Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.16.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20637	0.725
27DAP/17DAP	1.20308	0.872
39DAP/27DAP	1.5975	0.132
41DAP/39DAP	0.8758	0.563
42DAP/41DAP	1.19288	0.871
43DAP/42DAP	1.02857	0.937
47DAP/43DAP	1.34821	0.756
52DAP/47DAP	0.95551	0.837
57DAP/52DAP	1.40158	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98449	0.589
17DAP/reference	1.10453	0.071
27DAP/reference	1.05055	0.394
39DAP/reference	1.06211	0.197
41DAP/reference	1.04996	0.365
42DAP/reference	0.90647	0.04
43DAP/reference	0.99268	0.82
47DAP/reference	0.96566	0.207
52DAP/reference	0.94629	0.258
57DAP/reference	0.93341	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84879	0.402
27DAP/17DAP	0.98845	0.919
39DAP/27DAP	1.85892	0.275
41DAP/39DAP	2.3796	0.014
42DAP/41DAP	0.99167	0.858
43DAP/42DAP	0.71698	0.027
47DAP/43DAP	1.71538	0.017
52DAP/47DAP	0.68657	0.161
57DAP/52DAP	1.14329	0.906
57DAP/7DAP	1.21772	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85728	0.066
17DAP/reference	0.86827	0.192
27DAP/reference	0.98474	0.571
39DAP/reference	1.01246	0.745
41DAP/reference	1.01357	0.677
42DAP/reference	1.03075	1
43DAP/reference	1.17276	0.178
47DAP/reference	0.95462	0.504
52DAP/reference	1.27041	0.052
57DAP/reference	1.51706	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96873	0.623
17DAP/reference	1.00393	0.851
27DAP/reference	0.92501	0.16
39DAP/reference	0.89626	0.152
41DAP/reference	0.90162	0.188
42DAP/reference	0.976	0.482
43DAP/reference	1.01	1
47DAP/reference	0.98095	0.368
52DAP/reference	1.01793	0.988
57DAP/reference	1.15729	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85524	0.112
17DAP/reference	0.95966	0.508
27DAP/reference	0.92714	0.357
39DAP/reference	0.83847	0.024
41DAP/reference	1.0244	0.818
42DAP/reference	0.915	0.287
43DAP/reference	0.82019	0.079
47DAP/reference	0.9315	0.139
52DAP/reference	1.0569	0.714
57DAP/reference	0.65745	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86618	0.399
26DAP/20DAP	1.51618
34DAP/26DAP	0.94075	0.857
51DAP/34DAP	0.97877	0.924
52DAP/51DAP	1.17592	0.783
53DAP/52DAP	1.15999	0.565
55DAP/53DAP	1.09683	0.894
57DAP/55DAP	1.02675	0.935
62DAP/57DAP	0.93089	0.466
68DAP/62DAP	0.99918	0.914
68DAP/14DAP	0.69325	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.02381	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.61353	0.038
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.15651	0.224
Mature Eggplant/Ripe Tomato	0.13609	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9457	0.708
1-1-2/M82	1.34413	1
12-2/M82	1.69045	0.26
12-4/M82	0.39795	0.282
1-3/M82	0.97069	1
2-1-1/M82	3.61867	0.375
2-1/M82	9.86887	0.312
2-6/M82	0.53321	0.421
3-2/M82	0.59752	0.455
4-1-1/M82	0.43181
4-1/M82	N/A	N/A
4-3-2/M82	0.59081
4-3/M82	0.69283	0.72
5-3/M82	1.59185	1
6-2/M82	0.51358
6-3/M82	0.86091	1
7-1/M82	N/A	N/A
7-2/M82	0.69468
9-3-2/M82	0.70794	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84075
IL2-6/WTpooled	1.12135	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.1787	1
IL12-4/WTpooled	2.12314	0.516
IL1-4/WTpooled	0.95169	1
WT/WTpooled	1.09317	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	1.29922	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01491	1
DC3000/delta hrp 6h	0.76652
DC3000/delta hrp 12h	1.21144	1
DC3000/delta hrp 24h	1.66748	0.296

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	N/A	N/A
Exp 36h	1.18805	0.489
Exp 60h	1.95698	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.10315	1
Var 0h	0.82835	0.261
Var 12h I row2-row1	1.56844	0.254
Var 12h NI row2-row1	1.35019	0.649
Var 36h I row2-row1	1.54085	0.489
Var 36h NI row2-row1	0.66838	0.584
Var 60h I row2-row1	2.3993	0.562
Var 60h NI row2-row1	1.10044	1
Time course 0hI-0hNI	1.14466	0.799
Time course 12hI-12hNI	1.25096	0.016
Time course 36hI-36hNI	4.68838	0.004
Time course 60hI-60hNI	5.9396	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)	0.95506	0.662
transgenic ySAMdc/azygous control (breaker)	0.81141	0.49
transgenic ySAMdc/azygous control (red)	1.19687	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02194	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.61124	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11257	1
Manapal/WT (break)	2.12969	0.183
Manapal/WT (red)	1.28459	0.222