Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.20.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17076	0.656
27DAP/17DAP	0.91372	0.704
39DAP/27DAP	0.99788	0.749
41DAP/39DAP	1.03869	0.949
42DAP/41DAP	1.518	0.519
43DAP/42DAP	1.05768	1
47DAP/43DAP	0.80002	0.41
52DAP/47DAP	1.22864	0.67
57DAP/52DAP	0.99542	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95442	0.145
17DAP/reference	0.99628	0.957
27DAP/reference	0.92869	0.215
39DAP/reference	0.92846	0.178
41DAP/reference	0.91007	0.267
42DAP/reference	0.88172	0.001
43DAP/reference	1.01431	0.957
47DAP/reference	0.85749	0.002
52DAP/reference	0.67931	0.032
57DAP/reference	0.73195	0.026

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03772	0.841
27DAP/17DAP	0.94512	0.748
39DAP/27DAP	1.15044	0.436
41DAP/39DAP	1.0847	1
42DAP/41DAP	1.08251	0.675
43DAP/42DAP	1.0346	0.788
47DAP/43DAP	1.1617	0.475
52DAP/47DAP	1.03091	0.919
57DAP/52DAP	0.94249	0.528
57DAP/7DAP	1.22401	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88764	0.203
17DAP/reference	0.84051	0.22
27DAP/reference	0.93669	0.248
39DAP/reference	0.83881	0.109
41DAP/reference	0.81033	0.044
42DAP/reference	0.80002	0.09
43DAP/reference	0.9298	0.321
47DAP/reference	0.99547	0.671
52DAP/reference	0.97028	0.477
57DAP/reference	0.97758	0.494

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95928	0.58
17DAP/reference	0.94635	0.164
27DAP/reference	0.78714	0.06
39DAP/reference	0.73647	0.034
41DAP/reference	0.74161	0.028
42DAP/reference	0.78039	0.023
43DAP/reference	0.9927	0.692
47DAP/reference	0.90124	0.05
52DAP/reference	0.82304	0.007
57DAP/reference	1.11264	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05952	0.303
17DAP/reference	1.10012	0.563
27DAP/reference	1.03206	0.903
39DAP/reference	0.98193	0.591
41DAP/reference	1.0218	1
42DAP/reference	0.9648	0.671
43DAP/reference	0.95708	0.484
47DAP/reference	1.0394	0.994
52DAP/reference	1.02726	0.941
57DAP/reference	0.63686	0.038

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98692	1
26DAP/20DAP	0.86579	0.512
34DAP/26DAP	0.95104	0.841
51DAP/34DAP	1.44816	0.038
52DAP/51DAP	1.02359	0.848
53DAP/52DAP	1.05688	0.819
55DAP/53DAP	1.11913	0.118
57DAP/55DAP	1.06742	0.71
62DAP/57DAP	1.1967	0.185
68DAP/62DAP	0.85497	0.641
68DAP/14DAP	0.94277	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88805	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.55652	0.115
Mature Green Tomato/Ripe Tomato	0.58418	0.029
Immature Eggplant/Mature Eggplant	1.2745	0.092
Ripe Pepper/Ripe Tomato	4.27518	0.258
Mature Eggplant/Ripe Tomato	1.08633	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09882	0.877
1-1-2/M82	0.98189	1
12-2/M82	1.13284	0.61
12-4/M82	0.86668	1
1-3/M82	0.64883	0.378
2-1-1/M82	0.91397
2-1/M82	1.05283
2-6/M82	1.18221	0.695
3-2/M82	0.88209	0.44
4-1-1/M82	1.04378	1
4-1/M82	1.34604
4-3-2/M82	1.63953	0.508
4-3/M82	0.99095	1
5-3/M82	1.04361	1
6-2/M82	0.85236	1
6-3/M82	0.99047	1
7-1/M82	0.80053
7-2/M82	0.98646	1
9-3-2/M82	1.33155	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.36538	0.277
IL2-6/WTpooled	1.48264	0.427
IL7-5/WTpooled	1.62578	1
IL7-3/WTpooled	1.6114	0.362
IL12-4/WTpooled	1.43653	0.538
IL1-4/WTpooled	1.05933	1
WT/WTpooled	0.9918	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	1.04058	0.921
DC3000/delta hrp 6h	0.95462	0.95
DC3000/delta hrp 12h	1.05538	1
DC3000/delta hrp 24h	0.98066	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.82099
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	1.13184	1
Exp 36h	0.98157	0.943
Exp 60h	1.02102	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0191	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.30672	0.406
Var 12h NI row2-row1	0.98233	0.906
Var 36h I row2-row1	1.08196	1
Var 36h NI row2-row1	1.13547	1
Var 60h I row2-row1	1.1383	0.562
Var 60h NI row2-row1	1.12674	0.904
Time course 0hI-0hNI	0.97487	0.861
Time course 12hI-12hNI	0.93631	0.225
Time course 36hI-36hNI	0.92819	0.136
Time course 60hI-60hNI	0.96958	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)	0.95261	0.428
transgenic ySAMdc/azygous control (breaker)	1.58794	0.172
transgenic ySAMdc/azygous control (red)	0.665	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01839	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.3742	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.59008	0.09
Manapal/WT (break)	1.46921	0.381
Manapal/WT (red)	1.27719	0.164