.39984	0.487
43DAP/42DAP	2.04708	0.413
47DAP/43DAP	0.98456	0.923
52DAP/47DAP	1.08126	0.785
57DAP/52DAP	1.32888	0.082
57DAP/7DAP	0.99517	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06796	0.927
17DAP/reference	0.79474	0.064
27DAP/reference	1.05091	0.664
39DAP/reference	0.8431	0.083
41DAP/reference	0.89663	0.194
42DAP/reference	0.84181	0.16
43DAP/reference	0.82379	0.011
47DAP/reference	0.78555	0.168
52DAP/reference	0.83299	0.072
57DAP/reference	0.88436	0.149

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11475	0.679
17DAP/reference	1.0632	0.543
27DAP/reference	0.99772	0.735
39DAP/reference	0.96268	0.265
41DAP/reference	0.84184	0.047
42DAP/reference	0.73618	0.021
43DAP/reference	1.04616	0.957
47DAP/reference	0.90258	0.069
52DAP/reference	1.03243	0.938
57DAP/reference	1.18391	0.277

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88233	0.29
17DAP/reference	1.09449	0.706
27DAP/reference	1.08758	0.392
39DAP/reference	0.97617	0.591
41DAP/reference	0.95038	0.417
42DAP/reference	0.945	0.552
43DAP/reference	0.99769	0.568
47DAP/reference	1.00665	0.708
52DAP/reference	1.02255	0.965
57DAP/reference	0.69529	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92612	1
26DAP/20DAP	1.09433	0.785
34DAP/26DAP	0.73483	0.702
51DAP/34DAP	1.29973	0.706
52DAP/51DAP	0.97847	1
53DAP/52DAP	0.7888
55DAP/53DAP	0.82497	0.445
57DAP/55DAP	1.0934	0.968
62DAP/57DAP	0.96435	0.994
68DAP/62DAP	0.70992	0.245
68DAP/14DAP	0.96483	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.39363	0.172

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.22367	0.666
Mature Green Tomato/Ripe Tomato	0.59528	0.377
Immature Eggplant/Mature Eggplant	2.31771	0.05
Ripe Pepper/Ripe Tomato	0.60263	0.224
Mature Eggplant/Ripe Tomato	0.74857	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.48294
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.02458	1
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	1.17433
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.92821	1
9-3-2/M82	0.54552

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.94498	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.12276	1
IL12-4/WTpooled	0.7958	0.581
IL1-4/WTpooled	0.87199
WT/WTpooled	0.90687	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	1.04795	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90526	0.571
DC3000/delta hrp 6h	0.89589	0.95
DC3000/delta hrp 12h	0.78251	1
DC3000/delta hrp 24h	1.163	0.69

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	0.82102	0.328
Exp 36h	1.23981	0.693
Exp 60h	1.33273	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99983	1
Var 0h	0.86953	0.98
Var 12h I row2-row1	1.0599	0.613
Var 12h NI row2-row1	1.33926	1
Var 36h I row2-row1	0.98781	1
Var 36h NI row2-row1	0.80372	0.706
Var 60h I row2-row1	0.80009
Var 60h NI row2-row1	1.22434	0.904
Time course 0hI-0hNI	0.9931	1
Time course 12hI-12hNI	1.15814	0.102
Time course 36hI-36hNI	1.23438	0.114
Time course 60hI-60hNI	2.14527	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)	0.95501	0.338
transgenic ySAMdc/azygous control (breaker)	0.82843	0.119
transgenic ySAMdc/azygous control (red)	1.01301	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97277	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04861	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05936	1
Manapal/WT (break)	1.02511	1
Manapal/WT (red)	0.68832	0.181