Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.2.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1606	0.755
27DAP/17DAP	0.9265	0.771
39DAP/27DAP	1.18598	0.53
41DAP/39DAP	0.85171	0.445
42DAP/41DAP	1.50162	0.372
43DAP/42DAP	1.09922	1
47DAP/43DAP	1.55805	0.369
52DAP/47DAP	0.79647	0.489
57DAP/52DAP	1.10137	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77579	0.053
17DAP/reference	1.1765	0.606
27DAP/reference	0.96935	0.61
39DAP/reference	0.993	0.901
41DAP/reference	0.87934	0.031
42DAP/reference	0.93674	0.169
43DAP/reference	0.98539	0.785
47DAP/reference	1.02759	0.937
52DAP/reference	1.09035	0.407
57DAP/reference	1.08202	0.291

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.51472	0.036
27DAP/17DAP	0.4568	0.093
39DAP/27DAP	0.94246	0.692
41DAP/39DAP	0.68569	0.045
42DAP/41DAP	1.32105	0.011
43DAP/42DAP	1.20031	0.176
47DAP/43DAP	0.90226	0.239
52DAP/47DAP	0.93725	0.839
57DAP/52DAP	0.81874	0.161
57DAP/7DAP	0.94627	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87366	0.074
17DAP/reference	0.83889	0.02
27DAP/reference	1.04978	0.453
39DAP/reference	1.21983	0.175
41DAP/reference	0.91787	0.166
42DAP/reference	0.99658	0.675
43DAP/reference	0.8661	0.079
47DAP/reference	0.98096	0.671
52DAP/reference	1.01704	1
57DAP/reference	1.04258	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92273	0.426
17DAP/reference	0.77114	0.07
27DAP/reference	0.92625	0.229
39DAP/reference	0.92967	0.298
41DAP/reference	0.9121	0.081
42DAP/reference	1.07698	0.649
43DAP/reference	1.23914	0.093
47DAP/reference	1.16752	0.024
52DAP/reference	0.91871	0.086
57DAP/reference	0.76462	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09219	0.386
17DAP/reference	1.218	0.102
27DAP/reference	0.87117	0.065
39DAP/reference	1.21404	0.043
41DAP/reference	1.27133	0.043
42DAP/reference	1.08586	0.416
43DAP/reference	1.09113	0.349
47DAP/reference	0.89594	0.076
52DAP/reference	0.86468	0.189
57DAP/reference	1.02875	0.771

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08831	0.966
26DAP/20DAP	1.00546	1
34DAP/26DAP	1.36875	0.819
51DAP/34DAP	1.20236	0.095
52DAP/51DAP	0.91666	1
53DAP/52DAP	1.79241	0.031
55DAP/53DAP	1.21061	0.519
57DAP/55DAP	1.33527	0.424
62DAP/57DAP	1.76637
68DAP/62DAP	1.26086
68DAP/14DAP	1.01292	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.04525	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.68182	0.189
Mature Green Tomato/Ripe Tomato	0.83126	0.287
Immature Eggplant/Mature Eggplant	0.74058
Ripe Pepper/Ripe Tomato	1.14117	1
Mature Eggplant/Ripe Tomato	0.19216	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99714	1
1-1-2/M82	1.24216	1
12-2/M82	0.96668	1
12-4/M82	1.13318	1
1-3/M82	1.06545	1
2-1-1/M82	0.95959	1
2-1/M82	0.79784	0.345
2-6/M82	1.06742	0.385
3-2/M82	1.02255
4-1-1/M82	0.87008	1
4-1/M82	0.81923
4-3-2/M82	1.35504	0.284
4-3/M82	1.36317	1
5-3/M82	0.77139	0.642
6-2/M82	0.84712	0.497
6-3/M82	0.78083	0.458
7-1/M82	0.95957	0.803
7-2/M82	0.98964	1
9-3-2/M82	1.77277	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.04529	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.04259	1
IL12-4/WTpooled	1.12778	0.546
IL1-4/WTpooled	0.93918
WT/WTpooled	1.08704	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	0.85366	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02202	0.921
DC3000/delta hrp 6h	0.78523	0.95
DC3000/delta hrp 12h	0.81521	1
DC3000/delta hrp 24h	0.84463	0.285

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8292
DC3000 delta B/DC3000 delta AB	0.81562	0.288

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04863	1
Exp 36h	0.89676	0.82
Exp 60h	0.71783	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9973	1
Var 0h	1.00049	0.782
Var 12h I row2-row1	0.69345	0.344
Var 12h NI row2-row1	0.97613	0.906
Var 36h I row2-row1	1.01537	1
Var 36h NI row2-row1	1.47503	0.482
Var 60h I row2-row1	1.13598	1
Var 60h NI row2-row1	1.01906	1
Time course 0hI-0hNI	0.95813	0.765
Time course 12hI-12hNI	0.90623	0.137
Time course 36hI-36hNI	0.83376	0.076
Time course 60hI-60hNI	0.20072	0.005

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)	0.83839	0.309
transgenic ySAMdc/azygous control (breaker)	1.16406	1
transgenic ySAMdc/azygous control (red)	0.91109	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97117	0.313

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.81577	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.34916	0.083
Manapal/WT (break)	0.73807	0.299
Manapal/WT (red)	1.03984	1