Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.16.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99245	0.811
27DAP/17DAP	0.68395	0.456
39DAP/27DAP	2.63905	0.289
41DAP/39DAP	1.07609	0.92
42DAP/41DAP	1.00907	1
43DAP/42DAP	1.01304	0.937
47DAP/43DAP	1.19063	0.727
52DAP/47DAP	1.28897	0.949
57DAP/52DAP	1.56862	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92097	0.293
17DAP/reference	0.91582	0.321
27DAP/reference	0.97289	0.552
39DAP/reference	1.00057	0.921
41DAP/reference	0.91273	0.341
42DAP/reference	0.89124	0.021
43DAP/reference	1.2804	0.02
47DAP/reference	0.94912	0.224
52DAP/reference	0.98487	0.564
57DAP/reference	0.97393	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96896	0.679
27DAP/17DAP	2.06757	0.681
39DAP/27DAP	1.28714	0.526
41DAP/39DAP	1.36127	0.748
42DAP/41DAP	0.81831	0.42
43DAP/42DAP	0.86321	0.431
47DAP/43DAP	0.81677	0.219
52DAP/47DAP	0.79845	0.612
57DAP/52DAP	1.27678	0.414
57DAP/7DAP	1.47751	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92943	0.296
17DAP/reference	0.84807	0.056
27DAP/reference	0.98062	0.53
39DAP/reference	0.84849	0.056
41DAP/reference	0.91465	0.271
42DAP/reference	0.79544	0.086
43DAP/reference	0.916	0.22
47DAP/reference	0.81636	0.128
52DAP/reference	0.83163	0.077
57DAP/reference	0.89097	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8446	0.214
17DAP/reference	0.83207	0.086
27DAP/reference	0.79161	0.041
39DAP/reference	0.82946	0.012
41DAP/reference	0.8735	0.027
42DAP/reference	0.8949	0.121
43DAP/reference	0.89906	0.378
47DAP/reference	0.87133	0.032
52DAP/reference	0.81013	0.025
57DAP/reference	0.67693	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82813	0.065
17DAP/reference	0.91395	0.275
27DAP/reference	0.89337	0.165
39DAP/reference	0.79964	0.011
41DAP/reference	0.84367	0.037
42DAP/reference	0.96073	0.552
43DAP/reference	0.88063	0.068
47DAP/reference	0.97386	0.494
52DAP/reference	0.73412	0.189
57DAP/reference	0.8566	0.229

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9709	1
26DAP/20DAP	1.64033	0.101
34DAP/26DAP	1.18761	0.819
51DAP/34DAP	1.57446	0.061
52DAP/51DAP	1.01091	1
53DAP/52DAP	0.86131	0.621
55DAP/53DAP	1.05813	1
57DAP/55DAP	1.01858	0.935
62DAP/57DAP	0.7649	0.466
68DAP/62DAP	2.59477	0.682
68DAP/14DAP	1.47415	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.32441	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.55662	0.068
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.29339
Ripe Pepper/Ripe Tomato	0.74441	0.293
Mature Eggplant/Ripe Tomato	N/A	N/A

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	0.88474
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	0.98952
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.52066
IL12-4/WTpooled	1.32367	0.531
IL1-4/WTpooled	0.7379
WT/WTpooled	1.05508	0.999

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	0.95158	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00553	1
DC3000/delta hrp 6h	1.01769	0.95
DC3000/delta hrp 12h	1.00723	1
DC3000/delta hrp 24h	0.53867	0.034

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	0.94378	1
Exp 36h	0.69372	0.419
Exp 60h	0.59173	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06897	1
Var 0h	0.75365	0.933
Var 12h I row2-row1	0.99698	1
Var 12h NI row2-row1	1.1375	1
Var 36h I row2-row1	1.13814	1
Var 36h NI row2-row1	1.13335	0.253
Var 60h I row2-row1	0.94449	0.285
Var 60h NI row2-row1	0.80852	1
Time course 0hI-0hNI	0.93562	0.699
Time course 12hI-12hNI	1.10315	0.181
Time course 36hI-36hNI	1.07779	0.19
Time course 60hI-60hNI	1.13546	0.137

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)	0.98614	0.614
transgenic ySAMdc/azygous control (breaker)	0.9754	1
transgenic ySAMdc/azygous control (red)	0.74888	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01047	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.6341	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.38448	0.093
Manapal/WT (break)	1.70999	0.183
Manapal/WT (red)	N/A	N/A