Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.6.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33853	0.198
27DAP/17DAP	1.28172	0.755
39DAP/27DAP	0.9279	0.62
41DAP/39DAP	1.17917	0.549
42DAP/41DAP	1.38406	0.485
43DAP/42DAP	1.21538	0.662
47DAP/43DAP	1.15669	0.689
52DAP/47DAP	1.04822	0.96
57DAP/52DAP	1.03907	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84638	0.047
17DAP/reference	1.02819	0.528
27DAP/reference	1.26663	0.033
39DAP/reference	1.10629	0.077
41DAP/reference	1.12515	0.05
42DAP/reference	1.06011	0.467
43DAP/reference	1.14662	0.012
47DAP/reference	1.15319	0.004
52DAP/reference	1.17584	0.102
57DAP/reference	1.02117	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25604	0.048
27DAP/17DAP	0.88191	0.614
39DAP/27DAP	1.34658	0.262
41DAP/39DAP	0.90931	0.696
42DAP/41DAP	1.19833	0.241
43DAP/42DAP	1.20167	0.176
47DAP/43DAP	1.01142	0.998
52DAP/47DAP	1.05046	0.826
57DAP/52DAP	1.08931	0.611
57DAP/7DAP	1.40919	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8273	0.091
17DAP/reference	0.7295	0.049
27DAP/reference	0.77809	0.066
39DAP/reference	1.10241	0.175
41DAP/reference	0.97832	0.589
42DAP/reference	1.00351	0.791
43DAP/reference	0.97718	0.48
47DAP/reference	1.18827	0.311
52DAP/reference	1.2148	0.033
57DAP/reference	1.28906	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9278	0.362
17DAP/reference	0.98737	0.673
27DAP/reference	1.10008	0.607
39DAP/reference	0.74423	0.016
41DAP/reference	1.04034	0.705
42DAP/reference	1.04949	0.68
43DAP/reference	0.99106	0.681
47DAP/reference	1.00717	0.994
52DAP/reference	0.94314	0.5
57DAP/reference	1.26416	0.462

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95276	0.455
17DAP/reference	0.95291	0.537
27DAP/reference	0.81107	0.23
39DAP/reference	0.82708	0.026
41DAP/reference	0.96186	0.417
42DAP/reference	0.94167	0.552
43DAP/reference	1.04514	0.79
47DAP/reference	1.47381	0.01
52DAP/reference	1.52876	0.033
57DAP/reference	1.99509	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07997	0.786
26DAP/20DAP	1.39017	0.256
34DAP/26DAP	1.05103	1
51DAP/34DAP	1.94893	0.034
52DAP/51DAP	0.80244	1
53DAP/52DAP	1.86055	0.023
55DAP/53DAP	0.85922	0.273
57DAP/55DAP	0.94761	0.694
62DAP/57DAP	0.73734
68DAP/62DAP	0.67959	0.037
68DAP/14DAP	1.50507	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00522	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12114	0.287
Mature Green Tomato/Ripe Tomato	0.74727	0.317
Immature Eggplant/Mature Eggplant	0.68733	0.069
Ripe Pepper/Ripe Tomato	0.53976	1
Mature Eggplant/Ripe Tomato	0.62612	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13594	0.877
1-1-2/M82	1.11173	1
12-2/M82	0.98841	1
12-4/M82	0.68978	0.619
1-3/M82	1.92233	0.277
2-1-1/M82	1.1529
2-1/M82	1.08417
2-6/M82	1.09965	0.695
3-2/M82	1.46432
4-1-1/M82	1.15262	1
4-1/M82	0.66121	0.737
4-3-2/M82	1.20334	0.284
4-3/M82	1.81451	0.268
5-3/M82	0.8684	1
6-2/M82	1.18948	1
6-3/M82	0.8097	1
7-1/M82	0.97771	1
7-2/M82	1.04385	1
9-3-2/M82	1.23762	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94344
IL2-6/WTpooled	1.64081	0.427
IL7-5/WTpooled	2.54766	1
IL7-3/WTpooled	0.6322	0.31
IL12-4/WTpooled	1.15955	0.646
IL1-4/WTpooled	1.3213	1
WT/WTpooled	0.96193	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	1.04956	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.22173	1
DC3000/delta hrp 12h	1.17065	1
DC3000/delta hrp 24h	0.8616	0.363

Experiment: DC3000 effector mutants

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

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.28952	1
Exp 36h	0.94559	0.943
Exp 60h	1.18008	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00433	1
Var 0h	0.66966	0.202
Var 12h I row2-row1	0.9194	0.627
Var 12h NI row2-row1	1.07606	0.649
Var 36h I row2-row1	1.21558	0.742
Var 36h NI row2-row1	1.32038	0.276
Var 60h I row2-row1	1.03835	1
Var 60h NI row2-row1	0.9202	1
Time course 0hI-0hNI	1.19945	0.297
Time course 12hI-12hNI	0.89976	0.238
Time course 36hI-36hNI	0.89135	0.211
Time course 60hI-60hNI	1.53687	0.029

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)	0.85369	0.299
transgenic ySAMdc/azygous control (breaker)	2.30084	0.166
transgenic ySAMdc/azygous control (red)	1.19979	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.52049	0.034

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72721	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99606	1
Manapal/WT (break)	1.05546	1
Manapal/WT (red)	0.99006	0.863