Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01972	0.947
27DAP/17DAP	1.03888	0.89
39DAP/27DAP	0.87917	0.537
41DAP/39DAP	1.36456	0.392
42DAP/41DAP	1.04713	1
43DAP/42DAP	0.96425	0.887
47DAP/43DAP	1.19733	0.253
52DAP/47DAP	1.36588	0.635
57DAP/52DAP	0.87499	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14209	0.421
17DAP/reference	1.08342	0.089
27DAP/reference	1.01212	0.966
39DAP/reference	1.03555	0.445
41DAP/reference	1.09447	0.019
42DAP/reference	1.02906	0.931
43DAP/reference	0.99622	0.882
47DAP/reference	1.01042	0.764
52DAP/reference	0.94073	0.237
57DAP/reference	0.80017	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97324	0.663
27DAP/17DAP	0.9468	0.312
39DAP/27DAP	1.10729	0.441
41DAP/39DAP	1.15616	0.427
42DAP/41DAP	1.12082	0.343
43DAP/42DAP	1.09442	0.147
47DAP/43DAP	1.1049	0.424
52DAP/47DAP	0.98066	0.905
57DAP/52DAP	0.96064	0.566
57DAP/7DAP	1.09371	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80285	0.108
17DAP/reference	0.82983	0.014
27DAP/reference	0.70785	0.01
39DAP/reference	0.82282	0.014
41DAP/reference	0.7875	0.017
42DAP/reference	0.77904	0.022
43DAP/reference	0.70837	0.011
47DAP/reference	0.78872	0.128
52DAP/reference	0.70819	0.011
57DAP/reference	0.70675	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10325	0.226
17DAP/reference	1.08252	0.12
27DAP/reference	1.09583	0.388
39DAP/reference	0.99609	0.661
41DAP/reference	0.93661	0.256
42DAP/reference	0.89441	0.089
43DAP/reference	1.0963	0.396
47DAP/reference	0.98827	0.59
52DAP/reference	1.12363	0.085
57DAP/reference	1.3821	0.155

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92705	0.214
17DAP/reference	0.93486	0.364
27DAP/reference	0.76389	0.031
39DAP/reference	0.7599	0.008
41DAP/reference	0.77278	0.021
42DAP/reference	0.74041	0.023
43DAP/reference	0.82787	0.088
47DAP/reference	0.8664	0.139
52DAP/reference	0.78824	0.098
57DAP/reference	0.60663	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13718	0.966
26DAP/20DAP	0.86293	0.244
34DAP/26DAP	0.98475	0.991
51DAP/34DAP	0.98605	0.863
52DAP/51DAP	1.13704	0.163
53DAP/52DAP	1.06391	0.819
55DAP/53DAP	1.01013	0.917
57DAP/55DAP	0.90793	0.532
62DAP/57DAP	1.25991	0.569
68DAP/62DAP	1.0739	1
68DAP/14DAP	0.99947	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93569	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.54879	0.018
Immature Eggplant/Mature Eggplant	0.30185
Ripe Pepper/Ripe Tomato	0.15457	0.224
Mature Eggplant/Ripe Tomato	0.18419	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02085	1
1-1-2/M82	0.92949	1
12-2/M82	1.03242	1
12-4/M82	1.11368	1
1-3/M82	0.93579	0.501
2-1-1/M82	0.98664	1
2-1/M82	0.64475
2-6/M82	1.09597	0.695
3-2/M82	0.81238
4-1-1/M82	0.95022	1
4-1/M82	1.0756	1
4-3-2/M82	0.86422	0.698
4-3/M82	1.09729	1
5-3/M82	1.08989	1
6-2/M82	0.93525
6-3/M82	0.80666
7-1/M82	1.22723
7-2/M82	1.04709	1
9-3-2/M82	0.83062	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.1437
IL2-6/WTpooled	0.98328	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.15451	1
IL12-4/WTpooled	1.01114	1
IL1-4/WTpooled	0.99629	1
WT/WTpooled	0.93969	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	1.25771	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9761	1
DC3000/delta hrp 6h	1.0113	0.95
DC3000/delta hrp 12h	1.19235	1
DC3000/delta hrp 24h	1.00123	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05862	0.515
DC3000 delta B/DC3000 delta AB	1.05025	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1468	1
Exp 36h	N/A	N/A
Exp 60h	1.45703	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99557	1
Var 0h	0.99717	1
Var 12h I row2-row1	1.02579	0.795
Var 12h NI row2-row1	0.9103	0.713
Var 36h I row2-row1	0.96214	1
Var 36h NI row2-row1	0.84489	0.61
Var 60h I row2-row1	0.94868	0.439
Var 60h NI row2-row1	1.01132	1
Time course 0hI-0hNI	1.0428	0.852
Time course 12hI-12hNI	1.01307	0.867
Time course 36hI-36hNI	1.12158	0.005
Time course 60hI-60hNI	1.96799	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)	0.98856	0.789
transgenic ySAMdc/azygous control (breaker)	0.7433	0.15
transgenic ySAMdc/azygous control (red)	1.05941	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97961	0.404

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78357	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.61715	0.14
Manapal/WT (break)	1.10946	0.381
Manapal/WT (red)	0.97711	0.728