Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.1.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90766	0.586
27DAP/17DAP	1.04295	0.926
39DAP/27DAP	0.97073	0.749
41DAP/39DAP	0.88447	0.662
42DAP/41DAP	0.92802	1
43DAP/42DAP	1.11188	1
47DAP/43DAP	1.05577	0.809
52DAP/47DAP	1.11711	0.941
57DAP/52DAP	1.2731	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77458	0.024
17DAP/reference	0.72715	0.007
27DAP/reference	0.94673	0.514
39DAP/reference	0.80947	0.029
41DAP/reference	0.63901	0.008
42DAP/reference	0.89409	0.014
43DAP/reference	0.89275	0.061
47DAP/reference	0.92256	0.174
52DAP/reference	1.18832	0.069
57DAP/reference	1.24814	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29637	0.348
27DAP/17DAP	1.00993	1
39DAP/27DAP	0.89406	0.622
41DAP/39DAP	1.24039	0.59
42DAP/41DAP	0.85118	0.156
43DAP/42DAP	0.87458	0.246
47DAP/43DAP	1.2209	0.182
52DAP/47DAP	1.07979	0.868
57DAP/52DAP	1.20556	0.298
57DAP/7DAP	0.73946	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85593	0.27
17DAP/reference	0.91261	0.295
27DAP/reference	0.96614
39DAP/reference	1.126	0.511
41DAP/reference	1.00152	0.811
42DAP/reference	0.91833	0.355
43DAP/reference	0.98923	0.502
47DAP/reference	1.15161	0.525
52DAP/reference	1.09371	0.401
57DAP/reference	1.17958	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71056	0.009
17DAP/reference	0.92164	0.307
27DAP/reference	0.83606	0.032
39DAP/reference	1.04287	0.489
41DAP/reference	1.00734	0.749
42DAP/reference	0.86536	0.042
43DAP/reference	0.68419	0.008
47DAP/reference	0.77088	0.012
52DAP/reference	0.8975	0.239
57DAP/reference	0.86295	0.099

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84612	0.183
17DAP/reference	0.723	0.144
27DAP/reference	1.12483	0.805
39DAP/reference	0.94014	0.643
41DAP/reference	1.5135	0.035
42DAP/reference	1.41184	0.167
43DAP/reference	1.5298	0.038
47DAP/reference	1.00794	0.646
52DAP/reference	1.22174	0.483
57DAP/reference	1.53168	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16533	0.966
26DAP/20DAP	1.05562	1
34DAP/26DAP	0.94531	0.94
51DAP/34DAP	0.99941	0.893
52DAP/51DAP	0.98249	1
53DAP/52DAP	0.92313	0.79
55DAP/53DAP	0.79165	0.176
57DAP/55DAP	0.88457	0.606
62DAP/57DAP	1.21681	0.445
68DAP/62DAP	2.14094	0.06
68DAP/14DAP	2.49238	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03928	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21405	0.176
Mature Green Tomato/Ripe Tomato	0.77243	0.107
Immature Eggplant/Mature Eggplant	1.37552	0.078
Ripe Pepper/Ripe Tomato	0.73093	0.293
Mature Eggplant/Ripe Tomato	1.05478	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.16019
12-2/M82	N/A	N/A
12-4/M82	0.96551	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	0.8911
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	1.33837	0.572
6-2/M82	N/A	N/A
6-3/M82	0.96738
7-1/M82	0.93932	0.803
7-2/M82	N/A	N/A
9-3-2/M82	0.94465

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00341	1
IL2-6/WTpooled	1.0436	0.46
IL7-5/WTpooled	0.82248	1
IL7-3/WTpooled	0.86859	0.418
IL12-4/WTpooled	0.8492	0.581
IL1-4/WTpooled	0.8785	0.699
WT/WTpooled	1.14234	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	1.08381	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0016	1
DC3000/delta hrp 6h	1.10846	0.978
DC3000/delta hrp 12h	0.92352	1
DC3000/delta hrp 24h	1.0373	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96225	1
Exp 36h	0.97912	0.943
Exp 60h	1.00601	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04418	1
Var 0h	1.02897	1
Var 12h I row2-row1	1.08189	0.692
Var 12h NI row2-row1	1.14173	0.34
Var 36h I row2-row1	1.09578	1
Var 36h NI row2-row1	1.06867	0.852
Var 60h I row2-row1	0.91069	0.285
Var 60h NI row2-row1	0.93688	1
Time course 0hI-0hNI	0.97001	0.827
Time course 12hI-12hNI	1.02909	0.82
Time course 36hI-36hNI	1.2737	0.016
Time course 60hI-60hNI	1.57745	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)	0.97273	0.529
transgenic ySAMdc/azygous control (breaker)	1.35895	0.172
transgenic ySAMdc/azygous control (red)	0.77173	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08521	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.37035	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85132	0.172
Manapal/WT (break)	1.12807	1
Manapal/WT (red)	0.9387	0.728