Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30589	0.725
27DAP/17DAP	0.77291	0.366
39DAP/27DAP	1.49976	0.56
41DAP/39DAP	0.91342	0.675
42DAP/41DAP	0.98879	1
43DAP/42DAP	0.84402	0.518
47DAP/43DAP	0.99351	0.794
52DAP/47DAP	0.78911	0.5
57DAP/52DAP	1.0678	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09013	0.366
17DAP/reference	1.01218	1
27DAP/reference	1.03752	0.721
39DAP/reference	1.04821	0.514
41DAP/reference	1.06788	0.338
42DAP/reference	0.96841	0.278
43DAP/reference	0.98789	0.805
47DAP/reference	0.88614	0.077
52DAP/reference	0.80357	0.057
57DAP/reference	0.87329	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22447	0.406
27DAP/17DAP	1.26737	0.506
39DAP/27DAP	0.8507	0.371
41DAP/39DAP	0.95047	0.885
42DAP/41DAP	1.02511	0.932
43DAP/42DAP	0.86427	0.224
47DAP/43DAP	0.91267	0.677
52DAP/47DAP	0.97789	0.902
57DAP/52DAP	0.94084	0.612
57DAP/7DAP	1.1676	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93161	0.27
17DAP/reference	0.93572	0.108
27DAP/reference	1.00385	0.8
39DAP/reference	0.92934	0.198
41DAP/reference	0.86178	0.073
42DAP/reference	0.80417	0.023
43DAP/reference	0.78914	0.02
47DAP/reference	1.04391	0.745
52DAP/reference	0.81439	0.026
57DAP/reference	0.81424	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08178	0.679
17DAP/reference	0.98923	0.673
27DAP/reference	1.09747	0.488
39DAP/reference	0.96134	0.359
41DAP/reference	0.97113	0.432
42DAP/reference	0.93886	0.135
43DAP/reference	0.99749	0.761
47DAP/reference	0.90043	0.154
52DAP/reference	0.92708	0.034
57DAP/reference	1.09474	0.306

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97258	0.526
17DAP/reference	1.05338	0.641
27DAP/reference	0.88617	0.155
39DAP/reference	0.92701	0.147
41DAP/reference	0.91932	0.107
42DAP/reference	0.94898	0.361
43DAP/reference	0.82023	0.059
47DAP/reference	1.00755	1
52DAP/reference	0.84286	0.204
57DAP/reference	0.91183	0.149

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15667	0.966
26DAP/20DAP	1.39101	0.562
34DAP/26DAP	0.70386	0.067
51DAP/34DAP	1.68111	0.056
52DAP/51DAP	0.86185	1
53DAP/52DAP	1.71082	0.038
55DAP/53DAP	0.95972	0.698
57DAP/55DAP	0.85429	0.56
62DAP/57DAP	0.74025	0.028
68DAP/62DAP	1.13237	0.84
68DAP/14DAP	0.95307	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.45543	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92322
Mature Green Tomato/Ripe Tomato	2.89386	0.086
Immature Eggplant/Mature Eggplant	1.78565	0.215
Ripe Pepper/Ripe Tomato	0.8496	1
Mature Eggplant/Ripe Tomato	0.8243	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.0499
12-2/M82	N/A	N/A
12-4/M82	1.38893	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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.99438
4-3-2/M82	N/A	N/A
4-3/M82	1.2858
5-3/M82	1.03173	0.378
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.24837
7-2/M82	1.06627
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.40887	0.277
IL2-6/WTpooled	0.79218	0.473
IL7-5/WTpooled	0.92256	0.559
IL7-3/WTpooled	1.39478	0.362
IL12-4/WTpooled	1.18332	0.516
IL1-4/WTpooled	1.09671	1
WT/WTpooled	0.97371	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	1.1759	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01278	1
DC3000/delta hrp 6h	1.00324	0.95
DC3000/delta hrp 12h	1.0004	1
DC3000/delta hrp 24h	0.95428	0.861

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16322
DC3000 delta B/DC3000 delta AB	1.20241	0.443

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93916	1
Exp 36h	1.03159	1
Exp 60h	0.98071	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04932	1
Var 0h	1.04444	1
Var 12h I row2-row1	1.17217	0.296
Var 12h NI row2-row1	1.24796	0.649
Var 36h I row2-row1	1.08175	1
Var 36h NI row2-row1	0.68383	0.478
Var 60h I row2-row1	0.94863	0.952
Var 60h NI row2-row1	0.92401	0.866
Time course 0hI-0hNI	1.10997	0.662
Time course 12hI-12hNI	1.09685	0.507
Time course 36hI-36hNI	1.06822	0.316
Time course 60hI-60hNI	1.51999	0.115

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)	1.00042	0.931
transgenic ySAMdc/azygous control (breaker)	3.6927	0.162
transgenic ySAMdc/azygous control (red)	1.32348	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01371	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13348	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.55702	0.105
Manapal/WT (break)	1.00544	1
Manapal/WT (red)	0.88853	0.503