Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.7.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25186	0.545
27DAP/17DAP	1.26657	0.804
39DAP/27DAP	0.94391	0.641
41DAP/39DAP	1.252	0.342
42DAP/41DAP	0.91826	1
43DAP/42DAP	1.18809	0.906
47DAP/43DAP	1.32119	0.273
52DAP/47DAP	1.03588	0.989
57DAP/52DAP	1.05149	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91943	0.3
17DAP/reference	1.09684	0.606
27DAP/reference	0.95444	0.484
39DAP/reference	1.0754	0.691
41DAP/reference	1.57331	0.451
42DAP/reference	0.81069	0.006
43DAP/reference	1.00954	1
47DAP/reference	0.88977	0.09
52DAP/reference	1.02802	0.73
57DAP/reference	1.00056	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99871	0.899
27DAP/17DAP	0.99504	0.943
39DAP/27DAP	1.04512	0.643
41DAP/39DAP	1.09044	0.427
42DAP/41DAP	0.94001	0.565
43DAP/42DAP	1.00144	1
47DAP/43DAP	0.9848	0.923
52DAP/47DAP	0.97256	0.902
57DAP/52DAP	0.99887	0.902
57DAP/7DAP	1.05325	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8643	0.07
17DAP/reference	0.96024	0.011
27DAP/reference	0.92806	0.117
39DAP/reference	0.96935	0.23
41DAP/reference	0.98604	0.646
42DAP/reference	0.97139	0.436
43DAP/reference	0.92214	0.076
47DAP/reference	0.80904	0.128
52DAP/reference	0.82302
57DAP/reference	0.97264	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83318	0.029
17DAP/reference	1.02822	0.83
27DAP/reference	0.80928	0.074
39DAP/reference	0.87995	0.06
41DAP/reference	0.92905	0.315
42DAP/reference	0.77441	0.028
43DAP/reference	0.96489	0.527
47DAP/reference	0.92443	0.154
52DAP/reference	0.97951	0.5
57DAP/reference	0.93575	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95673	0.214
17DAP/reference	1.04997	0.833
27DAP/reference	0.94867	0.376
39DAP/reference	0.92825	0.591
41DAP/reference	0.96449	0.417
42DAP/reference	0.75863	0.22
43DAP/reference	0.80666	0.03
47DAP/reference	0.96614	0.494
52DAP/reference	0.90495	0.289
57DAP/reference	1.01246	0.873

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92781	1
26DAP/20DAP	0.89693
34DAP/26DAP	0.96089	0.879
51DAP/34DAP	1.08969	0.458
52DAP/51DAP	1.00838	0.965
53DAP/52DAP	0.90494
55DAP/53DAP	1.11214	1
57DAP/55DAP	1.00564	0.968
62DAP/57DAP	0.99215	1
68DAP/62DAP	0.92886	0.7
68DAP/14DAP	0.69214	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9311	0.166

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79276	0.347
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.2667
Mature Eggplant/Ripe Tomato	1.79204

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0107	1
1-1-2/M82	N/A	N/A
12-2/M82	1.38149
12-4/M82	0.98991	1
1-3/M82	N/A	N/A
2-1-1/M82	1.13667
2-1/M82	N/A	N/A
2-6/M82	1.04516
3-2/M82	0.99678
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.62845
4-3/M82	N/A	N/A
5-3/M82	1.09788
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.93889
7-2/M82	1.02572	1
9-3-2/M82	1.0478	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80455
IL2-6/WTpooled	0.57904	0.383
IL7-5/WTpooled	1.22656	1
IL7-3/WTpooled	1.66693	0.362
IL12-4/WTpooled	1.30525	0.785
IL1-4/WTpooled	1.54732	0.322
WT/WTpooled	1.09529	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	0.94234	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89888	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.93301
DC3000/delta hrp 24h	1.03365	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10967	0.134
DC3000 delta B/DC3000 delta AB	1.13678	0.261

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19843	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98781	1
Var 0h	0.90803	0.261
Var 12h I row2-row1	1.16593	0.211
Var 12h NI row2-row1	1.03079	1
Var 36h I row2-row1	1.16119	1
Var 36h NI row2-row1	1.10554	1
Var 60h I row2-row1	1.13621	1
Var 60h NI row2-row1	1.02742	1
Time course 0hI-0hNI	1.0639	0.833
Time course 12hI-12hNI	0.99371	1
Time course 36hI-36hNI	1.00131	0.908
Time course 60hI-60hNI	1.22067	0.047

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)	1.282	0.748
transgenic ySAMdc/azygous control (breaker)	1.0778	1
transgenic ySAMdc/azygous control (red)	1.31809	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.31044	0.036

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.12453	0.381
Manapal/WT (red)	2.15508	0.133