Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.1.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41592	0.588
27DAP/17DAP	0.7617	0.141
39DAP/27DAP	1.29157	0.486
41DAP/39DAP	0.94784	0.678
42DAP/41DAP	1.03306	1
43DAP/42DAP	1.00695	1
47DAP/43DAP	0.81268	0.395
52DAP/47DAP	0.95079	0.803
57DAP/52DAP	1.20445	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3008	0.366
17DAP/reference	0.71495	0.074
27DAP/reference	0.82704	0.141
39DAP/reference	0.83115	0.2
41DAP/reference	0.80311	0.154
42DAP/reference	0.83672	0.124
43DAP/reference	0.96038	0.675
47DAP/reference	0.84368	0.008
52DAP/reference	0.9201	0.25
57DAP/reference	1.11134	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90287	0.428
27DAP/17DAP	1.1802	0.403
39DAP/27DAP	0.88844	0.469
41DAP/39DAP	1.02777	0.88
42DAP/41DAP	1.08647	0.753
43DAP/42DAP	1.03474	0.627
47DAP/43DAP	0.97107	0.857
52DAP/47DAP	0.9743	0.905
57DAP/52DAP	0.98289	0.793
57DAP/7DAP	0.72455	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13909	0.241
17DAP/reference	1.12178	0.244
27DAP/reference	1.34941	0.026
39DAP/reference	1.14654	0.222
41DAP/reference	0.95509	0.449
42DAP/reference	1.16644	0.016
43DAP/reference	1.02124	1
47DAP/reference	0.96369	0.504
52DAP/reference	1.16858	0.062
57DAP/reference	1.05305	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.55143	0.1
17DAP/reference	0.96166	0.548
27DAP/reference	0.91041	0.249
39DAP/reference	0.77484	0.095
41DAP/reference	0.88798	0.164
42DAP/reference	0.82452	0.108
43DAP/reference	1.14393	0.977
47DAP/reference	0.78317	0.017
52DAP/reference	0.71256	0.008
57DAP/reference	0.63009	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8917	0.158
17DAP/reference	1.0453	0.944
27DAP/reference	0.91198	0.416
39DAP/reference	0.84112	0.199
41DAP/reference	1.01557	1
42DAP/reference	1.03564	0.907
43DAP/reference	0.99792	0.66
47DAP/reference	0.69418	0.017
52DAP/reference	0.84829	0.144
57DAP/reference	1.25169	0.291

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.30685	0.966
26DAP/20DAP	0.9996	1
34DAP/26DAP	1.04626	1
51DAP/34DAP	0.85798	0.66
52DAP/51DAP	5.85588	0.123
53DAP/52DAP	0.9707	0.868
55DAP/53DAP	1.01885	1
57DAP/55DAP	1.23392	0.826
62DAP/57DAP	1.24113	0.678
68DAP/62DAP	0.83137	0.747
68DAP/14DAP	1.14056	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.07169	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.7416	0.251
Mature Green Tomato/Ripe Tomato	1.40839	0.399
Immature Eggplant/Mature Eggplant	2.78949	0.05
Ripe Pepper/Ripe Tomato	0.77697	1
Mature Eggplant/Ripe Tomato	1.52768	1

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	1.80174
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	2.40096	0.125
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.01233
7-2/M82	N/A	N/A
9-3-2/M82	1.51999	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92934
IL2-6/WTpooled	2.46596	0.419
IL7-5/WTpooled	1.66722
IL7-3/WTpooled	0.51766	0.294
IL12-4/WTpooled	1.24568	0.839
IL1-4/WTpooled	0.96543	1
WT/WTpooled	1.07355	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	1.3517	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00561	1
DC3000/delta hrp 6h	1.13118	1
DC3000/delta hrp 12h	0.20992	1
DC3000/delta hrp 24h	0.56206	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.68853	0.099
DC3000 delta B/DC3000 delta AB	0.79855	0.069

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17799	1
Exp 36h	0.77476	0.749
Exp 60h	1.01067	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98537	1
Var 0h	0.95911	1
Var 12h I row2-row1	0.62172	0.338
Var 12h NI row2-row1	1.00926	1
Var 36h I row2-row1	0.99307	1
Var 36h NI row2-row1	1.19895	1
Var 60h I row2-row1	0.94929
Var 60h NI row2-row1	1.02122	1
Time course 0hI-0hNI	1.10207	0.603
Time course 12hI-12hNI	0.93407	0.522
Time course 36hI-36hNI	0.77972	0.026
Time course 60hI-60hNI	0.18472	0.006

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)	0.95378	0.662
transgenic ySAMdc/azygous control (breaker)	0.92583	1
transgenic ySAMdc/azygous control (red)	1.10189	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.85308	0.059

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.41806	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27507	0.084
Manapal/WT (break)	1.03415	1
Manapal/WT (red)	0.69549	0.503