Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78979	0.11
27DAP/17DAP	0.9802	0.932
39DAP/27DAP	1.58947	0.093
41DAP/39DAP	0.82669	0.367
42DAP/41DAP	1.16792	0.871
43DAP/42DAP	0.92323	0.801
47DAP/43DAP	0.69444	0.177
52DAP/47DAP	0.80586	0.526
57DAP/52DAP	1.03562	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49429	0.038
17DAP/reference	1.08322	0.717
27DAP/reference	0.97675	0.668
39DAP/reference	1.14724	0.504
41DAP/reference	0.93176	0.341
42DAP/reference	1.50489	0.001
43DAP/reference	1.47769	0.008
47DAP/reference	1.1571	0.015
52DAP/reference	0.82843	0.091
57DAP/reference	1.28936	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04987	0.728
27DAP/17DAP	0.88428	0.446
39DAP/27DAP	0.95887	0.496
41DAP/39DAP	1.2769	0.382
42DAP/41DAP	0.97922	0.816
43DAP/42DAP	0.84272	0.046
47DAP/43DAP	1.04443	0.822
52DAP/47DAP	0.7265	0.078
57DAP/52DAP	0.93809	0.56
57DAP/7DAP	0.75516	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41833	0.025
17DAP/reference	1.36354	0.008
27DAP/reference	1.51704	0.007
39DAP/reference	1.45445	0.006
41DAP/reference	1.34215	0.012
42DAP/reference	1.5021	0.008
43DAP/reference	1.38048	0.011
47DAP/reference	1.28538	0.071
52DAP/reference	1.7523	0.007
57DAP/reference	1.56008	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28554	0.294
17DAP/reference	1.41786	0.049
27DAP/reference	1.33572	0.171
39DAP/reference	1.14245	0.389
41DAP/reference	1.297	0.018
42DAP/reference	1.3786	0.008
43DAP/reference	1.19283	0.242
47DAP/reference	1.60315	0.008
52DAP/reference	0.80364	0.156
57DAP/reference	0.98428	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39826	0.016
17DAP/reference	1.05663	0.689
27DAP/reference	1.16494	0.039
39DAP/reference	1.43738	0.009
41DAP/reference	1.28046	0.025
42DAP/reference	1.60514	0.014
43DAP/reference	1.53461	0.019
47DAP/reference	1.07469	0.501
52DAP/reference	1.35767	0.071
57DAP/reference	1.10202	0.324

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.078	1
26DAP/20DAP	1.97343	0.099
34DAP/26DAP	0.87743	0.653
51DAP/34DAP	0.78172	0.097
52DAP/51DAP	0.65896	0.151
53DAP/52DAP	1.17649	0.343
55DAP/53DAP	0.6531	0.027
57DAP/55DAP	1.44165	0.935
62DAP/57DAP	0.90524	0.681
68DAP/62DAP	0.78389	0.29
68DAP/14DAP	0.71988	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.93206	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12627	0.063
Mature Green Tomato/Ripe Tomato	1.29618	0.478
Immature Eggplant/Mature Eggplant	1.04985	0.398
Ripe Pepper/Ripe Tomato	0.85044	1
Mature Eggplant/Ripe Tomato	0.84684	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90657	0.944
1-1-2/M82	1.21148	1
12-2/M82	0.89746
12-4/M82	1.03948	1
1-3/M82	2.03725
2-1-1/M82	0.91183	0.683
2-1/M82	0.68386	0.519
2-6/M82	1.18779	0.405
3-2/M82	0.74247
4-1-1/M82	1.43818	0.739
4-1/M82	1.25725	1
4-3-2/M82	1.64133	0.241
4-3/M82	1.45515	1
5-3/M82	1.26245	1
6-2/M82	N/A	N/A
6-3/M82	0.67756	0.916
7-1/M82	0.81436	0.443
7-2/M82	1.29971	0.385
9-3-2/M82	1.41024	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.28278	0.277
IL2-6/WTpooled	0.77457	0.348
IL7-5/WTpooled	1.25444	1
IL7-3/WTpooled	1.21939	1
IL12-4/WTpooled	1.19238	0.516
IL1-4/WTpooled	0.71644	0.444
WT/WTpooled	1.03452	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	0.9782	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09206	0.692
DC3000/delta hrp 6h	0.94284	0.95
DC3000/delta hrp 12h	1.10165	1
DC3000/delta hrp 24h	1.07398	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18018	0.333
DC3000 delta B/DC3000 delta AB	1.22511	0.288

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91323	1
Exp 36h	1.1526	1
Exp 60h	0.91413	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99478	1
Var 0h	0.90538	1
Var 12h I row2-row1	0.96042	0.948
Var 12h NI row2-row1	1.18014	1
Var 36h I row2-row1	1.17233	0.283
Var 36h NI row2-row1	0.87785	0.706
Var 60h I row2-row1	0.89024	0.832
Var 60h NI row2-row1	0.7736	0.292
Time course 0hI-0hNI	0.84628	0.161
Time course 12hI-12hNI	1.06524	0.373
Time course 36hI-36hNI	1.32727	0.248
Time course 60hI-60hNI	1.39608	0.022

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)	1.03823	0.571
transgenic ySAMdc/azygous control (breaker)	1.08112	1
transgenic ySAMdc/azygous control (red)	1.10777	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.4065	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11854	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93361	1
Manapal/WT (break)	1.2204	1
Manapal/WT (red)	1.2755	0.15