Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.15.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01064	0.788
27DAP/17DAP	2.09761	0.322
39DAP/27DAP	0.89875	0.608
41DAP/39DAP	1.08493	1
42DAP/41DAP	1.09856	0.916
43DAP/42DAP	0.98239	0.925
47DAP/43DAP	1.09386	0.953
52DAP/47DAP	1.61222	0.441
57DAP/52DAP	1.88974	0.533

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75835	0.024
17DAP/reference	0.98384	0.737
27DAP/reference	0.88195	0.249
39DAP/reference	0.92078	0.333
41DAP/reference	0.98656	0.814
42DAP/reference	0.82383	0.001
43DAP/reference	0.94413	0.331
47DAP/reference	0.896	0.023
52DAP/reference	0.96008	0.371
57DAP/reference	0.96917	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9416	0.595
27DAP/17DAP	1.20528	0.863
39DAP/27DAP	1.23978	0.603
41DAP/39DAP	1.29942	0.238
42DAP/41DAP	0.76237	0.231
43DAP/42DAP	0.99858	0.928
47DAP/43DAP	0.89758	0.577
52DAP/47DAP	1.18738	0.573
57DAP/52DAP	1.22087	0.777
57DAP/7DAP	1.68246

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79459	0.077
17DAP/reference	1.12628	0.162
27DAP/reference	0.9565	0.43
39DAP/reference	0.9933	0.552
41DAP/reference	0.79758	0.079
42DAP/reference	0.99577	0.531
43DAP/reference	0.93201	0.292
47DAP/reference	0.92876	0.293
52DAP/reference	1.00028	0.679
57DAP/reference	0.78563	0.048

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8694	0.124
17DAP/reference	0.89164	0.23
27DAP/reference	0.8905	0.22
39DAP/reference	0.89441	0.159
41DAP/reference	0.8961	0.148
42DAP/reference	0.85365	0.05
43DAP/reference	0.91591	0.314
47DAP/reference	0.90991	0.11
52DAP/reference	0.92371	0.156
57DAP/reference	0.93238	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09534	0.616
17DAP/reference	0.94701	0.55
27DAP/reference	1.0476	0.695
39DAP/reference	0.98354	0.544
41DAP/reference	0.88262	0.185
42DAP/reference	0.89808	0.22
43DAP/reference	0.95247	0.468
47DAP/reference	0.99835	0.687
52DAP/reference	0.80739	0.107
57DAP/reference	0.86708	0.131

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07133	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	N/A	N/A
51DAP/34DAP	0.69444
52DAP/51DAP	1.29773
53DAP/52DAP	0.86809	0.695
55DAP/53DAP	0.7503	0.043
57DAP/55DAP	0.85836	0.443
62DAP/57DAP	0.99422	0.994
68DAP/62DAP	1.18092	0.565
68DAP/14DAP	2.14123	0.265

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.58848	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.65171
Mature Eggplant/Ripe Tomato	0.28709

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.65162
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.58999
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	11.9072	1
IL12-4/WTpooled	1.95294	0.546
IL1-4/WTpooled	1.79614	1
WT/WTpooled	1.16426	0.686

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	0.90553	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.16223	0.724
DC3000/delta hrp 6h	1.6854
DC3000/delta hrp 12h	1.98877	1
DC3000/delta hrp 24h	0.53803	0.034

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	0.27166

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.83148	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00453	1
Var 0h	0.87731	0.933
Var 12h I row2-row1	1.01345	1
Var 12h NI row2-row1	0.66129	1
Var 36h I row2-row1	1.05861	1
Var 36h NI row2-row1	1.04375	1
Var 60h I row2-row1	0.94066	0.952
Var 60h NI row2-row1	0.71091	1
Time course 0hI-0hNI	0.96406	0.719
Time course 12hI-12hNI	0.82298	0.161
Time course 36hI-36hNI	0.81521	0.101
Time course 60hI-60hNI	0.68995	0.026

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)	1.27454	0.571
transgenic ySAMdc/azygous control (breaker)	0.49273	0.137
transgenic ySAMdc/azygous control (red)	1.00364	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95409	0.062

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86027	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02371	1
Manapal/WT (break)	1.03565	1
Manapal/WT (red)	0.83394	0.242