Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70478	0.116
27DAP/17DAP	1.43955	0.642
39DAP/27DAP	1.16975	0.907
41DAP/39DAP	0.79995	0.346
42DAP/41DAP	1.63046	0.162
43DAP/42DAP	1.07305	1
47DAP/43DAP	0.71085	0.208
52DAP/47DAP	1.7444	0.278
57DAP/52DAP	0.59004	0.462

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06152	0.46
17DAP/reference	0.93745	0.298
27DAP/reference	1.00879	1
39DAP/reference	0.97067	0.663
41DAP/reference	0.91842	0.267
42DAP/reference	0.997	0.517
43DAP/reference	0.84938	0.08
47DAP/reference	0.95454	0.322
52DAP/reference	0.95571	0.3
57DAP/reference	1.0211	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10121	0.91
27DAP/17DAP	1.20862	0.523
39DAP/27DAP	1.11789	0.758
41DAP/39DAP	0.96515	1
42DAP/41DAP	1.2578	0.879
43DAP/42DAP	1.0807	0.664
47DAP/43DAP	0.82668	0.617
52DAP/47DAP	1.13023	0.844
57DAP/52DAP	0.82419	0.359
57DAP/7DAP	2.27717	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96989	0.613
17DAP/reference	0.82532	0.019
27DAP/reference	0.92784	0.2
39DAP/reference	0.71243	0.021
41DAP/reference	0.79511	0.025
42DAP/reference	0.65141	0.01
43DAP/reference	0.8954	0.252
47DAP/reference	0.89892	0.383
52DAP/reference	0.77246	0.038
57DAP/reference	0.82825	0.101

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07973	0.741
17DAP/reference	1.07572	0.415
27DAP/reference	0.99639	0.686
39DAP/reference	1.05328	0.556
41DAP/reference	0.91387	0.237
42DAP/reference	1.07775	0.68
43DAP/reference	1.14742	0.327
47DAP/reference	0.90352	0.168
52DAP/reference	0.92269	0.143
57DAP/reference	0.90521	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84918	0.061
17DAP/reference	0.87289	0.203
27DAP/reference	0.9078	0.045
39DAP/reference	0.93679	0.299
41DAP/reference	0.8937	0.185
42DAP/reference	0.88042	0.134
43DAP/reference	0.91603	0.267
47DAP/reference	1.04121	0.519
52DAP/reference	0.74564	0.112
57DAP/reference	1.06707	0.73

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.3545	0.395
26DAP/20DAP	0.9038	1
34DAP/26DAP	1.21916	1
51DAP/34DAP	1.154	0.898
52DAP/51DAP	1.13747	0.808
53DAP/52DAP	0.96513	0.876
55DAP/53DAP	1.1902	0.834
57DAP/55DAP	1.10462	0.87
62DAP/57DAP	0.8758	0.681
68DAP/62DAP	1.1077	0.926
68DAP/14DAP	0.97621	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.9441	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.23791	0.417
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.98354
Ripe Pepper/Ripe Tomato	0.77621
Mature Eggplant/Ripe Tomato	1.42371

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85274	0.321
IL2-6/WTpooled	1.26397	0.395
IL7-5/WTpooled	1.44159
IL7-3/WTpooled	0.97031	1
IL12-4/WTpooled	1.12456	0.424
IL1-4/WTpooled	0.92688	0.562
WT/WTpooled	1.00638	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	0.78502

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99238	1
DC3000/delta hrp 6h	1.42551	1
DC3000/delta hrp 12h	1.11482	1
DC3000/delta hrp 24h	1.10067	0.62

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	0.89932	0.328
Exp 36h	0.89169	0.449
Exp 60h	0.97592	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.17546	1
Var 0h	0.79059	1
Var 12h I row2-row1	1.02954	0.692
Var 12h NI row2-row1	0.87916	0.82
Var 36h I row2-row1	4.51263
Var 36h NI row2-row1	1.44491	1
Var 60h I row2-row1	0.89203	0.952
Var 60h NI row2-row1	0.84272	0.932
Time course 0hI-0hNI	1.07761	0.852
Time course 12hI-12hNI	0.82913	0.083
Time course 36hI-36hNI	1.05429	0.908
Time course 60hI-60hNI	1.14063	0.575

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)	0.87697	0.286
transgenic ySAMdc/azygous control (breaker)	1.26549	0.248
transgenic ySAMdc/azygous control (red)	1.08809	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98054	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00196	1

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)	N/A	N/A
Manapal/WT (red)	1.35727	0.164