Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.3.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10229	0.904
27DAP/17DAP	1.10677	0.859
39DAP/27DAP	1.39092	0.675
41DAP/39DAP	1.37912	0.676
42DAP/41DAP	1.50775	0.886
43DAP/42DAP	1.2781	0.864
47DAP/43DAP	1.53529	0.444
52DAP/47DAP	1.30651	0.562
57DAP/52DAP	0.92248	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97095	0.39
17DAP/reference	0.90618	0.536
27DAP/reference	0.9714	0.567
39DAP/reference	0.98289	0.663
41DAP/reference	1.23521	0.032
42DAP/reference	0.92781	0.182
43DAP/reference	1.0426
47DAP/reference	0.89503	0.345
52DAP/reference	0.90863	0.077
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15687	0.65
27DAP/17DAP	1.02584	1
39DAP/27DAP	1.11813	0.611
41DAP/39DAP	1.64663	0.14
42DAP/41DAP	0.81456	0.177
43DAP/42DAP	0.97194	0.774
47DAP/43DAP	0.92764	0.617
52DAP/47DAP	1.08792	0.718
57DAP/52DAP	1.15097	0.74
57DAP/7DAP	1.14139	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07252	0.491
17DAP/reference	1.35209	0.017
27DAP/reference	1.48621	0.007
39DAP/reference	1.49209	0.008
41DAP/reference	1.39086	0.033
42DAP/reference	1.6133	0.037
43DAP/reference	2.42389	0.041
47DAP/reference	1.1285	0.659
52DAP/reference	1.54442	0.007
57DAP/reference	1.29657	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97767	0.623
17DAP/reference	0.96645	0.317
27DAP/reference	0.96806	0.501
39DAP/reference	1.00913	1
41DAP/reference	0.90871	0.098
42DAP/reference	0.88647	0.05
43DAP/reference	1.15104	0.167
47DAP/reference	0.93856	0.087
52DAP/reference	0.94846	0.259
57DAP/reference	1.09324	0.131

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27941	0.039
17DAP/reference	1.24739	0.261
27DAP/reference	1.87363	0.042
39DAP/reference	1.40669	0.016
41DAP/reference	1.32685	0.086
42DAP/reference	1.04825	0.961
43DAP/reference	1.3415	0.28
47DAP/reference	0.94345	0.325
52DAP/reference	1.4837	0.134
57DAP/reference	0.81499	0.102

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01106	1
26DAP/20DAP	0.75206	0.512
34DAP/26DAP	1.13458	1
51DAP/34DAP	1.01361	0.957
52DAP/51DAP	1.20179	0.821
53DAP/52DAP	0.79972	0.111
55DAP/53DAP	1.12278	0.566
57DAP/55DAP	1.21765	0.559
62DAP/57DAP	1.04527	0.935
68DAP/62DAP	0.96452	0.81
68DAP/14DAP	0.90397	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.21514	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.09245	0.752
Immature Eggplant/Mature Eggplant	1.03624	1
Ripe Pepper/Ripe Tomato	2.58402	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.30544
12-2/M82	N/A	N/A
12-4/M82	1.10459
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	0.9898
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.72058
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.00179
9-3-2/M82	0.95541

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94858	1
IL2-6/WTpooled	0.82339	0.473
IL7-5/WTpooled	1.00343	1
IL7-3/WTpooled	1.7122	1
IL12-4/WTpooled	0.80815	0.581
IL1-4/WTpooled	0.9605	0.834
WT/WTpooled	0.97954	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	1.66304	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09776	0.921
DC3000/delta hrp 6h	1.20228	1
DC3000/delta hrp 12h	1.00553	1
DC3000/delta hrp 24h	1.0318	0.821

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	1.16147	0.254
Exp 36h	1.58613	0.371
Exp 60h	1.74385	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94487	1
Var 0h	0.80765	0.457
Var 12h I row2-row1	0.80836	0.77
Var 12h NI row2-row1	1.40493	0.649
Var 36h I row2-row1	1.16478	0.742
Var 36h NI row2-row1	0.95108	0.246
Var 60h I row2-row1	0.92644	0.832
Var 60h NI row2-row1	0.91896	0.977
Time course 0hI-0hNI	1.11716	0.574
Time course 12hI-12hNI	0.98575	0.95
Time course 36hI-36hNI	1.46615	0.007
Time course 60hI-60hNI	0.96931	0.646

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)	0.96157	0.722
transgenic ySAMdc/azygous control (breaker)	0.79643	0.49
transgenic ySAMdc/azygous control (red)	1.09061	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01955	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91528	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91578	1
Manapal/WT (break)	0.92741	1
Manapal/WT (red)	1.25464	1