Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.13.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00954	1
27DAP/17DAP	1.01412	0.926
39DAP/27DAP	0.84822	0.327
41DAP/39DAP	1.26139	0.447
42DAP/41DAP	0.95554	1
43DAP/42DAP	1.01067	0.945
47DAP/43DAP	0.98623	0.926
52DAP/47DAP	0.89274	0.683
57DAP/52DAP	1.05027	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03215	0.638
17DAP/reference	1.0054	0.843
27DAP/reference	1.07488	0.194
39DAP/reference	1.13265	0.074
41DAP/reference	1.05568	0.203
42DAP/reference	0.99801	0.665
43DAP/reference	1.0032	1
47DAP/reference	1.01798	0.575
52DAP/reference	1.07131	0.354
57DAP/reference	1.04763	0.3

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98771	0.763
27DAP/17DAP	0.99031	0.887
39DAP/27DAP	0.98127	0.859
41DAP/39DAP	1.00283	1
42DAP/41DAP	1.00847	1
43DAP/42DAP	1.01062	0.627
47DAP/43DAP	1.00345	0.957
52DAP/47DAP	0.97882	0.899
57DAP/52DAP	1.07435	0.567
57DAP/7DAP	0.99503	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27624	0.1
17DAP/reference	0.97736	0.389
27DAP/reference	1.09974	0.107
39DAP/reference	1.13549	0.048
41DAP/reference	1.06524	0.375
42DAP/reference	1.21499	0.132
43DAP/reference	1.30123	0.013
47DAP/reference	1.12043	0.67
52DAP/reference	2.18795	0.007
57DAP/reference	1.74292	0.046

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9992	0.993
17DAP/reference	1.03378	0.396
27DAP/reference	0.88513	0.195
39DAP/reference	0.92235	0.136
41DAP/reference	1.18113	0.491
42DAP/reference	1.14714	0.126
43DAP/reference	1.05395	0.777
47DAP/reference	1.27132	0.013
52DAP/reference	0.98296	0.38
57DAP/reference	1.01275	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19985	0.063
17DAP/reference	1.02455	0.833
27DAP/reference	1.04427	0.408
39DAP/reference	1.28178	0.037
41DAP/reference	1.13767	0.486
42DAP/reference	0.99953	0.816
43DAP/reference	0.82858	0.051
47DAP/reference	1.05488	0.339
52DAP/reference	1.11904	0.77
57DAP/reference	0.83717	0.083

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99846	1
26DAP/20DAP	0.99803	1
34DAP/26DAP	1.04359	0.819
51DAP/34DAP	0.88853	0.341
52DAP/51DAP	1.0042	1
53DAP/52DAP	1.04808	0.819
55DAP/53DAP	0.88103	0.225
57DAP/55DAP	1.34694	0.854
62DAP/57DAP	0.86641	0.871
68DAP/62DAP	1.07096	0.808
68DAP/14DAP	1.07933	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03812	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.10032	0.666
Mature Green Tomato/Ripe Tomato	0.83238	0.347
Immature Eggplant/Mature Eggplant	1.23896	0.363
Ripe Pepper/Ripe Tomato	1.30203	0.256
Mature Eggplant/Ripe Tomato	1.12208	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90875	0.613
1-1-2/M82	0.95247	1
12-2/M82	0.89584	0.692
12-4/M82	0.92434	0.358
1-3/M82	0.9063	0.378
2-1-1/M82	0.86415	0.465
2-1/M82	1.24055
2-6/M82	0.93828	0.501
3-2/M82	0.9241	1
4-1-1/M82	1.11221	0.998
4-1/M82	0.95027	1
4-3-2/M82	1.01117	1
4-3/M82	0.94348	1
5-3/M82	1.04275	1
6-2/M82	1.03961	1
6-3/M82	1.06855	1
7-1/M82	1.0096	1
7-2/M82	0.9977	1
9-3-2/M82	0.96506	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	2.43477	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.87675	0.31
IL12-4/WTpooled	1.37178	0.624
IL1-4/WTpooled	1.08362
WT/WTpooled	1.05875	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	1.14676	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12512	0.629
DC3000/delta hrp 6h	1.65219	0.857
DC3000/delta hrp 12h	0.96111	1
DC3000/delta hrp 24h	0.95865	0.736

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20245	0.043
DC3000 delta B/DC3000 delta AB	1.12423	0.335

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1277	0.228
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	1.02536	1
Var 0h	1.14187	0.936
Var 12h I row2-row1	1.17488	0.195
Var 12h NI row2-row1	0.92658	0.546
Var 36h I row2-row1	1.12821	1
Var 36h NI row2-row1	0.84437	0.549
Var 60h I row2-row1	1.19253	0.562
Var 60h NI row2-row1	1.08962	1
Time course 0hI-0hNI	1.04212	0.867
Time course 12hI-12hNI	1.0523	0.724
Time course 36hI-36hNI	1.1173	0.056
Time course 60hI-60hNI	1.74238	0.009

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)	1.93199	0.225
transgenic ySAMdc/azygous control (breaker)	1.44813	0.248
transgenic ySAMdc/azygous control (red)	1.44327	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98127	0.146

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73638	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.49649	1
Manapal/WT (break)	1.23156	1
Manapal/WT (red)	0.71725	0.181