Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.1.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.42406	0.018
27DAP/17DAP	0.53219	0.04
39DAP/27DAP	1.50054	0.228
41DAP/39DAP	1.04583	1
42DAP/41DAP	0.84138	1
43DAP/42DAP	1.08321	1
47DAP/43DAP	0.93543	0.705
52DAP/47DAP	1.34108	0.596
57DAP/52DAP	1.3895	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97235	0.465
17DAP/reference	0.87047	0.079
27DAP/reference	0.90142	0.073
39DAP/reference	0.91134	0.298
41DAP/reference	0.77137	0.016
42DAP/reference	0.95629	0.182
43DAP/reference	0.91366	0.331
47DAP/reference	1.0158	1
52DAP/reference	1.07575	0.453
57DAP/reference	1.0358	0.405

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.60972	0.068
27DAP/17DAP	1.10057	0.822
39DAP/27DAP	0.9901	0.997
41DAP/39DAP	0.81141	0.42
42DAP/41DAP	1.06761	0.916
43DAP/42DAP	1.15525	0.297
47DAP/43DAP	1.0045	0.997
52DAP/47DAP	1.00386	0.987
57DAP/52DAP	1.10037	0.567
57DAP/7DAP	1.18975	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91472	0.146
17DAP/reference	0.79046	0.016
27DAP/reference	0.87403	0.076
39DAP/reference	0.94611	0.307
41DAP/reference	1.00295	0.848
42DAP/reference	0.79484	0.048
43DAP/reference	0.78364	0.046
47DAP/reference	0.88888	0.293
52DAP/reference	0.6755	0.015
57DAP/reference	0.77739	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86209	0.115
17DAP/reference	0.88261	0.201
27DAP/reference	0.97531	0.501
39DAP/reference	0.98194	0.509
41DAP/reference	1.0099	0.749
42DAP/reference	0.95773	0.261
43DAP/reference	0.8847	0.285
47DAP/reference	0.91095	0.085
52DAP/reference	0.89895	0.043
57DAP/reference	0.78681	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99291	0.699
17DAP/reference	0.84704	0.21
27DAP/reference	0.75434	0.044
39DAP/reference	0.87356	0.076
41DAP/reference	0.85867	0.064
42DAP/reference	1.00639	1
43DAP/reference	0.91234	0.334
47DAP/reference	1.17403	0.251
52DAP/reference	0.76693	0.15
57DAP/reference	1.62577	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11551	0.966
26DAP/20DAP	1.34792	0.243
34DAP/26DAP	0.98641	1
51DAP/34DAP	1.27258	0.118
52DAP/51DAP	0.92203	1
53DAP/52DAP	1.1677	0.565
55DAP/53DAP	0.88534	0.725
57DAP/55DAP	1.34257	0.643
62DAP/57DAP	0.95154	0.994
68DAP/62DAP	1.17555	0.515
68DAP/14DAP	1.1633	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0398	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70497	0.188
Mature Green Tomato/Ripe Tomato	0.22588	0.017
Immature Eggplant/Mature Eggplant	0.79594	0.086
Ripe Pepper/Ripe Tomato	0.87021	1
Mature Eggplant/Ripe Tomato	0.71779	1

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	0.76262	0.619
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.61307	0.447
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.85716	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91561	0.243
IL2-6/WTpooled	0.99717	1
IL7-5/WTpooled	1.00495
IL7-3/WTpooled	0.85039	1
IL12-4/WTpooled	1.28138	0.839
IL1-4/WTpooled	1.03529	1
WT/WTpooled	0.97811	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	1.27336	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.22368	0.774
DC3000/delta hrp 6h	0.95052	0.95
DC3000/delta hrp 12h	1.2641	1
DC3000/delta hrp 24h	0.39931	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.57619	0.024
DC3000 delta B/DC3000 delta AB	0.68696	0.137

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03027	1
Exp 36h	1.24201	0.693
Exp 60h	1.41077	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91615
Var 0h	1.13251	0.936
Var 12h I row2-row1	0.95585	0.565
Var 12h NI row2-row1	1.04651	1
Var 36h I row2-row1	1.43136	1
Var 36h NI row2-row1	1.30268	0.482
Var 60h I row2-row1	0.9215	0.285
Var 60h NI row2-row1	1.00257	1
Time course 0hI-0hNI	1.02447	0.852
Time course 12hI-12hNI	0.85178	0.086
Time course 36hI-36hNI	1.06329	0.651
Time course 60hI-60hNI	0.4973	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)	1.04327	0.699
transgenic ySAMdc/azygous control (breaker)	0.95213	0.49
transgenic ySAMdc/azygous control (red)	0.88008	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9914	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13247	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.3468	0.105
Manapal/WT (break)	1.20971	0.381
Manapal/WT (red)	1.09749	1