Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.18.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20862	0.997
27DAP/17DAP	1.17375	1
39DAP/27DAP	0.95001	0.663
41DAP/39DAP	1.36207	0.603
42DAP/41DAP	1.381	0.876
43DAP/42DAP	0.81497	0.761
47DAP/43DAP	0.81146	0.407
52DAP/47DAP	1.31495	0.463
57DAP/52DAP	0.75045	0.53

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86374	0.057
17DAP/reference	0.97274	0.63
27DAP/reference	1.02078	0.759
39DAP/reference	0.92159	0.03
41DAP/reference	0.95601	0.542
42DAP/reference	0.90816	0.013
43DAP/reference	0.93213	0.259
47DAP/reference	0.97928	0.366
52DAP/reference	1.03951	0.633
57DAP/reference	1.04202	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85464	0.484
27DAP/17DAP	1.2923	0.523
39DAP/27DAP	1.31419	0.811
41DAP/39DAP	1.33811	0.407
42DAP/41DAP	0.90618	0.524
43DAP/42DAP	0.62874	0.073
47DAP/43DAP	1.51904	0.051
52DAP/47DAP	0.99175	0.917
57DAP/52DAP	0.78885	0.244
57DAP/7DAP	1.91845	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19761	0.241
17DAP/reference	1.29798	0.007
27DAP/reference	1.39295	0.035
39DAP/reference	1.01469	1
41DAP/reference	1.11389	0.614
42DAP/reference	1.18316	0.308
43DAP/reference	1.40201	0.111
47DAP/reference	1.25154	0.195
52DAP/reference	1.37862	0.011
57DAP/reference	1.35408	0.046

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8599	0.182
17DAP/reference	0.81023	0.063
27DAP/reference	0.95693	0.366
39DAP/reference	0.93383	0.274
41DAP/reference	1.08136	1
42DAP/reference	0.88875	0.055
43DAP/reference	0.83316	0.105
47DAP/reference	0.91534	0.184
52DAP/reference	0.92606	0.28
57DAP/reference	0.99575	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89193	0.391
17DAP/reference	1.01923	0.918
27DAP/reference	1.16951	0.425
39DAP/reference	1.05876	0.365
41DAP/reference	1.04607	0.692
42DAP/reference	1.20315	0.084
43DAP/reference	1.0962	0.655
47DAP/reference	0.82521	0.249
52DAP/reference	1.17287	0.278
57DAP/reference	0.88188	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09005	0.966
26DAP/20DAP	0.66591
34DAP/26DAP	0.92483	0.763
51DAP/34DAP	2.71006	0.261
52DAP/51DAP	1.15324	0.842
53DAP/52DAP	1.65331	0.23
55DAP/53DAP	1.51717	0.225
57DAP/55DAP	2.13144	0.854
62DAP/57DAP	1.5584	0.833
68DAP/62DAP	1.72901	0.017
68DAP/14DAP	1.24057	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89006	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.43501	0.063
Mature Green Tomato/Ripe Tomato	0.84463	0.411
Immature Eggplant/Mature Eggplant	3.75597	1
Ripe Pepper/Ripe Tomato	0.97964
Mature Eggplant/Ripe Tomato	0.32109	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.92575
12-2/M82	1.31139
12-4/M82	0.73339	0.619
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	0.6125	0.345
2-6/M82	N/A	N/A
3-2/M82	0.82633
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.72604
4-3/M82	N/A	N/A
5-3/M82	0.81172	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	2.3161
9-3-2/M82	0.92123

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01813	1
IL2-6/WTpooled	1.04417	0.531
IL7-5/WTpooled	0.62851	1
IL7-3/WTpooled	1.00208	1
IL12-4/WTpooled	1.1663	0.695
IL1-4/WTpooled	1.12582	1
WT/WTpooled	1.07579	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	1.50959	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02345	0.921
DC3000/delta hrp 6h	1.23903	1
DC3000/delta hrp 12h	1.11098	1
DC3000/delta hrp 24h	0.83241	0.092

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	1.30408	1
Exp 36h	1.92224	0.489
Exp 60h	1.41199	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9162	1
Var 0h	1.73521	0.936
Var 12h I row2-row1	1.32568	0.379
Var 12h NI row2-row1	1.86455	1
Var 36h I row2-row1	1.25858	0.742
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	1.16618	1
Var 60h NI row2-row1	0.64815	1
Time course 0hI-0hNI	1.36655	0.764
Time course 12hI-12hNI	1.80339	0.014
Time course 36hI-36hNI	6.75109	0.005
Time course 60hI-60hNI	8.77076	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)	0.97356	0.722
transgenic ySAMdc/azygous control (breaker)	0.61394	0.137
transgenic ySAMdc/azygous control (red)	0.80376	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.29442	0.1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.19921	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90113	1
Manapal/WT (break)	1.48815	0.183
Manapal/WT (red)	0.27205	0.183