Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.16.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11284	0.534
27DAP/17DAP	1.05655	0.881
39DAP/27DAP	0.9937	0.798
41DAP/39DAP	1.11936	0.728
42DAP/41DAP	1.05931	0.974
43DAP/42DAP	0.99431	0.937
47DAP/43DAP	0.99624	0.92
52DAP/47DAP	0.78827	0.452
57DAP/52DAP	1.02347	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96399	0.336
17DAP/reference	1.01776	0.696
27DAP/reference	1.0115	0.925
39DAP/reference	1.00324	0.842
41DAP/reference	1.03447	0.759
42DAP/reference	1.01791	0.756
43DAP/reference	1.01405	0.866
47DAP/reference	1.00419	1
52DAP/reference	0.90574	0.147
57DAP/reference	0.96237	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9487	0.47
27DAP/17DAP	1.0444	0.831
39DAP/27DAP	0.97447	0.852
41DAP/39DAP	0.92318	0.68
42DAP/41DAP	0.88904	0.243
43DAP/42DAP	0.94848	0.308
47DAP/43DAP	0.96312	0.743
52DAP/47DAP	0.86398	0.3
57DAP/52DAP	0.9451	0.603
57DAP/7DAP	0.98504	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8886	0.077
17DAP/reference	0.8566	0.011
27DAP/reference	0.79108	0.01
39DAP/reference	0.91129	0.015
41DAP/reference	0.97848	0.431
42DAP/reference	0.85585	0.044
43DAP/reference	0.87472	0.03
47DAP/reference	0.95351	0.383
52DAP/reference	0.93026	0.213
57DAP/reference	1.02958	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00178	0.993
17DAP/reference	0.93573	0.201
27DAP/reference	0.90541	0.111
39DAP/reference	0.96263	0.274
41DAP/reference	0.95266	0.08
42DAP/reference	1.01941	0.915
43DAP/reference	0.91354	0.082
47DAP/reference	1.03557	0.301
52DAP/reference	1.01989	0.667
57DAP/reference	0.9867	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85411	0.033
17DAP/reference	0.94586	0.374
27DAP/reference	0.88657	0.174
39DAP/reference	0.87089	0.076
41DAP/reference	0.93583	0.293
42DAP/reference	0.85486	0.108
43DAP/reference	0.89467	0.081
47DAP/reference	1.00647	1
52DAP/reference	0.83772	0.166
57DAP/reference	0.93357	0.288

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98661	1
26DAP/20DAP	1.16662	0.357
34DAP/26DAP	1.08612	0.819
51DAP/34DAP	0.89392	0.197
52DAP/51DAP	1.02489	0.848
53DAP/52DAP	1.07355	0.723
55DAP/53DAP	1.02864	0.876
57DAP/55DAP	1.0857	0.793
62DAP/57DAP	1.09423	0.8
68DAP/62DAP	1.10381	0.977
68DAP/14DAP	1.09866	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.5758	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.27406	0.176
Mature Green Tomato/Ripe Tomato	1.31229	0.106
Immature Eggplant/Mature Eggplant	1.32565	0.05
Ripe Pepper/Ripe Tomato	0.58036	0.224
Mature Eggplant/Ripe Tomato	0.84578	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91289
1-1-2/M82	0.99229	1
12-2/M82	0.82623
12-4/M82	1.20704	1
1-3/M82	0.88611
2-1-1/M82	1.2139	0.764
2-1/M82	1.36624
2-6/M82	N/A	N/A
3-2/M82	1.02368
4-1-1/M82	0.81828
4-1/M82	1.06219	0.344
4-3-2/M82	0.91595	0.487
4-3/M82	1.03987	1
5-3/M82	1.12467	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.01599
7-2/M82	0.97741	1
9-3-2/M82	0.86257	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7258	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.99706	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.06632	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	1.20503	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13374	0.921
DC3000/delta hrp 6h	1.03788	1
DC3000/delta hrp 12h	0.99157	1
DC3000/delta hrp 24h	1.05191	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28321	0.042
DC3000 delta B/DC3000 delta AB	1.29651	0.142

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96325	1
Exp 36h	1.09961	1
Exp 60h	1.18273	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99451	1
Var 0h	1.08247	0.98
Var 12h I row2-row1	0.89632	0.338
Var 12h NI row2-row1	1.18246	0.649
Var 36h I row2-row1	1.21356	0.601
Var 36h NI row2-row1	0.87029	0.522
Var 60h I row2-row1	0.8475	0.374
Var 60h NI row2-row1	0.81305	0.63
Time course 0hI-0hNI	1.11455	0.662
Time course 12hI-12hNI	1.00438	1
Time course 36hI-36hNI	1.36323	0.014
Time course 60hI-60hNI	1.96212	0.009

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)	0.96835	0.529
transgenic ySAMdc/azygous control (breaker)	0.81371	0.134
transgenic ySAMdc/azygous control (red)	1.00044	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03469	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82698	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9076	1
Manapal/WT (break)	0.79929	0.333
Manapal/WT (red)	0.99818	0.863