Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.6.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72185	0.04
27DAP/17DAP	0.8088	0.38
39DAP/27DAP	1.22326	0.429
41DAP/39DAP	0.7396	0.095
42DAP/41DAP	0.99594	1
43DAP/42DAP	1.12218	1
47DAP/43DAP	0.74913	0.239
52DAP/47DAP	1.05162	0.941
57DAP/52DAP	0.92705	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11078	0.188
17DAP/reference	1.06453	0.27
27DAP/reference	1.10917	0.252
39DAP/reference	1.11324	0.368
41DAP/reference	0.99964	1
42DAP/reference	1.04266	0.219
43DAP/reference	1.08203	0.382
47DAP/reference	1.20541	0.006
52DAP/reference	1.2671	0.014
57DAP/reference	1.34363	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85625	0.238
27DAP/17DAP	1.06088	0.761
39DAP/27DAP	0.84959	0.099
41DAP/39DAP	1.4685	0.007
42DAP/41DAP	0.91336	0.436
43DAP/42DAP	0.67938	0.023
47DAP/43DAP	1.048	0.798
52DAP/47DAP	0.90468	0.634
57DAP/52DAP	0.91083	0.626
57DAP/7DAP	0.76466	0.149

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41463	0.033
17DAP/reference	1.27028	0.006
27DAP/reference	1.20781	0.01
39DAP/reference	1.27481	0.042
41DAP/reference	1.10497	0.43
42DAP/reference	1.34528	0.03
43DAP/reference	1.32065	0.023
47DAP/reference	1.20729	0.169
52DAP/reference	1.47926	0.041
57DAP/reference	1.33787	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08587	0.589
17DAP/reference	1.05019	0.806
27DAP/reference	0.91857	0.282
39DAP/reference	1.06038	0.746
41DAP/reference	1.06155	0.705
42DAP/reference	1.05107	0.899
43DAP/reference	0.98321	0.633
47DAP/reference	1.12251	0.148
52DAP/reference	0.90958	0.171
57DAP/reference	1.05684	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49693	0.018
17DAP/reference	1.17102	0.558
27DAP/reference	0.95684	0.516
39DAP/reference	1.18868	0.024
41DAP/reference	1.11261	0.265
42DAP/reference	1.09405	0.424
43DAP/reference	0.99651	0.796
47DAP/reference	1.08815	0.61
52DAP/reference	1.17145	0.228
57DAP/reference	1.09379	0.385

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.27283	0.966
26DAP/20DAP	1.15405	0.541
34DAP/26DAP	0.9369	0.879
51DAP/34DAP	1.03818	0.925
52DAP/51DAP	0.98803	1
53DAP/52DAP	0.91387	0.712
55DAP/53DAP	0.79323	0.225
57DAP/55DAP	1.18136	0.986
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.95059	0.834
68DAP/14DAP	3.58888

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99003	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81087	0.261
Mature Green Tomato/Ripe Tomato	1.58948	0.015
Immature Eggplant/Mature Eggplant	0.8532	0.125
Ripe Pepper/Ripe Tomato	1.76276	1
Mature Eggplant/Ripe Tomato	2.42966	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04891	1
1-1-2/M82	1.01305	1
12-2/M82	1.06522
12-4/M82	0.94438	1
1-3/M82	0.9748	1
2-1-1/M82	N/A	N/A
2-1/M82	1.07236
2-6/M82	0.97424	1
3-2/M82	1.01536
4-1-1/M82	0.96739	1
4-1/M82	1.50872
4-3-2/M82	1.22035	1
4-3/M82	1.20753	0.268
5-3/M82	0.90032	0.642
6-2/M82	1.29974
6-3/M82	1.16974
7-1/M82	0.99838
7-2/M82	0.95421	1
9-3-2/M82	1.1645	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16131
IL2-6/WTpooled	1.11712	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.06212	1
IL12-4/WTpooled	0.76084	0.71
IL1-4/WTpooled	1.00965	1
WT/WTpooled	0.87921	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	1.13859	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03604	0.921
DC3000/delta hrp 6h	1.06253	1
DC3000/delta hrp 12h	0.95797	1
DC3000/delta hrp 24h	0.98034	0.91

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03487	0.515
DC3000 delta B/DC3000 delta AB	1.02659	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87165	1
Exp 36h	0.90062	0.749
Exp 60h	0.86911	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01407	1
Var 0h	0.9087	0.933
Var 12h I row2-row1	0.77163	0.31
Var 12h NI row2-row1	1.25744	0.34
Var 36h I row2-row1	0.99886	1
Var 36h NI row2-row1	0.98063	0.852
Var 60h I row2-row1	0.83146	0.285
Var 60h NI row2-row1	0.90112	0.69
Time course 0hI-0hNI	0.98884	0.994
Time course 12hI-12hNI	1.05837	0.526
Time course 36hI-36hNI	1.43679	0.006
Time course 60hI-60hNI	2.357	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)	0.89801	0.428
transgenic ySAMdc/azygous control (breaker)	1.35778	0.178
transgenic ySAMdc/azygous control (red)	1.07987	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.081	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96214	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83963	1
Manapal/WT (break)	1.03292	1
Manapal/WT (red)	0.84005	0.503