Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.19.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1005	0.739
27DAP/17DAP	1.35305	0.688
39DAP/27DAP	0.8334	0.482
41DAP/39DAP	1.08047	0.788
42DAP/41DAP	0.9688	1
43DAP/42DAP	0.97235	0.914
47DAP/43DAP	1.18201	0.584
52DAP/47DAP	0.98215	0.89
57DAP/52DAP	0.90591	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04266	0.76
17DAP/reference	0.96753	0.393
27DAP/reference	0.92801	0.249
39DAP/reference	0.95223	0.391
41DAP/reference	0.96996	0.267
42DAP/reference	0.98396	0.384
43DAP/reference	0.93561	0.135
47DAP/reference	1.02698	0.773
52DAP/reference	0.91606	0.082
57DAP/reference	0.85989	0.023

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00395	0.826
27DAP/17DAP	0.94605	0.821
39DAP/27DAP	1.0412	0.832
41DAP/39DAP	1.18765	0.08
42DAP/41DAP	1.0253	1
43DAP/42DAP	1.0984	0.627
47DAP/43DAP	1.02126	0.951
52DAP/47DAP	0.9432	0.839
57DAP/52DAP	1.28959	0.382
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86224	0.122
17DAP/reference	0.81774	0.013
27DAP/reference	0.80967	0.022
39DAP/reference	0.83686	0.02
41DAP/reference	0.72366	0.01
42DAP/reference	0.74407	0.013
43DAP/reference	0.76456	0.012
47DAP/reference	0.69604	0.044
52DAP/reference	0.66748	0.012
57DAP/reference	0.68735	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12888	0.294
17DAP/reference	1.02939	0.824
27DAP/reference	1.07679	0.283
39DAP/reference	1.02808	0.912
41DAP/reference	0.906	0.115
42DAP/reference	0.88824	0.042
43DAP/reference	1.04165	0.598
47DAP/reference	0.89617	0.105
52DAP/reference	0.85682	0.327
57DAP/reference	1.05106	0.755

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84843	0.082
17DAP/reference	0.91696	0.135
27DAP/reference	0.84662	0.03
39DAP/reference	0.78828	0.017
41DAP/reference	0.86819	0.058
42DAP/reference	0.80747	0.087
43DAP/reference	0.85235	0.11
47DAP/reference	0.97559	0.478
52DAP/reference	0.69865	0.118
57DAP/reference	1.09151	0.625

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05448	1
26DAP/20DAP	0.90788	1
34DAP/26DAP	1.34389	1
51DAP/34DAP	1.05285	0.84
52DAP/51DAP	1.15461	0.404
53DAP/52DAP	0.89511	0.386
55DAP/53DAP	0.8619	0.389
57DAP/55DAP	1.00062	0.831
62DAP/57DAP	1.00938	1
68DAP/62DAP	1.08697	0.899
68DAP/14DAP	1.01326	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02166	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.65521	0.167
Mature Green Tomato/Ripe Tomato	0.82959	0.487
Immature Eggplant/Mature Eggplant	0.91391	0.125
Ripe Pepper/Ripe Tomato	0.99952	1
Mature Eggplant/Ripe Tomato	0.7822	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08817	0.877
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.15998	0.611
1-3/M82	0.87038	0.441
2-1-1/M82	1.00956
2-1/M82	N/A	N/A
2-6/M82	1.17225	0.329
3-2/M82	1.24099
4-1-1/M82	1.04842	0.902
4-1/M82	1.04266
4-3-2/M82	N/A	N/A
4-3/M82	0.64845	0.509
5-3/M82	0.96611	0.419
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.8724	0.394
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.84009
IL2-6/WTpooled	0.75912	0.473
IL7-5/WTpooled	1.74986	0.635
IL7-3/WTpooled	1.23606	1
IL12-4/WTpooled	1.03131	0.839
IL1-4/WTpooled	0.95239	1
WT/WTpooled	1.10105

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	0.97495	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00153	1
DC3000/delta hrp 6h	0.75963	0.81
DC3000/delta hrp 12h	1.08569	1
DC3000/delta hrp 24h	0.96917	0.794

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	1.37055	0.199

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.67313	1
Exp 36h	0.79871	0.406
Exp 60h	0.80673	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00812	1
Var 0h	0.62341	0.332
Var 12h I row2-row1	1.18585	0.348
Var 12h NI row2-row1	1.47021	1
Var 36h I row2-row1	3.11689	0.908
Var 36h NI row2-row1	0.55366	0.645
Var 60h I row2-row1	1.10261
Var 60h NI row2-row1	0.87862	0.292
Time course 0hI-0hNI	1.0114	1
Time course 12hI-12hNI	1.02887	0.931
Time course 36hI-36hNI	0.9563	0.476
Time course 60hI-60hNI	0.96731	0.646

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)	0.96348	0.338
transgenic ySAMdc/azygous control (breaker)	1.50513	0.162
transgenic ySAMdc/azygous control (red)	1.22766	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97637	0.305

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25884	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.47719	0.105
Manapal/WT (break)	0.96354	1
Manapal/WT (red)	1.05731	1