Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25943	0.602
27DAP/17DAP	1.6803	0.343
39DAP/27DAP	0.68579	0.414
41DAP/39DAP	1.17192	0.575
42DAP/41DAP	0.97283	1
43DAP/42DAP	1.09156	1
47DAP/43DAP	1.45581	0.463
52DAP/47DAP	1.77399	0.268
57DAP/52DAP	1.18422	0.883

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78261	0.025
17DAP/reference	1.02436	0.585
27DAP/reference	0.96451	0.457
39DAP/reference	0.99392	0.941
41DAP/reference	1.03967	0.624
42DAP/reference	1.01295	0.901
43DAP/reference	0.95579	0.555
47DAP/reference	0.93528	0.046
52DAP/reference	0.86999	0.075
57DAP/reference	0.87986	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91056	0.509
27DAP/17DAP	1.2153	0.686
39DAP/27DAP	1.18688	0.526
41DAP/39DAP	1.10354	0.773
42DAP/41DAP	0.88159	0.262
43DAP/42DAP	1.3626	0.026
47DAP/43DAP	1.12239	0.234
52DAP/47DAP	0.94414	0.814
57DAP/52DAP	1.22127	0.389
57DAP/7DAP	1.14397	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05343	0.65
17DAP/reference	1.08197	0.822
27DAP/reference	1.03049	0.804
39DAP/reference	1.23385	0.314
41DAP/reference	1.26999	0.042
42DAP/reference	1.69536	0.014
43DAP/reference	1.68236	0.009
47DAP/reference	1.28181	0.178
52DAP/reference	1.20674	0.019
57DAP/reference	1.67872	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99033	0.77
17DAP/reference	0.86753	0.041
27DAP/reference	0.79851	0.087
39DAP/reference	0.84076	0.077
41DAP/reference	0.87555	0.11
42DAP/reference	0.8905	0.15
43DAP/reference	0.95947	0.507
47DAP/reference	0.93121	0.097
52DAP/reference	0.92232	0.023
57DAP/reference	0.9537	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99595	0.75
17DAP/reference	1.06565	0.563
27DAP/reference	1.28531	0.021
39DAP/reference	1.25282	0.022
41DAP/reference	1.00736	1
42DAP/reference	1.02941	1
43DAP/reference	1.07899	0.858
47DAP/reference	0.97047	0.465
52DAP/reference	1.17311	0.289
57DAP/reference	0.73562	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98633	1
26DAP/20DAP	0.6681	0.512
34DAP/26DAP	1.02264	1
51DAP/34DAP	0.99712	0.98
52DAP/51DAP	0.80556	1
53DAP/52DAP	1.95809	0.697
55DAP/53DAP	1.62385	0.215
57DAP/55DAP	0.65705	0.229
62DAP/57DAP	1.19152	0.185
68DAP/62DAP	0.99111	0.834
68DAP/14DAP	0.99464	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.06738	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.73574	0.287
Immature Eggplant/Mature Eggplant	0.69789	0.079
Ripe Pepper/Ripe Tomato	0.13099	0.224
Mature Eggplant/Ripe Tomato	0.59263	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13083	0.526
1-1-2/M82	0.95239	1
12-2/M82	1.18578	1
12-4/M82	0.89105	1
1-3/M82	1.09466
2-1-1/M82	1.58123
2-1/M82	1.33604
2-6/M82	0.83259
3-2/M82	1.46798
4-1-1/M82	1.24919	0.977
4-1/M82	N/A	N/A
4-3-2/M82	1.25883
4-3/M82	0.88268	1
5-3/M82	0.93229	1
6-2/M82	1.5046
6-3/M82	0.95846	1
7-1/M82	1.50863	0.925
7-2/M82	1.022	1
9-3-2/M82	1.03282

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80128
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.12543	1
WT/WTpooled	N/A	N/A

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	1.7932	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03983	0.921
DC3000/delta hrp 6h	0.82432	0.95
DC3000/delta hrp 12h	1.19247	1
DC3000/delta hrp 24h	1.14259	0.232

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	1.21532	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	2.09221	1
Exp 36h	3.2199	1
Exp 60h	1.65432	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00194	1
Var 0h	0.94614	0.457
Var 12h I row2-row1	1.16023	0.272
Var 12h NI row2-row1	1.41877	0.649
Var 36h I row2-row1	1.29534	0.601
Var 36h NI row2-row1	0.77289	0.706
Var 60h I row2-row1	0.9689	0.952
Var 60h NI row2-row1	0.78263	0.818
Time course 0hI-0hNI	1.34724	0.377
Time course 12hI-12hNI	1.45443	0.097
Time course 36hI-36hNI	2.0223	0.166
Time course 60hI-60hNI	4.33373	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)	1.1485	0.699
transgenic ySAMdc/azygous control (breaker)	0.57599	0.119
transgenic ySAMdc/azygous control (red)	1.00606	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01395	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.60676	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9466	1
Manapal/WT (break)	0.59508	0.299
Manapal/WT (red)	0.97523	0.863