Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.20.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92422	0.627
27DAP/17DAP	1.27537	0.847
39DAP/27DAP	0.8718	0.487
41DAP/39DAP	1.19856	0.498
42DAP/41DAP	1.00303	1
43DAP/42DAP	0.9185	0.833
47DAP/43DAP	1.00638	0.953
52DAP/47DAP	1.2375	0.767
57DAP/52DAP	0.98401	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91829	0.211
17DAP/reference	0.98507	0.63
27DAP/reference	1.04031	0.529
39DAP/reference	0.99911	0.991
41DAP/reference	0.96339	0.542
42DAP/reference	0.93438	0.046
43DAP/reference	1.03384	0.812
47DAP/reference	1.39301	0.003
52DAP/reference	1.3101	0.025
57DAP/reference	1.3078	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10621	0.687
27DAP/17DAP	1.04	0.942
39DAP/27DAP	1.01401	0.943
41DAP/39DAP	1.02552	1
42DAP/41DAP	1.06181	1
43DAP/42DAP	1.11837	0.788
47DAP/43DAP	1.00495	0.989
52DAP/47DAP	1.11369	0.703
57DAP/52DAP	1.34891	0.657
57DAP/7DAP	1.10381	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9216	0.08
17DAP/reference	0.97804	0.295
27DAP/reference	0.93964	0.088
39DAP/reference	0.93979	0.083
41DAP/reference	0.84681	0.011
42DAP/reference	0.9127	0.023
43DAP/reference	0.8379	0.029
47DAP/reference	0.93513	0.383
52DAP/reference	0.84654	0.083
57DAP/reference	0.77949	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98744	0.786
17DAP/reference	0.81994	0.037
27DAP/reference	0.83035	0.16
39DAP/reference	0.80923	0.047
41DAP/reference	0.83807	0.085
42DAP/reference	0.91194	0.135
43DAP/reference	0.85546	0.121
47DAP/reference	0.93644	0.184
52DAP/reference	0.8897	0.007
57DAP/reference	0.88169	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00177	0.804
17DAP/reference	0.94848	0.243
27DAP/reference	1.01124	0.777
39DAP/reference	0.95663	0.083
41DAP/reference	0.99121	0.682
42DAP/reference	1.02621	0.789
43DAP/reference	0.96036	0.416
47DAP/reference	1.28481	0.027
52DAP/reference	1.01701	1
57DAP/reference	1.49043	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84183	0.807
26DAP/20DAP	0.75056	0.317
34DAP/26DAP	1.2793	0.542
51DAP/34DAP	1.09385	0.829
52DAP/51DAP	1.30518	0.232
53DAP/52DAP	0.98005	0.891
55DAP/53DAP	1.24655	0.566
57DAP/55DAP	1.05694	0.997
62DAP/57DAP	1.40943	0.217
68DAP/62DAP	1.03665	0.939
68DAP/14DAP	1.16331	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76129	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.24936	0.176
Mature Green Tomato/Ripe Tomato	1.01172	1
Immature Eggplant/Mature Eggplant	0.99918
Ripe Pepper/Ripe Tomato	0.11021	0.224
Mature Eggplant/Ripe Tomato	0.09621

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.87019
12-2/M82	N/A	N/A
12-4/M82	1.05897	1
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	0.89247
4-1-1/M82	N/A	N/A
4-1/M82	1.05918	1
4-3-2/M82	0.93775
4-3/M82	N/A	N/A
5-3/M82	1.27698
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.53885
9-3-2/M82	0.85329	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.77197	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.20369	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.04789	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	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	0.94469	1
DC3000/delta hrp 6h	1.05024	0.95
DC3000/delta hrp 12h	1.14893	1
DC3000/delta hrp 24h	1.16178	0.633

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	1.42615	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00489	1
Exp 36h	1.01024	1
Exp 60h	1.01603	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96955	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.99747	1
Var 12h NI row2-row1	0.9976	1
Var 36h I row2-row1	2.07257	1
Var 36h NI row2-row1	2.68862	0.482
Var 60h I row2-row1	0.9549	0.582
Var 60h NI row2-row1	1.22773	0.904
Time course 0hI-0hNI	1.08792	0.537
Time course 12hI-12hNI	1.25482	0.88
Time course 36hI-36hNI	0.94721	0.426
Time course 60hI-60hNI	2.1058	0.16

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)	0.99597	0.931
transgenic ySAMdc/azygous control (breaker)	1.17162	0.248
transgenic ySAMdc/azygous control (red)	1.06105	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96799	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.34787	0.238

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)	0.78088	1
Manapal/WT (red)	1.43553	1