Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.10.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67622	0.221
27DAP/17DAP	0.84446	0.787
39DAP/27DAP	1.24311	0.622
41DAP/39DAP	1.10339	0.85
42DAP/41DAP	3.3527	0.73
43DAP/42DAP	0.88519	0.829
47DAP/43DAP	0.89134	0.625
52DAP/47DAP	1.13843	0.913
57DAP/52DAP	1.29297	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81573	0.05
17DAP/reference	0.93629	0.342
27DAP/reference	0.98991	0.741
39DAP/reference	0.7596	0.024
41DAP/reference	0.82564	0.049
42DAP/reference	0.65987	0.03
43DAP/reference	0.90732	0.273
47DAP/reference	0.88019	0.106
52DAP/reference	1.09828	0.286
57DAP/reference	1.07165	0.31

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09689	0.414
27DAP/17DAP	1.32028	0.447
39DAP/27DAP	0.77492	0.251
41DAP/39DAP	0.95535	0.959
42DAP/41DAP	1.03257	0.816
43DAP/42DAP	1.03331	1
47DAP/43DAP	1.34618	0.121
52DAP/47DAP	0.87379	0.553
57DAP/52DAP	1.14743	0.659
57DAP/7DAP	1.73554	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13881	0.241
17DAP/reference	1.10911	0.297
27DAP/reference	1.16549	0.197
39DAP/reference	1.21549	0.126
41DAP/reference	1.08209	0.701
42DAP/reference	1.04617	0.889
43DAP/reference	1.0995	0.603
47DAP/reference	0.99437	1
52DAP/reference	0.72674	0.057
57DAP/reference	1.05739	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9316	0.457
17DAP/reference	0.73143	0.03
27DAP/reference	0.93211	0.282
39DAP/reference	0.99654	0.603
41DAP/reference	0.90989	0.212
42DAP/reference	0.97517	0.482
43DAP/reference	0.79258	0.108
47DAP/reference	0.79301	0.01
52DAP/reference	0.99847	0.619
57DAP/reference	0.67321	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83757	0.112
17DAP/reference	0.92136	0.335
27DAP/reference	1.19628	0.019
39DAP/reference	0.87231	0.328
41DAP/reference	1.08546	0.621
42DAP/reference	1.06752	0.576
43DAP/reference	1.12398	0.355
47DAP/reference	0.85759	0.259
52DAP/reference	0.85369	0.142
57DAP/reference	1.10769	0.385

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9164	1
26DAP/20DAP	0.699	0.512
34DAP/26DAP	1.01998	1
51DAP/34DAP	0.68878	0.084
52DAP/51DAP	1.47415	0.377
53DAP/52DAP	1.4251	0.117
55DAP/53DAP	1.54649	0.444
57DAP/55DAP	0.83787	0.475
62DAP/57DAP	0.84266	0.466
68DAP/62DAP	1.62413	0.507
68DAP/14DAP	1.79408	0.061

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24386	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	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	0.15036
12-4/M82	1.18608
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	0.88279	0.321
IL2-6/WTpooled	1.0181	0.788
IL7-5/WTpooled	0.89136	1
IL7-3/WTpooled	1.05079	1
IL12-4/WTpooled	1.00291	1
IL1-4/WTpooled	0.97608	0.562
WT/WTpooled	1.02835	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	0.72343
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.50892	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.68998	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99292	1
Var 0h	0.52229	0.98
Var 12h I row2-row1	5.31185	0.613
Var 12h NI row2-row1	0.8119	0.546
Var 36h I row2-row1	0.85608	0.305
Var 36h NI row2-row1	0.94754	0.791
Var 60h I row2-row1	1.0317	1
Var 60h NI row2-row1	1.40328	0.361
Time course 0hI-0hNI	0.8808	0.427
Time course 12hI-12hNI	1.05564	0.994
Time course 36hI-36hNI	1.4327	0.08
Time course 60hI-60hNI	0.82872	0.047

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.12949	1
transgenic ySAMdc/azygous control (red)	1.78254	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.2408	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.58546	0.083
Manapal/WT (break)	1.08392	1
Manapal/WT (red)	N/A	N/A