Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.11.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88474	0.486
27DAP/17DAP	0.93738	0.863
39DAP/27DAP	1.03019	0.876
41DAP/39DAP	1.07336	0.871
42DAP/41DAP	1.21071	0.877
43DAP/42DAP	0.97069	0.925
47DAP/43DAP	0.94438	0.754
52DAP/47DAP	0.93408	0.772
57DAP/52DAP	1.08348	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98085	0.476
17DAP/reference	1.05207	0.427
27DAP/reference	1.02794	0.863
39DAP/reference	1.07556	0.514
41DAP/reference	1.02923	0.759
42DAP/reference	0.96749	0.129
43DAP/reference	0.98758	0.763
47DAP/reference	0.92649	0.027
52DAP/reference	0.94875	0.36
57DAP/reference	0.88199	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16823	0.271
27DAP/17DAP	1.02573	1
39DAP/27DAP	0.8426	0.26
41DAP/39DAP	1.06455	0.914
42DAP/41DAP	1.01363	0.887
43DAP/42DAP	0.81	0.04
47DAP/43DAP	0.97368	0.857
52DAP/47DAP	1.02372	0.933
57DAP/52DAP	1.03139	0.957
57DAP/7DAP	1.01016	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08505	0.227
17DAP/reference	1.09134	0.123
27DAP/reference	1.01324	1
39DAP/reference	1.07029	0.149
41DAP/reference	1.07145	0.241
42DAP/reference	0.96397	0.32
43DAP/reference	1.04505	0.707
47DAP/reference	1.11925	0.158
52DAP/reference	0.90093	0.097
57DAP/reference	1.06606	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01502	0.75
17DAP/reference	0.94362	0.239
27DAP/reference	0.98064	0.537
39DAP/reference	0.95245	0.173
41DAP/reference	0.94025	0.242
42DAP/reference	0.90336	0.089
43DAP/reference	0.87989	0.098
47DAP/reference	1.02469	0.841
52DAP/reference	0.9997	0.761
57DAP/reference	0.97679	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12146	0.224
17DAP/reference	1.03745	0.657
27DAP/reference	1.15438	0.062
39DAP/reference	1.08463	0.254
41DAP/reference	1.06248	0.439
42DAP/reference	1.01806	0.877
43DAP/reference	0.97239	0.568
47DAP/reference	0.9733	0.494
52DAP/reference	1.09438	0.457
57DAP/reference	0.91806	0.278

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97155	0.997
26DAP/20DAP	2.52343	0.125
34DAP/26DAP	0.84339	0.61
51DAP/34DAP	1.59308	0.095
52DAP/51DAP	1.00554	1
53DAP/52DAP	1.16215	0.307
55DAP/53DAP	0.80565	0.037
57DAP/55DAP	0.81887	0.309
62DAP/57DAP	0.99096	0.994
68DAP/62DAP	1.05172	0.931
68DAP/14DAP	0.81663	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75058	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.26434	0.058
Mature Green Tomato/Ripe Tomato	3.01537	0.02
Immature Eggplant/Mature Eggplant	1.11106	0.417
Ripe Pepper/Ripe Tomato	1.17685	1
Mature Eggplant/Ripe Tomato	1.45108	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93928	0.944
1-1-2/M82	0.99017	1
12-2/M82	1.18185	1
12-4/M82	1.0058	1
1-3/M82	1.32903	0.277
2-1-1/M82	0.97199	0.784
2-1/M82	0.93434	1
2-6/M82	0.89332	0.501
3-2/M82	1.05635	0.967
4-1-1/M82	0.82058	1
4-1/M82	0.85276
4-3-2/M82	0.92798	1
4-3/M82	0.98721	1
5-3/M82	1.16458	0.496
6-2/M82	1.25436	1
6-3/M82	1.13761	1
7-1/M82	0.94382	1
7-2/M82	1.15089	0.385
9-3-2/M82	1.14783	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08713	0.365
IL2-6/WTpooled	1.06048	0.788
IL7-5/WTpooled	1.12569	1
IL7-3/WTpooled	1.10563	1
IL12-4/WTpooled	1.15495	0.695
IL1-4/WTpooled	1.02738	1
WT/WTpooled	0.9857	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	0.95752	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03181	1
DC3000/delta hrp 6h	1.0712	1
DC3000/delta hrp 12h	0.91753	1
DC3000/delta hrp 24h	0.88016	0.252

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95798	0.629
DC3000 delta B/DC3000 delta AB	0.99912	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.68562	1
Exp 36h	1.08602	1
Exp 60h	0.94011	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04858	1
Var 0h	0.47292	0.933
Var 12h I row2-row1	1.05305	0.692
Var 12h NI row2-row1	0.9161	0.713
Var 36h I row2-row1	0.92884	0.805
Var 36h NI row2-row1	1.03491	1
Var 60h I row2-row1	1.12873	1
Var 60h NI row2-row1	1.05006	1
Time course 0hI-0hNI	0.91281	0.454
Time course 12hI-12hNI	1.11584	0.611
Time course 36hI-36hNI	1.0611	0.28
Time course 60hI-60hNI	0.92015	0.319

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)	1.04748	0.654
transgenic ySAMdc/azygous control (breaker)	0.77597	0.137
transgenic ySAMdc/azygous control (red)	1.0131	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04335	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93052	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14021	0.14
Manapal/WT (break)	1.19451	0.123
Manapal/WT (red)	0.92246	0.424