Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22708	0.485
27DAP/17DAP	1.46392	0.671
39DAP/27DAP	1.19638	0.677
41DAP/39DAP	0.94085	0.772
42DAP/41DAP	1.28065	0.755
43DAP/42DAP	0.81534	0.613
47DAP/43DAP	1.23783	0.309
52DAP/47DAP	0.8864	0.702
57DAP/52DAP	1.20534	0.873

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99236	0.693
17DAP/reference	1.00825	0.74
27DAP/reference	0.95945	0.484
39DAP/reference	1.07659	0.534
41DAP/reference	0.93258	0.341
42DAP/reference	0.90735	0.025
43DAP/reference	1.05181	0.133
47DAP/reference	0.93103	0.083
52DAP/reference	0.75037	0.046
57DAP/reference	0.86727	0.042

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90005	0.323
27DAP/17DAP	0.8734	0.446
39DAP/27DAP	1.10254	0.519
41DAP/39DAP	0.94201	0.747
42DAP/41DAP	1.03578	0.916
43DAP/42DAP	1.11585	0.04
47DAP/43DAP	1.00674	1
52DAP/47DAP	0.94942	0.726
57DAP/52DAP	0.90346	0.189
57DAP/7DAP	1.33922	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90515	0.088
17DAP/reference	0.88043	0.011
27DAP/reference	0.91482	0.037
39DAP/reference	0.88487	0.011
41DAP/reference	0.86901	0.023
42DAP/reference	0.93738	0.073
43DAP/reference	0.82393	0.011
47DAP/reference	0.84985	0.038
52DAP/reference	0.80916	0.023
57DAP/reference	0.79894	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03439	0.863
17DAP/reference	0.9405	0.279
27DAP/reference	0.85201	0.093
39DAP/reference	0.83309	0.064
41DAP/reference	0.87766	0.085
42DAP/reference	0.87343	0.024
43DAP/reference	1.06057	0.605
47DAP/reference	1.0042	0.73
52DAP/reference	0.97845	0.5
57DAP/reference	0.95124	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91291	0.077
17DAP/reference	0.99141	0.763
27DAP/reference	0.93287	0.155
39DAP/reference	0.88793	0.012
41DAP/reference	0.89871	0.028
42DAP/reference	0.80405	0.172
43DAP/reference	0.8177	0.073
47DAP/reference	0.89513	0.207
52DAP/reference	0.8476	0.121
57DAP/reference	0.52397	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02109	1
26DAP/20DAP	0.7692	0.228
34DAP/26DAP	1.10694	0.819
51DAP/34DAP	1.01317	0.978
52DAP/51DAP	1.16007	0.708
53DAP/52DAP	0.93672	0.695
55DAP/53DAP	1.02416	1
57DAP/55DAP	1.02118	0.93
62DAP/57DAP	1.19715	0.158
68DAP/62DAP	0.93311	0.7
68DAP/14DAP	0.99264	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33692	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.3878	0.112
Mature Green Tomato/Ripe Tomato	1.13473	0.881
Immature Eggplant/Mature Eggplant	4.77866	0.05
Ripe Pepper/Ripe Tomato	0.33756	0.224
Mature Eggplant/Ripe Tomato	0.49733	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09489	0.551
1-1-2/M82	0.99852	1
12-2/M82	0.98134	0.955
12-4/M82	1.11735	1
1-3/M82	1.02342	1
2-1-1/M82	1.19006	0.689
2-1/M82	0.89345
2-6/M82	1.11214	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.13709	1
4-1/M82	1.14346	0.429
4-3-2/M82	1.15069
4-3/M82	1.47491	0.268
5-3/M82	0.95967	1
6-2/M82	1.10401	0.211
6-3/M82	1.10311	1
7-1/M82	0.88746	0.443
7-2/M82	0.99322	1
9-3-2/M82	1.29137	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.30027	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.84247	0.294
IL12-4/WTpooled	0.78989	0.566
IL1-4/WTpooled	1.02751	1
WT/WTpooled	0.87525	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	1.14701	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99919	1
DC3000/delta hrp 6h	1.20722	0.582
DC3000/delta hrp 12h	1.14917	1
DC3000/delta hrp 24h	0.96641	0.769

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15161
DC3000 delta B/DC3000 delta AB	1.17893	0.433

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02169	1
Exp 36h	2.00437	0.693
Exp 60h	1.59214	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03749	1
Var 0h	1.32785	0.936
Var 12h I row2-row1	0.96984	0.948
Var 12h NI row2-row1	0.89006	0.443
Var 36h I row2-row1	1.11061	1
Var 36h NI row2-row1	0.88363	0.584
Var 60h I row2-row1	1.16062	0.543
Var 60h NI row2-row1	1.27774	0.904
Time course 0hI-0hNI	1.02018	0.852
Time course 12hI-12hNI	0.97278	0.739
Time course 36hI-36hNI	1.09485	0.316
Time course 60hI-60hNI	1.53549	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)	0.78146	0.289
transgenic ySAMdc/azygous control (breaker)	1.59418	1
transgenic ySAMdc/azygous control (red)	1.19332	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03907	0.045

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14687	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69417	1
Manapal/WT (break)	0.81603	1
Manapal/WT (red)	0.96514	0.728