Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.11.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88966	0.475
27DAP/17DAP	1.09592	0.88
39DAP/27DAP	1.06825	0.838
41DAP/39DAP	1.08413	0.859
42DAP/41DAP	1.16443	0.786
43DAP/42DAP	1.1488	0.985
47DAP/43DAP	1.09334	0.856
52DAP/47DAP	1.23055	0.626
57DAP/52DAP	0.7441	0.473

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13174	0.025
17DAP/reference	0.89792	0.24
27DAP/reference	0.67071	0.014
39DAP/reference	0.99163	0.828
41DAP/reference	0.84615	0.039
42DAP/reference	1.53485	0.001
43DAP/reference	1.12561	0.083
47DAP/reference	1.0109	0.674
52DAP/reference	0.81848	0.093
57DAP/reference	1.07066	0.478

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11587	0.558
27DAP/17DAP	0.98884	0.919
39DAP/27DAP	1.03226	0.779
41DAP/39DAP	1.16363	0.371
42DAP/41DAP	0.98601	0.764
43DAP/42DAP	1.81491	0.013
47DAP/43DAP	1.26237	0.028
52DAP/47DAP	0.62255	0.05
57DAP/52DAP	0.79632	0.16
57DAP/7DAP	1.12221	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4841	0.034
17DAP/reference	1.22082	0.032
27DAP/reference	1.31875	0.023
39DAP/reference	1.39984	0.008
41DAP/reference	1.59394	0.011
42DAP/reference	1.72525	0.007
43DAP/reference	1.47972	0.008
47DAP/reference	1.47579	0.033
52DAP/reference	1.79384	0.007
57DAP/reference	1.59327	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15028	0.308
17DAP/reference	1.1574	0.203
27DAP/reference	1.17443	0.265
39DAP/reference	1.12693	0.29
41DAP/reference	1.34782	0.142
42DAP/reference	1.3567	0.081
43DAP/reference	1.01147	0.748
47DAP/reference	1.85818	0.008
52DAP/reference	1.04451	1
57DAP/reference	1.27786	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.136	0.258
17DAP/reference	1.10862	0.159
27DAP/reference	1.10657	0.111
39DAP/reference	1.5131	0.009
41DAP/reference	1.44095	0.007
42DAP/reference	1.34196	0.027
43DAP/reference	1.22128	0.094
47DAP/reference	0.94899	0.396
52DAP/reference	1.17581	0.237
57DAP/reference	1.27188	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03993	1
26DAP/20DAP	1.07991	0.916
34DAP/26DAP	0.83296	0.548
51DAP/34DAP	1.16124	0.154
52DAP/51DAP	0.99139	1
53DAP/52DAP	1.28119	0.086
55DAP/53DAP	0.97535	0.515
57DAP/55DAP	1.49056	0.118
62DAP/57DAP	0.68027	0.003
68DAP/62DAP	1.3227	0.058
68DAP/14DAP	1.76381	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30108	0.041

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.96078	0.765
Mature Green Tomato/Ripe Tomato	0.64879	0.042
Immature Eggplant/Mature Eggplant	1.65077	0.101
Ripe Pepper/Ripe Tomato	0.4628	0.224
Mature Eggplant/Ripe Tomato	0.42717	0.234

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	0.95004
1-3/M82	N/A	N/A
2-1-1/M82	0.83822
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	2.02356
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.38243
4-3/M82	1.36127
5-3/M82	0.98878	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.33849
7-2/M82	1.3068
9-3-2/M82	0.98927

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.23564	0.277
IL2-6/WTpooled	0.93515	0.337
IL7-5/WTpooled	1.84172	0.622
IL7-3/WTpooled	1.08666	1
IL12-4/WTpooled	1.11696	0.516
IL1-4/WTpooled	1.03254	1
WT/WTpooled	1.00193	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	1.27336	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93052	1
DC3000/delta hrp 6h	0.96779	0.95
DC3000/delta hrp 12h	1.17683	1
DC3000/delta hrp 24h	1.69473	0.032

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.32388
DC3000 delta B/DC3000 delta AB	1.72773	0.089

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16554	1
Exp 36h	1.61673	0.693
Exp 60h	1.50876	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04337	1
Var 0h	0.94621	1
Var 12h I row2-row1	1.01046	0.736
Var 12h NI row2-row1	1.27154	0.281
Var 36h I row2-row1	0.91544	1
Var 36h NI row2-row1	1.10909	1
Var 60h I row2-row1	0.7851	0.582
Var 60h NI row2-row1	0.88239	0.932
Time course 0hI-0hNI	0.93454	0.386
Time course 12hI-12hNI	1.51143	0.006
Time course 36hI-36hNI	2.06834	0.006
Time course 60hI-60hNI	5.11004	0.008

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)	1.08488	0.289
transgenic ySAMdc/azygous control (breaker)	0.58569	0.118
transgenic ySAMdc/azygous control (red)	0.87384	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00299	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9797	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.021	1
Manapal/WT (break)	0.9053	1
Manapal/WT (red)	1.1343	0.413