Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.10.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00685	1
27DAP/17DAP	0.95223	0.939
39DAP/27DAP	1.03276	1
41DAP/39DAP	1.19425	0.612
42DAP/41DAP	1.01438	1
43DAP/42DAP	1.00818	1
47DAP/43DAP	1.28863	0.42
52DAP/47DAP	0.76352	0.359
57DAP/52DAP	1.09462	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85289	0.055
17DAP/reference	0.8842	0.018
27DAP/reference	0.8636	0.03
39DAP/reference	0.90948	0.184
41DAP/reference	0.85087	0.154
42DAP/reference	0.97206	0.295
43DAP/reference	0.95736	0.611
47DAP/reference	0.96331	0.174
52DAP/reference	1.03164	0.912
57DAP/reference	1.18047	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92546	0.496
27DAP/17DAP	0.88744	0.295
39DAP/27DAP	0.85365	0.113
41DAP/39DAP	1.07032	0.753
42DAP/41DAP	0.93686	0.552
43DAP/42DAP	1.02196	0.746
47DAP/43DAP	0.96135	0.796
52DAP/47DAP	0.95245	0.71
57DAP/52DAP	0.98985	0.81
57DAP/7DAP	0.82011	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96922	0.495
17DAP/reference	0.92833	0.011
27DAP/reference	0.89116	0.031
39DAP/reference	0.94602	0.056
41DAP/reference	1.04384	0.336
42DAP/reference	0.9649	0.16
43DAP/reference	0.97851	0.403
47DAP/reference	0.95728	0.504
52DAP/reference	1.00098	0.74
57DAP/reference	1.03496	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77591	0.019
17DAP/reference	0.77741	0.009
27DAP/reference	0.97429	0.537
39DAP/reference	0.98412	0.554
41DAP/reference	1.04472	0.831
42DAP/reference	0.98365	0.482
43DAP/reference	0.7822	0.049
47DAP/reference	0.89505	0.01
52DAP/reference	0.90581	0.055
57DAP/reference	0.73588	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87755	0.04
17DAP/reference	0.92041	0.203
27DAP/reference	0.91634	0.076
39DAP/reference	0.99492	0.819
41DAP/reference	0.9681	0.417
42DAP/reference	0.99762	0.816
43DAP/reference	1.02181	0.923
47DAP/reference	0.94492	0.325
52DAP/reference	0.85484	0.18
57DAP/reference	1.35011	0.015

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03044	0.966
26DAP/20DAP	0.82221	0.228
34DAP/26DAP	0.98327	0.991
51DAP/34DAP	1.04529	0.898
52DAP/51DAP	0.94965	1
53DAP/52DAP	0.95831
55DAP/53DAP	1.1119	0.468
57DAP/55DAP	1.20087	0.682
62DAP/57DAP	1.02155	1
68DAP/62DAP	1.25773	0.431
68DAP/14DAP	1.66731	0.063

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85364	0.048

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78145	0.236
Mature Green Tomato/Ripe Tomato	1.82623	0.018
Immature Eggplant/Mature Eggplant	0.96826	0.808
Ripe Pepper/Ripe Tomato	1.72448	1
Mature Eggplant/Ripe Tomato	1.01896	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0557	0.877
1-1-2/M82	0.90477	1
12-2/M82	1.00843	1
12-4/M82	0.97721	1
1-3/M82	0.8518	0.441
2-1-1/M82	1.06565
2-1/M82	1.09651
2-6/M82	1.0739	0.594
3-2/M82	0.93382	0.752
4-1-1/M82	1.06148	0.977
4-1/M82	0.87685	1
4-3-2/M82	0.86952	0.698
4-3/M82	0.85341	1
5-3/M82	0.93138	1
6-2/M82	1.29254
6-3/M82	1.03257	1
7-1/M82	1.04358	1
7-2/M82	1.03429	0.324
9-3-2/M82	0.84256	0.355

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	1.01772	1
IL12-4/WTpooled	1.1605
IL1-4/WTpooled	0.90235	0.422
WT/WTpooled	1.01402	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	0.9759	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93011
DC3000/delta hrp 6h	1.05665	1
DC3000/delta hrp 12h	1.05179	1
DC3000/delta hrp 24h	1.09362	0.221

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.49101	0.023
DC3000 delta B/DC3000 delta AB	0.48576	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1058	1
Exp 36h	1.16011	0.693
Exp 60h	1.07827	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97807	1
Var 0h	1.03752	1
Var 12h I row2-row1	0.71093	0.338
Var 12h NI row2-row1	0.92732	0.494
Var 36h I row2-row1	0.84407	0.805
Var 36h NI row2-row1	1.17343	1
Var 60h I row2-row1	1.25241	0.523
Var 60h NI row2-row1	0.9409	1
Time course 0hI-0hNI	0.94982	0.618
Time course 12hI-12hNI	0.98612	0.924
Time course 36hI-36hNI	0.88783	0.056
Time course 60hI-60hNI	0.20432	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)	0.96496	0.529
transgenic ySAMdc/azygous control (breaker)	1.17792	0.248
transgenic ySAMdc/azygous control (red)	1.00353	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98169	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7591	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02873	1
Manapal/WT (break)	1.04649	1
Manapal/WT (red)	1.08947	1