Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.8.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87672	0.373
27DAP/17DAP	0.96439	0.957
39DAP/27DAP	0.95557	0.67
41DAP/39DAP	0.88886	0.552
42DAP/41DAP	1.13894	0.841
43DAP/42DAP	0.94837	0.887
47DAP/43DAP	1.05752	0.909
52DAP/47DAP	1.1861	0.801
57DAP/52DAP	1.00844	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36058	0.009
17DAP/reference	1.20326	0.061
27DAP/reference	1.0818	0.529
39DAP/reference	1.07334	0.453
41DAP/reference	1.16714	0.041
42DAP/reference	1.02104	0.901
43DAP/reference	1.16205	0.089
47DAP/reference	1.13143	0.042
52DAP/reference	1.0638	0.878
57DAP/reference	1.31212	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98614	0.763
27DAP/17DAP	1.04195	0.885
39DAP/27DAP	0.9861	0.919
41DAP/39DAP	1.05992	0.682
42DAP/41DAP	1.00283	0.926
43DAP/42DAP	0.90137	0.044
47DAP/43DAP	1.00216	1
52DAP/47DAP	0.94091	0.719
57DAP/52DAP	0.98237	0.742
57DAP/7DAP	1.25358	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20889	0.17
17DAP/reference	1.24185	0.042
27DAP/reference	1.06331	0.246
39DAP/reference	1.01025	1
41DAP/reference	0.96412	0.431
42DAP/reference	0.93807	0.32
43DAP/reference	0.70584	0.011
47DAP/reference	1.02503	1
52DAP/reference	0.89981	0.072
57DAP/reference	1.07887	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25301	0.184
17DAP/reference	1.27191	0.05
27DAP/reference	1.25436	0.221
39DAP/reference	1.16333	0.09
41DAP/reference	0.98149	0.481
42DAP/reference	1.1254	0.121
43DAP/reference	1.00683	0.875
47DAP/reference	1.11406	0.098
52DAP/reference	0.97727	0.469
57DAP/reference	0.92408	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27539	0.019
17DAP/reference	1.07614	0.602
27DAP/reference	0.78799	0.032
39DAP/reference	0.96961	0.43
41DAP/reference	0.87668	0.096
42DAP/reference	0.84612	0.059
43DAP/reference	1.02882	0.855
47DAP/reference	1.15023	0.388
52DAP/reference	1.31365	0.119
57DAP/reference	1.22065	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12943	0.966
26DAP/20DAP	1.08425	0.727
34DAP/26DAP	0.9665	0.936
51DAP/34DAP	0.87725	0.281
52DAP/51DAP	1.05129	0.689
53DAP/52DAP	1.03541	0.935
55DAP/53DAP	1.07218	0.737
57DAP/55DAP	1.24064	0.881
62DAP/57DAP	1.32012	0.057
68DAP/62DAP	1.03136	0.939
68DAP/14DAP	0.99304	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.16951	0.113

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00231	0.908
Mature Green Tomato/Ripe Tomato	1.24263	0.016
Immature Eggplant/Mature Eggplant	1.21114	0.105
Ripe Pepper/Ripe Tomato	0.69473	0.224
Mature Eggplant/Ripe Tomato	1.23245	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98403	0.961
1-1-2/M82	0.78383
12-2/M82	0.87951	0.955
12-4/M82	1.02942	1
1-3/M82	1.5308	0.248
2-1-1/M82	1.12594	0.457
2-1/M82	0.98823	1
2-6/M82	1.14631	0.594
3-2/M82	1.10712	0.967
4-1-1/M82	0.78352
4-1/M82	1.2997	1
4-3-2/M82	1.74637
4-3/M82	1.32339	0.268
5-3/M82	1.18087	0.455
6-2/M82	1.17871
6-3/M82	1.09449	1
7-1/M82	0.89635
7-2/M82	1.13265	1
9-3-2/M82	1.05238	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.26588
IL12-4/WTpooled	0.70068	0.566
IL1-4/WTpooled	1.13516	1
WT/WTpooled	0.94625

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	1.2479	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00365	1
DC3000/delta hrp 6h	0.98214	0.95
DC3000/delta hrp 12h	1.06131	1
DC3000/delta hrp 24h	0.97885	0.897

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14947	0.145
DC3000 delta B/DC3000 delta AB	1.0838	0.423

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.71819	1
Exp 36h	1.12057	1
Exp 60h	0.99186	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01511	1
Var 0h	0.50587	1
Var 12h I row2-row1	1.0447	0.736
Var 12h NI row2-row1	0.96819	0.906
Var 36h I row2-row1	0.98713	1
Var 36h NI row2-row1	0.85526	0.549
Var 60h I row2-row1	0.9346	0.582
Var 60h NI row2-row1	1.33613	0.904
Time course 0hI-0hNI	0.92532	0.39
Time course 12hI-12hNI	1.04688	0.587
Time course 36hI-36hNI	1.23614	0.147
Time course 60hI-60hNI	1.68177	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)	1.08551	0.347
transgenic ySAMdc/azygous control (breaker)	1.55206	0.178
transgenic ySAMdc/azygous control (red)	1.30166	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1836	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05768	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93993	1
Manapal/WT (break)	1.18176	0.183
Manapal/WT (red)	1.12555	0.413