Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.16.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49178	0.545
27DAP/17DAP	1.95682	0.189
39DAP/27DAP	3.79052	0.344
41DAP/39DAP	1.72322	0.638
42DAP/41DAP	0.99484	1
43DAP/42DAP	1.24156	1
47DAP/43DAP	0.35198	0.049
52DAP/47DAP	1.07658	0.89
57DAP/52DAP	1.15028	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65549	0.026
17DAP/reference	0.76454	0.01
27DAP/reference	0.96027	0.581
39DAP/reference	0.77838	0.074
41DAP/reference	1.08054	0.667
42DAP/reference	2.00941	0.001
43DAP/reference	0.70882	0.017
47DAP/reference	0.68731	0.002
52DAP/reference	0.61382	0.012
57DAP/reference	0.83949	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.51236	0.116
27DAP/17DAP	1.04372	0.912
39DAP/27DAP	3.42195	0.034
41DAP/39DAP	4.3067	0.005
42DAP/41DAP	0.60423	0.007
43DAP/42DAP	0.38614	0.02
47DAP/43DAP	1.12543	0.618
52DAP/47DAP	1.46674	0.519
57DAP/52DAP	0.48693	0.177
57DAP/7DAP	1.53804	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67711	0.065
17DAP/reference	1.43822	0.437
27DAP/reference	1.6135	0.16
39DAP/reference	2.12352	0.252
41DAP/reference	0.84961	0.039
42DAP/reference	1.19513	1
43DAP/reference	0.87681	0.23
47DAP/reference	1.60744	0.036
52DAP/reference	1.85141	0.011
57DAP/reference	2.39828	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68344	0.01
17DAP/reference	0.65008	0.006
27DAP/reference	0.89614	0.195
39DAP/reference	1.84281	0.106
41DAP/reference	1.23087	0.126
42DAP/reference	1.50341	0.126
43DAP/reference	3.65659	0.063
47DAP/reference	3.83405	0.02
52DAP/reference	1.14316	0.208
57DAP/reference	3.20817	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78486	0.127
17DAP/reference	1.14736	0.865
27DAP/reference	0.78549	0.024
39DAP/reference	1.22154	0.169
41DAP/reference	1.44216	0.08
42DAP/reference	0.80561	0.049
43DAP/reference	0.76865	0.098
47DAP/reference	0.75721	0.012
52DAP/reference	0.70975	0.064
57DAP/reference	0.98026	0.602

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11768	0.966
26DAP/20DAP	1.17779	1
34DAP/26DAP	0.90889	0.675
51DAP/34DAP	1.0346	1
52DAP/51DAP	0.95418	1
53DAP/52DAP	0.73597	0.235
55DAP/53DAP	0.89245	0.775
57DAP/55DAP	1.13661	0.975
62DAP/57DAP	1.25517	0.257
68DAP/62DAP	1.39302	0.29
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.39443	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.17849	0.015
Immature Eggplant/Mature Eggplant	42.9478
Ripe Pepper/Ripe Tomato	0.21596	0.224
Mature Eggplant/Ripe Tomato	0.10276	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.66182	0.613
1-1-2/M82	0.98431	1
12-2/M82	1.48548	1
12-4/M82	1.06437	1
1-3/M82	1.55038	0.26
2-1-1/M82	0.84911	0.465
2-1/M82	1.54396
2-6/M82	1.00332	1
3-2/M82	2.60942
4-1-1/M82	1.36377	1
4-1/M82	1.02837	1
4-3-2/M82	2.57709	0.508
4-3/M82	0.59487	0.578
5-3/M82	1.70154	0.436
6-2/M82	4.12137	0.235
6-3/M82	0.96357	1
7-1/M82	0.22313
7-2/M82	1.47571	0.385
9-3-2/M82	1.57333	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22426
IL2-6/WTpooled	1.26473	0.531
IL7-5/WTpooled	0.70796
IL7-3/WTpooled	1.12775	1
IL12-4/WTpooled	0.94362	1
IL1-4/WTpooled	1.03037	1
WT/WTpooled	0.86628	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	2.09293	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97923	1
DC3000/delta hrp 6h	1.39233	0.777
DC3000/delta hrp 12h	1.11321	1
DC3000/delta hrp 24h	2.7213	0.026

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.65984	0.042
DC3000 delta B/DC3000 delta AB	5.48096	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	2.10961	0.216
Exp 36h	1.79175	0.489
Exp 60h	3.39604	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01937	1
Var 0h	1.28254	0.421
Var 12h I row2-row1	0.90325	0.77
Var 12h NI row2-row1	2.84965	0.191
Var 36h I row2-row1	1.43745	1
Var 36h NI row2-row1	0.43787	0.478
Var 60h I row2-row1	0.72281	0.306
Var 60h NI row2-row1	0.61626	0.458
Time course 0hI-0hNI	1.95036	0.662
Time course 12hI-12hNI	1.95199	0.593
Time course 36hI-36hNI	11.0543	0.004
Time course 60hI-60hNI	273.3	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)	0.47396	0.255
transgenic ySAMdc/azygous control (breaker)	0.99079	1
transgenic ySAMdc/azygous control (red)	0.90793	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99246	0.631

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.11396	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93136	1
Manapal/WT (break)	0.60442	0.333
Manapal/WT (red)	0.50107	0.181