Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.4.7.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22412	0.602
27DAP/17DAP	1.05313	0.885
39DAP/27DAP	1.10071	0.961
41DAP/39DAP	1.33985	0.535
42DAP/41DAP	0.91807	1
43DAP/42DAP	0.88705	0.743
47DAP/43DAP	1.13729	0.538
52DAP/47DAP	1.10228	0.869
57DAP/52DAP	0.99489	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97065	0.513
17DAP/reference	1.00226	1
27DAP/reference	0.98963	0.741
39DAP/reference	1.01834	1
41DAP/reference	1.05824	0.667
42DAP/reference	0.90245	0.088
43DAP/reference	1.05934	0.73
47DAP/reference	0.92609	0.09
52DAP/reference	0.96083	0.427
57DAP/reference	1.06883	0.802

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19845	0.464
27DAP/17DAP	0.95423	0.821
39DAP/27DAP	1.02195	0.832
41DAP/39DAP	1.15211	0.773
42DAP/41DAP	0.951	0.62
43DAP/42DAP	1.26043	0.035
47DAP/43DAP	0.92487	0.506
52DAP/47DAP	0.81908	0.183
57DAP/52DAP	0.91278	0.587
57DAP/7DAP	0.44423	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76982	0.08
17DAP/reference	1.03251	0.754
27DAP/reference	1.04841	1
39DAP/reference	1.21109	0.141
41DAP/reference	0.96337	0.341
42DAP/reference	1.1577	0.308
43DAP/reference	1.20674	0.157
47DAP/reference	0.96856	0.671
52DAP/reference	1.08831	0.941
57DAP/reference	0.8151	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92922	0.441
17DAP/reference	0.87307	0.095
27DAP/reference	0.85238	0.119
39DAP/reference	0.93508	0.156
41DAP/reference	1.11845	0.48
42DAP/reference	0.94235	0.321
43DAP/reference	1.24642	0.462
47DAP/reference	1.01673	1
52DAP/reference	0.86419	0.025
57DAP/reference	1.08761	0.462

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82438	0.127
17DAP/reference	0.97583	0.668
27DAP/reference	0.96739	0.397
39DAP/reference	1.01581	0.987
41DAP/reference	0.89831	0.086
42DAP/reference	0.80368	0.028
43DAP/reference	0.70592	0.049
47DAP/reference	0.94191	0.371
52DAP/reference	1.40744	0.575
57DAP/reference	0.82581	0.079

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94441	1
26DAP/20DAP	1.43393	0.141
34DAP/26DAP	0.85725	0.548
51DAP/34DAP	1.28575	0.105
52DAP/51DAP	1.17166	0.15
53DAP/52DAP	0.80792	0.386
55DAP/53DAP	0.92214	0.619
57DAP/55DAP	1.24728	0.666
62DAP/57DAP	0.96317	0.994
68DAP/62DAP	0.90013	0.144
68DAP/14DAP	1.10011	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.74068	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.95386	0.611
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	5.90042	N/A
Mature Eggplant/Ripe Tomato	2.31461	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.83651	N/A
1-1-2/M82	1.14396	N/A
12-2/M82	0.8897	N/A
12-4/M82	1.16894	1
1-3/M82	0.55824	N/A
2-1-1/M82	1.10566	0.764
2-1/M82	N/A	N/A
2-6/M82	1.18455	0.695
3-2/M82	1.11821	0.426
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	1.35585	N/A
5-3/M82	0.71122	N/A
6-2/M82	1.33454	N/A
6-3/M82	N/A	N/A
7-1/M82	1.09007	0.87
7-2/M82	0.78677	0.578
9-3-2/M82	1.01992	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9997	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.17286	1
IL12-4/WTpooled	1.22111	0.498
IL1-4/WTpooled	1.03673	N/A
WT/WTpooled	1.07116	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	0.75534	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02926	0.921
DC3000/delta hrp 6h	0.91935	0.95
DC3000/delta hrp 12h	0.92555	1
DC3000/delta hrp 24h	1.03769	0.467

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	0.69386	0.328
Exp 36h	1.13216	1
Exp 60h	0.96575	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03522	1
Var 0h	2.01604	0.782
Var 12h I row2-row1	1.01517	1
Var 12h NI row2-row1	1.44899	1
Var 36h I row2-row1	0.97566	1
Var 36h NI row2-row1	1.41941	1
Var 60h I row2-row1	0.94175	0.952
Var 60h NI row2-row1	0.76388	0.756
Time course 0hI-0hNI	1.10818	0.662
Time course 12hI-12hNI	1.29348	0.047
Time course 36hI-36hNI	1.152	0.01
Time course 60hI-60hNI	1.03683	1

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)	1.0919	0.286
transgenic ySAMdc/azygous control (breaker)	0.93807	0.49
transgenic ySAMdc/azygous control (red)	0.84692	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04258	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01722	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2113	0.307
Manapal/WT (break)	0.85084	1
Manapal/WT (red)	0.57708	0.188