Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97821	0.664
27DAP/17DAP	0.85555	0.898
39DAP/27DAP	1.04953	1
41DAP/39DAP	0.427
42DAP/41DAP	1.08481	1
43DAP/42DAP	1.24664	0.728
47DAP/43DAP	0.91963	0.736
52DAP/47DAP	1.48589	0.851
57DAP/52DAP	0.91461	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05213	0.587
17DAP/reference	0.98501	0.737
27DAP/reference	0.93923	0.369
39DAP/reference	0.9395	0.213
41DAP/reference	1.04137	0.714
42DAP/reference	0.95938	0.188
43DAP/reference	0.89567	0.08
47DAP/reference	1.01237	1
52DAP/reference	1.06485	0.498
57DAP/reference	1.01069	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09589	0.881
27DAP/17DAP	0.94788	0.821
39DAP/27DAP	0.88123	0.073
41DAP/39DAP	0.96855	0.959
42DAP/41DAP	1.04143	0.884
43DAP/42DAP	1.09402	0.83
47DAP/43DAP	1.01683	0.99
52DAP/47DAP	1.13244	0.639
57DAP/52DAP	0.95378	0.673
57DAP/7DAP	1.11075	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9367	0.27
17DAP/reference	1.08413	0.627
27DAP/reference	1.13198	0.453
39DAP/reference	1.16318	0.126
41DAP/reference	0.88886	0.107
42DAP/reference	1.21245	0.174
43DAP/reference	1.08229	0.483
47DAP/reference	0.89035	0.222
52DAP/reference	1.10764	0.563
57DAP/reference	0.96123	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12853	0.172
17DAP/reference	1.09165	0.674
27DAP/reference	1.01414	1
39DAP/reference	1.00348	0.745
41DAP/reference	0.87331	0.08
42DAP/reference	0.99693	0.655
43DAP/reference	1.16243	0.111
47DAP/reference	0.86686	0.032
52DAP/reference	1.12678	0.322
57DAP/reference	1.06893	0.363

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0923	0.575
17DAP/reference	1.15593	0.462
27DAP/reference	0.96887	0.566
39DAP/reference	0.9653	0.504
41DAP/reference	1.31087	0.048
42DAP/reference	1.0616	0.716
43DAP/reference	0.9479	0.432
47DAP/reference	0.99339	0.626
52DAP/reference	0.88908	0.232
57DAP/reference	0.98444	0.633

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85249	0.89
26DAP/20DAP	1.14272	0.541
34DAP/26DAP	1.31323	1
51DAP/34DAP	1.08671	0.883
52DAP/51DAP	0.70434	1
53DAP/52DAP	1.082	1
55DAP/53DAP	1.04286	0.964
57DAP/55DAP	0.8973	0.59
62DAP/57DAP	1.05318	0.8
68DAP/62DAP	1.05325	1
68DAP/14DAP	0.93936	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04237	1

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	0.86792
12-2/M82	1.24267
12-4/M82	0.80817
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	0.51591	1
3-2/M82	0.78145
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	0.58508	0.243
IL2-6/WTpooled	1.04423	0.584
IL7-5/WTpooled	0.96568
IL7-3/WTpooled	0.85239	0.418
IL12-4/WTpooled	1.03908	0.737
IL1-4/WTpooled	0.9646	0.834
WT/WTpooled	0.99116	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	0.97782	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06723	0.921
DC3000/delta hrp 6h	1.54292	0.631
DC3000/delta hrp 12h	1.19771	1
DC3000/delta hrp 24h	0.75731	0.05

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	0.87639	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	0.99264	1
Var 0h	0.69156	0.936
Var 12h I row2-row1	1.14402	0.235
Var 12h NI row2-row1	1.02133	1
Var 36h I row2-row1	0.91685	0.805
Var 36h NI row2-row1	3.03204	1
Var 60h I row2-row1	0.74415
Var 60h NI row2-row1	1.00037	1
Time course 0hI-0hNI	0.94485	0.656
Time course 12hI-12hNI	0.97182	0.705
Time course 36hI-36hNI	0.75693	0.034
Time course 60hI-60hNI	0.21713	0.006

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)	1.74441	0.321
transgenic ySAMdc/azygous control (breaker)	1.84809	1
transgenic ySAMdc/azygous control (red)	1.07598	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94946	0.133

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.55235	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.85239	0.333
Manapal/WT (red)	0.83489	0.242