Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92147	0.586
27DAP/17DAP	0.99065	1
39DAP/27DAP	0.99668	0.782
41DAP/39DAP	1.60815	0.331
42DAP/41DAP	1.10009	1
43DAP/42DAP	0.74399	0.534
47DAP/43DAP	0.92883	0.663
52DAP/47DAP	1.98207	0.304
57DAP/52DAP	0.68482	0.536

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01842	0.928
17DAP/reference	0.96101	0.448
27DAP/reference	0.96907	0.538
39DAP/reference	1.00364	1
41DAP/reference	1.03347	0.855
42DAP/reference	1.02354	0.632
43DAP/reference	0.98253	0.763
47DAP/reference	1.00809	1
52DAP/reference	1.16025	0.045
57DAP/reference	1.08669	0.447

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.7028	0.826
27DAP/17DAP	1.56158	0.339
39DAP/27DAP	0.71498	0.031
41DAP/39DAP	1.01185
42DAP/41DAP	0.69303	0.179
43DAP/42DAP	0.47556	0.07
47DAP/43DAP	0.77877	0.175
52DAP/47DAP	1.38496	0.589
57DAP/52DAP	0.78574	0.09
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97186	0.613
17DAP/reference	0.97349	0.447
27DAP/reference	1.10684	0.197
39DAP/reference	1.10912	0.022
41DAP/reference	1.18106	0.043
42DAP/reference	1.10763	0.174
43DAP/reference	1.13732	0.039
47DAP/reference	0.96436	0.504
52DAP/reference	0.94233	0.254
57DAP/reference	1.04467	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0128	0.926
17DAP/reference	1.02326	1
27DAP/reference	1.03921	1
39DAP/reference	0.99693	0.661
41DAP/reference	1.05258	0.925
42DAP/reference	1.11059	0.324
43DAP/reference	1.22004	0.347
47DAP/reference	1.03353	0.454
52DAP/reference	1.18021	0.009
57DAP/reference	1.16777	0.048

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91421	0.127
17DAP/reference	1.13492	0.228
27DAP/reference	1.1532	0.143
39DAP/reference	1.03386	0.563
41DAP/reference	1.08937	0.734
42DAP/reference	1.02681	0.979
43DAP/reference	1.30582	0.154
47DAP/reference	1.08064	0.179
52DAP/reference	1.07767	0.534
57DAP/reference	1.43188	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90117	0.997
26DAP/20DAP	0.71649
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.01189	0.77
52DAP/51DAP	1.27905	0.662
53DAP/52DAP	0.88384	0.604
55DAP/53DAP	1.00952	0.917
57DAP/55DAP	0.91393	0.709
62DAP/57DAP	1.33387	0.133
68DAP/62DAP	1.44063	0.472
68DAP/14DAP	1.34113	0.223

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41756

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.59123
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.24012	0.877
1-1-2/M82	0.97229	1
12-2/M82	1.31352	1
12-4/M82	0.85448	1
1-3/M82	0.98127	1
2-1-1/M82	1.1421	0.689
2-1/M82	N/A	N/A
2-6/M82	0.97419	1
3-2/M82	0.75493
4-1-1/M82	0.99923	1
4-1/M82	0.9384	0.737
4-3-2/M82	0.98885
4-3/M82	0.99712	1
5-3/M82	0.96381	1
6-2/M82	0.83672	1
6-3/M82	1.03077
7-1/M82	1.03804
7-2/M82	1.00939	1
9-3-2/M82	0.90871	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00037	1
IL2-6/WTpooled	0.77027	0.473
IL7-5/WTpooled	0.89782	1
IL7-3/WTpooled	1.00825	1
IL12-4/WTpooled	1.0789	0.737
IL1-4/WTpooled	0.97021	1
WT/WTpooled	1.00323	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	1.1021	0.75
DC3000/delta hrp 6h	0.97425	0.95
DC3000/delta hrp 12h	0.95221	1
DC3000/delta hrp 24h	1.02787	0.76

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	0.87766	1
Exp 36h	2.13728	0.693
Exp 60h	1.24624	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.16006
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.05717	1
transgenic ySAMdc/azygous control (breaker)	1.36072	0.248
transgenic ySAMdc/azygous control (red)	1.16454	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03598	0.142

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5846	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00429	1
Manapal/WT (break)	0.99145	1
Manapal/WT (red)	0.91889	0.607