Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.10.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91805	0.543
27DAP/17DAP	1.17492	0.845
39DAP/27DAP	0.79275	0.435
41DAP/39DAP	1.07093	0.715
42DAP/41DAP	0.92161	1
43DAP/42DAP	1.00724	1
47DAP/43DAP	1.09726	0.926
52DAP/47DAP	1.33172	0.763
57DAP/52DAP	0.9284	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9567	0.476
17DAP/reference	1.2567	0.042
27DAP/reference	1.02076	0.923
39DAP/reference	1.14634	0.101
41DAP/reference	1.26736	0.054
42DAP/reference	0.8922	0.038
43DAP/reference	1.09647	0.382
47DAP/reference	1.03343	0.817
52DAP/reference	0.71008	0.075
57DAP/reference	0.78543	0.029

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93426	0.428
27DAP/17DAP	1.00447	1
39DAP/27DAP	1.02966	0.742
41DAP/39DAP	1.14071	0.612
42DAP/41DAP	1.01498	1
43DAP/42DAP	1.15436	0.23
47DAP/43DAP	1.02738	0.827
52DAP/47DAP	0.95451	0.899
57DAP/52DAP	1.05792	0.772
57DAP/7DAP	1.38687	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88989	0.138
17DAP/reference	0.90043	0.192
27DAP/reference	1.04243	0.664
39DAP/reference	0.79564	0.023
41DAP/reference	0.94529	0.394
42DAP/reference	0.82574	0.073
43DAP/reference	1.1362	0.569
47DAP/reference	0.9547	0.504
52DAP/reference	1.11658	0.636
57DAP/reference	1.0626	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25519	0.131
17DAP/reference	1.219	0.015
27DAP/reference	0.79816	0.123
39DAP/reference	0.9107	0.314
41DAP/reference	0.93904	0.307
42DAP/reference	0.84244	0.108
43DAP/reference	1.19544	0.255
47DAP/reference	0.98557	0.574
52DAP/reference	0.96427	0.433
57DAP/reference	1.06967	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91955	0.268
17DAP/reference	1.09401	0.641
27DAP/reference	1.06635	0.467
39DAP/reference	1.12193	0.151
41DAP/reference	0.9127	0.459
42DAP/reference	0.89174	0.22
43DAP/reference	0.68622	0.038
47DAP/reference	1.14261	0.388
52DAP/reference	1.50204	0.209
57DAP/reference	1.06269	0.333

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19156	0.966
26DAP/20DAP	0.84684	0.228
34DAP/26DAP	1.02931	1
51DAP/34DAP	1.07558	0.637
52DAP/51DAP	1.03763	0.873
53DAP/52DAP	1.05968	0.797
55DAP/53DAP	1.00268	0.951
57DAP/55DAP	1.19619	0.525
62DAP/57DAP	1.15095	0.8
68DAP/62DAP	0.83424	0.314
68DAP/14DAP	1.01244	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11715	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.65368	0.055
Immature Eggplant/Mature Eggplant	1.27609
Ripe Pepper/Ripe Tomato	0.11593	1
Mature Eggplant/Ripe Tomato	0.56737	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97047	0.944
1-1-2/M82	0.92841	0.958
12-2/M82	0.94744	0.955
12-4/M82	1.05914	1
1-3/M82	0.67878
2-1-1/M82	1.67097
2-1/M82	N/A	N/A
2-6/M82	1.02405	1
3-2/M82	0.81189
4-1-1/M82	0.83269
4-1/M82	1.02613	1
4-3-2/M82	0.98911	1
4-3/M82	1.02887	1
5-3/M82	0.88188	0.642
6-2/M82	0.93058	1
6-3/M82	0.99397	1
7-1/M82	0.97406	1
7-2/M82	0.97957	1
9-3-2/M82	0.89523	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.55662	0.277
IL2-6/WTpooled	1.00542	1
IL7-5/WTpooled	0.93081	1
IL7-3/WTpooled	1.01658	1
IL12-4/WTpooled	1.1041	0.595
IL1-4/WTpooled	1.09532	1
WT/WTpooled	1.0307	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	0.92827	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06205	0.715
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.00722	1
DC3000/delta hrp 24h	1.28203	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11865	0.25
DC3000 delta B/DC3000 delta AB	0.9744	0.805

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.77061	0.265
Exp 36h	0.98888	1
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	1.07313	1
Var 0h	1.00969	1
Var 12h I row2-row1	0.93125	0.418
Var 12h NI row2-row1	0.89336	0.488
Var 36h I row2-row1	0.98865	1
Var 36h NI row2-row1	1.27798	1
Var 60h I row2-row1	1.10683	0.562
Var 60h NI row2-row1	1.0834	0.904
Time course 0hI-0hNI	1.03504	0.852
Time course 12hI-12hNI	0.96308	0.556
Time course 36hI-36hNI	1.20179	0.05
Time course 60hI-60hNI	1.3712	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)	0.96722	0.306
transgenic ySAMdc/azygous control (breaker)	0.64835	0.134
transgenic ySAMdc/azygous control (red)	0.97792	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04761	0.119

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94569	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94762	1
Manapal/WT (break)	0.83883	1
Manapal/WT (red)	0.77483	0.181