Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10396	0.67
27DAP/17DAP	1.0002	0.967
39DAP/27DAP	0.99061	0.7
41DAP/39DAP	1.47147	0.432
42DAP/41DAP	1.02823	1
43DAP/42DAP	1.02035	0.937
47DAP/43DAP	0.85393	0.496
52DAP/47DAP	1.7812	0.424
57DAP/52DAP	0.7524	0.727

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09049	0.685
17DAP/reference	0.99501	0.904
27DAP/reference	1.01765	0.909
39DAP/reference	1.06811	0.368
41DAP/reference	1.07756	0.667
42DAP/reference	1.2114	0.119
43DAP/reference	0.97663	0.691
47DAP/reference	1.01392	0.636
52DAP/reference	1.07871	0.407
57DAP/reference	1.15498	0.344

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26994	0.65
27DAP/17DAP	1.21309	0.37
39DAP/27DAP	0.84211	0.279
41DAP/39DAP	1.25471	0.748
42DAP/41DAP	0.98556	0.781
43DAP/42DAP	1.06729	1
47DAP/43DAP	1.03965	0.973
52DAP/47DAP	1.09702	0.713
57DAP/52DAP	0.8173	0.137
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86339	0.095
17DAP/reference	0.8823	0.011
27DAP/reference	0.91594	0.076
39DAP/reference	0.90818	0.011
41DAP/reference	0.90982	0.111
42DAP/reference	0.92747	0.028
43DAP/reference	0.77253	0.014
47DAP/reference	0.82632	0.101
52DAP/reference	0.86191	0.15
57DAP/reference	0.73015	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36382	0.187
17DAP/reference	1.24949	0.05
27DAP/reference	1.28294	0.278
39DAP/reference	1.0246	0.912
41DAP/reference	1.08332	0.705
42DAP/reference	1.14812	0.195
43DAP/reference	1.50322	0.02
47DAP/reference	1.42867	0.011
52DAP/reference	1.25023	0.036
57DAP/reference	1.32377	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8855	0.127
17DAP/reference	1.07142	0.641
27DAP/reference	0.86713	0.085
39DAP/reference	0.83033	0.033
41DAP/reference	1.02911	1
42DAP/reference	0.96897	0.552
43DAP/reference	1.01774	0.858
47DAP/reference	1.10701	0.14
52DAP/reference	0.90569	0.376
57DAP/reference	1.08893	0.771

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99107	1
26DAP/20DAP	1.10059	0.855
34DAP/26DAP	1.31606	0.542
51DAP/34DAP	0.80707	0.213
52DAP/51DAP	0.95996	1
53DAP/52DAP	0.74713	0.311
55DAP/53DAP	1.24122	0.295
57DAP/55DAP	1.51241	0.935
62DAP/57DAP	1.13689	0.723
68DAP/62DAP	0.91803	0.722
68DAP/14DAP	0.73465	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.43779	0.046

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	13.0211	0.058
Mature Green Tomato/Ripe Tomato	0.64117	0.226
Immature Eggplant/Mature Eggplant	13.5593	0.05
Ripe Pepper/Ripe Tomato	3.1248	0.258
Mature Eggplant/Ripe Tomato	2.98457

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.025
1-1-2/M82	1.10669
12-2/M82	N/A	N/A
12-4/M82	0.9584	1
1-3/M82	N/A	N/A
2-1-1/M82	1.04223
2-1/M82	N/A	N/A
2-6/M82	0.93207	1
3-2/M82	1.26752
4-1-1/M82	0.98643	1
4-1/M82	1.15207	1
4-3-2/M82	0.84461	0.698
4-3/M82	0.81056
5-3/M82	1.05707	1
6-2/M82	N/A	N/A
6-3/M82	0.96521
7-1/M82	1.06925
7-2/M82	1.32671	0.291
9-3-2/M82	0.72683	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.46568	0.277
IL2-6/WTpooled	0.31817	0.473
IL7-5/WTpooled	1.14768	1
IL7-3/WTpooled	1.26542	1
IL12-4/WTpooled	1.48487	0.532
IL1-4/WTpooled	1.70287	1
WT/WTpooled	1.01158	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	1.43057	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00875	1
DC3000/delta hrp 6h	1.43882	1
DC3000/delta hrp 12h	0.99151	1
DC3000/delta hrp 24h	1.04624	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18966
DC3000 delta B/DC3000 delta AB	0.85477	0.036

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18672	0.228
Exp 36h	0.88231	0.879
Exp 60h	0.89907	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96241	1
Var 0h	0.35315	0.232
Var 12h I row2-row1	0.6871	0.39
Var 12h NI row2-row1	0.94082	0.627
Var 36h I row2-row1	0.91239	1
Var 36h NI row2-row1	1.10178	0.482
Var 60h I row2-row1	0.8587	0.832
Var 60h NI row2-row1	0.93794	0.866
Time course 0hI-0hNI	1.04668	0.764
Time course 12hI-12hNI	0.90048	0.387
Time course 36hI-36hNI	1.07962	0.355
Time course 60hI-60hNI	1.78008	0.029

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)	1.02741	0.571
transgenic ySAMdc/azygous control (breaker)	0.6029	0.134
transgenic ySAMdc/azygous control (red)	1.11253	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99528	0.832

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77692	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.21042	0.083
Manapal/WT (break)	1.63305	0.14
Manapal/WT (red)	0.92872	0.728