Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4331	0.101
27DAP/17DAP	1.19126	0.842
39DAP/27DAP	1.65736	0.144
41DAP/39DAP	1.14928	0.498
42DAP/41DAP	1.02039	0.978
43DAP/42DAP	0.948	0.883
47DAP/43DAP	1.25324	0.285
52DAP/47DAP	0.79844	0.388
57DAP/52DAP	1.18044	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16085	0.844
17DAP/reference	0.97338	0.664
27DAP/reference	0.96517	0.581
39DAP/reference	1.14244	0.359
41DAP/reference	1.33288	0.085
42DAP/reference	1.36827	0.001
43DAP/reference	1.22803	0.142
47DAP/reference	1.20731	0.04
52DAP/reference	0.93372	0.36
57DAP/reference	1.10518	0.463

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91902	0.388
27DAP/17DAP	1.02779	0.942
39DAP/27DAP	1.06024	0.548
41DAP/39DAP	0.95769	0.893
42DAP/41DAP	0.90588	0.356
43DAP/42DAP	0.91051	0.073
47DAP/43DAP	0.88876	0.239
52DAP/47DAP	1.09521	0.645
57DAP/52DAP	1.11251	0.424
57DAP/7DAP	0.92162	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76694	0.058
17DAP/reference	0.88237	0.017
27DAP/reference	0.89747	0.051
39DAP/reference	0.87613	0.011
41DAP/reference	0.835	0.029
42DAP/reference	0.84567	0.011
43DAP/reference	0.82785	0.017
47DAP/reference	1.00174	1
52DAP/reference	0.79078	0.012
57DAP/reference	0.79306	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01589	0.869
17DAP/reference	1.61466	0.014
27DAP/reference	1.35818	0.06
39DAP/reference	1.27502	0.194
41DAP/reference	1.11692	0.614
42DAP/reference	1.30346	0.115
43DAP/reference	1.43506	0.083
47DAP/reference	1.51139	0.032
52DAP/reference	1.27944	0.03
57DAP/reference	1.15347	0.398

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9049	0.092
17DAP/reference	0.89931	0.194
27DAP/reference	0.79209	0.025
39DAP/reference	0.81472	0.023
41DAP/reference	0.86234	0.086
42DAP/reference	0.94441	0.361
43DAP/reference	1.18637	0.531
47DAP/reference	0.9797	0.538
52DAP/reference	0.89087	0.368
57DAP/reference	1.25844	0.362

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87576	1
26DAP/20DAP	0.78532	0.512
34DAP/26DAP	1.12042	1
51DAP/34DAP	0.83997	0.298
52DAP/51DAP	1.43956	0.033
53DAP/52DAP	0.8856	0.226
55DAP/53DAP	1.2289	0.107
57DAP/55DAP	0.87571	0.521
62DAP/57DAP	0.81526	0.28
68DAP/62DAP	0.71953	0.406
68DAP/14DAP	0.40196	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96382	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.78967	0.058
Mature Green Tomato/Ripe Tomato	0.54558	0.06
Immature Eggplant/Mature Eggplant	0.72256	0.069
Ripe Pepper/Ripe Tomato	1.00898	1
Mature Eggplant/Ripe Tomato	1.07152	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.2513
12-2/M82	N/A	N/A
12-4/M82	1.20979	1
1-3/M82	1.78152
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	1.51591
4-1-1/M82	1.21137
4-1/M82	1.92611
4-3-2/M82	1.49329	1
4-3/M82	1.21568	0.268
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.09266	0.598
7-2/M82	N/A	N/A
9-3-2/M82	1.53071	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02879	1
IL2-6/WTpooled	1.1899	0.419
IL7-5/WTpooled	0.49004
IL7-3/WTpooled	1.00035	1
IL12-4/WTpooled	0.78139	0.566
IL1-4/WTpooled	0.77241	0.457
WT/WTpooled	0.89375	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	1.19436	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95329	1
DC3000/delta hrp 6h	0.91965	0.95
DC3000/delta hrp 12h	1.20791	1
DC3000/delta hrp 24h	0.80159	0.046

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.43955	0.27
DC3000 delta B/DC3000 delta AB	1.0916	0.479

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8713	1
Exp 36h	0.73757	0.406
Exp 60h	0.70932	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97832	1
Var 0h	0.52778	0.782
Var 12h I row2-row1	0.85329	0.514
Var 12h NI row2-row1	0.91559	0.713
Var 36h I row2-row1	1.02108	1
Var 36h NI row2-row1	1.07252	1
Var 60h I row2-row1	1.00336	1
Var 60h NI row2-row1	1.03439	0.904
Time course 0hI-0hNI	1.11846	0.852
Time course 12hI-12hNI	1.03321	0.72
Time course 36hI-36hNI	1.08174	0.07
Time course 60hI-60hNI	1.12101	0.06

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)	1.16795	0.261
transgenic ySAMdc/azygous control (breaker)	0.73302	0.132
transgenic ySAMdc/azygous control (red)	0.87325	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14281	0.041

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97509	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97204	1
Manapal/WT (break)	0.89024	1
Manapal/WT (red)	1.65474	0.222