Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.5.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0802	0.838
27DAP/17DAP	0.90172	0.779
39DAP/27DAP	1.13368	0.572
41DAP/39DAP	1.03007	0.925
42DAP/41DAP	1.20477	0.876
43DAP/42DAP	1.02732	1
47DAP/43DAP	1.49697	0.232
52DAP/47DAP	0.90454	0.683
57DAP/52DAP	1.31992	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92982	0.352
17DAP/reference	0.96784	0.597
27DAP/reference	0.86367	0.194
39DAP/reference	0.85731	0.118
41DAP/reference	0.82946	0.085
42DAP/reference	0.94044	0.157
43DAP/reference	1.01605	0.982
47DAP/reference	1.01827	1
52DAP/reference	1.21165	0.388
57DAP/reference	1.14747	0.109

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9681	0.697
27DAP/17DAP	0.9132	0.821
39DAP/27DAP	1.16934	0.565
41DAP/39DAP	0.96507	0.923
42DAP/41DAP	1.31495	0.084
43DAP/42DAP	1.00899	1
47DAP/43DAP	1.08968	0.708
52DAP/47DAP	1.11461	0.724
57DAP/52DAP	1.81593	0.033
57DAP/7DAP	1.32845	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06847	0.6
17DAP/reference	1.04847	0.971
27DAP/reference	1.20369	0.453
39DAP/reference	1.12005	0.297
41DAP/reference	1.01767	0.848
42DAP/reference	1.13882	0.233
43DAP/reference	1.21306	0.056
47DAP/reference	1.06077	0.868
52DAP/reference	1.00576	0.679
57DAP/reference	0.98268	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91511	0.257
17DAP/reference	1.04939	0.941
27DAP/reference	1.05251	0.961
39DAP/reference	1.03993	1
41DAP/reference	0.85605	0.089
42DAP/reference	0.86394	0.081
43DAP/reference	0.93726	0.45
47DAP/reference	0.83511	0.017
52DAP/reference	1.03683	1
57DAP/reference	1.1084	0.345

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0199	1
17DAP/reference	0.90438	0.186
27DAP/reference	1.06346	0.695
39DAP/reference	1.10415	0.12
41DAP/reference	0.96756	0.459
42DAP/reference	1.06609	0.863
43DAP/reference	1.01425	0.66
47DAP/reference	0.85332	0.109
52DAP/reference	1.13119	0.42
57DAP/reference	1.48533	0.1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.50348	0.47
26DAP/20DAP	1.39164	0.206
34DAP/26DAP	0.80365	0.606
51DAP/34DAP	0.89676	0.649
52DAP/51DAP	1.02007	1
53DAP/52DAP	0.69266	0.19
55DAP/53DAP	0.88656	0.389
57DAP/55DAP	1.18261	0.71
62DAP/57DAP	0.85464	0.28
68DAP/62DAP	1.2369	0.689
68DAP/14DAP	1.12041	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12011	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71234	0.268
Mature Green Tomato/Ripe Tomato	0.86811	0.411
Immature Eggplant/Mature Eggplant	1.05605	0.606
Ripe Pepper/Ripe Tomato	0.58881	0.224
Mature Eggplant/Ripe Tomato	1.9053	0.373

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	1.15745	1
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	0.35987
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.80013
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	0.91
7-2/M82	2.1096
9-3-2/M82	1.002	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.61922
IL2-6/WTpooled	1.16666
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.85907	1
IL12-4/WTpooled	0.93486	1
IL1-4/WTpooled	0.97308	1
WT/WTpooled	0.86698	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	1.24058	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87382	1
DC3000/delta hrp 6h	1.05272	1
DC3000/delta hrp 12h	0.9448	1
DC3000/delta hrp 24h	1.03011	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1257
DC3000 delta B/DC3000 delta AB	1.55429

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97319	1
Exp 36h	1.60267	0.693
Exp 60h	1.39032	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0251	1
Var 0h	1.11725	0.936
Var 12h I row2-row1	1.08531	0.654
Var 12h NI row2-row1	1.07085	1
Var 36h I row2-row1	1.13368	1
Var 36h NI row2-row1	0.8503	0.61
Var 60h I row2-row1	0.81766	0.293
Var 60h NI row2-row1	0.95332	0.977
Time course 0hI-0hNI	1.02021	1
Time course 12hI-12hNI	1.11175	0.467
Time course 36hI-36hNI	1.78858	0.005
Time course 60hI-60hNI	2.27545	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)	0.99169	0.789
transgenic ySAMdc/azygous control (breaker)	1.19365	0.178
transgenic ySAMdc/azygous control (red)	1.12194	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94801	0.208

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88993	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88276	1
Manapal/WT (break)	0.73393	1
Manapal/WT (red)	1.13996	1