Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.10.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85978	0.2
27DAP/17DAP	1.035	1
39DAP/27DAP	0.79767	0.443
41DAP/39DAP	0.77725	0.385
42DAP/41DAP	1.1243	0.899
43DAP/42DAP	1.44432	0.778
47DAP/43DAP	0.91435	0.687
52DAP/47DAP	1.06171	0.987
57DAP/52DAP	1.26654	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04766	0.76
17DAP/reference	0.95509	0.419
27DAP/reference	0.90433	0.187
39DAP/reference	0.93641	0.24
41DAP/reference	0.87507	0.267
42DAP/reference	0.83938	0.004
43DAP/reference	0.9647	0.48
47DAP/reference	0.85432	0.025
52DAP/reference	0.90532	0.158
57DAP/reference	1.03794	0.704

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09882	0.515
27DAP/17DAP	0.84094	0.151
39DAP/27DAP	0.97755	0.844
41DAP/39DAP	1.03027	0.896
42DAP/41DAP	0.96741	0.726
43DAP/42DAP	0.9834	0.854
47DAP/43DAP	1.10023	0.593
52DAP/47DAP	1.07234	0.868
57DAP/52DAP	0.91763	0.603
57DAP/7DAP	1.94601

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96515	0.55
17DAP/reference	0.88917	0.22
27DAP/reference	0.94569	0.325
39DAP/reference	0.94804	0.264
41DAP/reference	0.99124	0.646
42DAP/reference	1.0788	0.534
43DAP/reference	0.85212	0.082
47DAP/reference	0.74488	0.038
52DAP/reference	0.80949	0.15
57DAP/reference	0.86956	0.137

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03131	1
17DAP/reference	0.87796	0.068
27DAP/reference	0.92413	0.352
39DAP/reference	0.86488	0.129
41DAP/reference	0.90022	0.231
42DAP/reference	0.77307	0.05
43DAP/reference	1.16676	0.331
47DAP/reference	0.9373	0.311
52DAP/reference	0.7855	0.007
57DAP/reference	0.8235	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20404	0.076
17DAP/reference	0.94475	0.426
27DAP/reference	1.046	1
39DAP/reference	0.88855	0.101
41DAP/reference	0.84006	0.119
42DAP/reference	0.99193	0.816
43DAP/reference	0.8072	0.042
47DAP/reference	0.99806	0.708
52DAP/reference	0.87049	0.186
57DAP/reference	0.90263	0.174

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.30646	0.735
26DAP/20DAP	1.21101	0.66
34DAP/26DAP	0.90286	0.841
51DAP/34DAP	0.83789	0.458
52DAP/51DAP	1.22441	0.579
53DAP/52DAP	1.04144	1
55DAP/53DAP	1.32502	0.075
57DAP/55DAP	0.91874	0.684
62DAP/57DAP	1.42952	0.185
68DAP/62DAP	2.50509	0.253
68DAP/14DAP	0.93998	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12964	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.46838	0.058
Mature Green Tomato/Ripe Tomato	1.01201	0.835
Immature Eggplant/Mature Eggplant	8.26894	0.05
Ripe Pepper/Ripe Tomato	0.14485	0.224
Mature Eggplant/Ripe Tomato	2.94841	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17191	0.591
1-1-2/M82	0.92092	1
12-2/M82	N/A	N/A
12-4/M82	0.83914
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	1.1528
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	1.06502	1
6-2/M82	1.34271
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.14822
9-3-2/M82	1.15136

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.0973	0.788
IL7-5/WTpooled	7.39891
IL7-3/WTpooled	1.06305	1
IL12-4/WTpooled	0.966	1
IL1-4/WTpooled	1.23645	1
WT/WTpooled	1.00873	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	0.79266	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95225	1
DC3000/delta hrp 6h	1.1408	1
DC3000/delta hrp 12h	2.08619
DC3000/delta hrp 24h	0.56343	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97384	0.882
DC3000 delta B/DC3000 delta AB	1.1531	0.246

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19161	1
Exp 36h	0.94445	0.82
Exp 60h	0.94986	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0723	1
Var 0h	0.95306	1
Var 12h I row2-row1	0.90935	0.627
Var 12h NI row2-row1	1.09419	1
Var 36h I row2-row1	1.07369	0.908
Var 36h NI row2-row1	1.35918	0.253
Var 60h I row2-row1	0.88261	0.306
Var 60h NI row2-row1	1.12196	0.904
Time course 0hI-0hNI	0.93197	0.373
Time course 12hI-12hNI	0.94649	0.436
Time course 36hI-36hNI	0.90308	0.153
Time course 60hI-60hNI	0.39733	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)	1.11179	0.612
transgenic ySAMdc/azygous control (breaker)	1.29504	0.248
transgenic ySAMdc/azygous control (red)	1.27649	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99414	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.69086	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	8.63227	0.083
Manapal/WT (break)	1.5023	0.183
Manapal/WT (red)	2.10532	0.137