Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.1.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99868	0.901
27DAP/17DAP	0.73389	0.235
39DAP/27DAP	1.11055	0.906
41DAP/39DAP	0.8569	0.501
42DAP/41DAP	1.16005	0.852
43DAP/42DAP	0.99844	0.925
47DAP/43DAP	1.04874	0.92
52DAP/47DAP	0.81468	0.543
57DAP/52DAP	1.30701	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90902	0.078
17DAP/reference	1.01984	0.653
27DAP/reference	0.99656	0.847
39DAP/reference	1.09692	0.218
41DAP/reference	1.0344	0.759
42DAP/reference	0.92314	0.091
43DAP/reference	1.00168	0.904
47DAP/reference	1.0165	1
52DAP/reference	1.009	0.749
57DAP/reference	1.03664	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0974	0.675
27DAP/17DAP	1.00948	0.995
39DAP/27DAP	1.01216	0.997
41DAP/39DAP	0.9588	0.934
42DAP/41DAP	1.06829	0.836
43DAP/42DAP	1.05422	0.585
47DAP/43DAP	1.2017	0.618
52DAP/47DAP	0.97191	0.901
57DAP/52DAP	1.11027	0.543
57DAP/7DAP	1.35933

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69472	0.07
17DAP/reference	0.62492	0.012
27DAP/reference	0.82671	0.076
39DAP/reference	0.6568	0.011
41DAP/reference	0.92004	0.223
42DAP/reference	0.74302	0.053
43DAP/reference	0.57799	0.011
47DAP/reference	0.85365	0.293
52DAP/reference	0.58172	0.01
57DAP/reference	0.67666	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92678	0.475
17DAP/reference	0.96359	0.536
27DAP/reference	0.96106	0.407
39DAP/reference	0.83566	0.076
41DAP/reference	0.88055	0.044
42DAP/reference	1.03276	0.987
43DAP/reference	1.06241	0.929
47DAP/reference	0.89491	0.071
52DAP/reference	0.94546	0.327
57DAP/reference	0.90619	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64255	0.025
17DAP/reference	0.84318	0.281
27DAP/reference	0.71702	0.036
39DAP/reference	0.72429	0.033
41DAP/reference	0.66593	0.019
42DAP/reference	0.76039	0.02
43DAP/reference	0.7032	0.032
47DAP/reference	1.07495	0.585
52DAP/reference	0.72992	0.128
57DAP/reference	0.93748	0.353

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07148	0.966
26DAP/20DAP	1.00394	1
34DAP/26DAP	1.06835	1
51DAP/34DAP	0.72537	0.217
52DAP/51DAP	1.10834	0.651
53DAP/52DAP	0.77854	0.544
55DAP/53DAP	1.05085	0.994
57DAP/55DAP	0.82087
62DAP/57DAP	1.72538	0.445
68DAP/62DAP	2.3947	0.657
68DAP/14DAP	1.04347	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86045	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.03276	0.058
Mature Green Tomato/Ripe Tomato	1.02046	1
Immature Eggplant/Mature Eggplant	0.8344
Ripe Pepper/Ripe Tomato	1.40314
Mature Eggplant/Ripe Tomato	0.70757	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.7101	0.907
1-1-2/M82	1.04347
12-2/M82	N/A	N/A
12-4/M82	0.84376	0.619
1-3/M82	0.9555
2-1-1/M82	0.654
2-1/M82	N/A	N/A
2-6/M82	0.87536	1
3-2/M82	0.95452
4-1-1/M82	N/A	N/A
4-1/M82	0.99384
4-3-2/M82	N/A	N/A
4-3/M82	0.70521
5-3/M82	0.92068	0.642
6-2/M82	0.939
6-3/M82	1.13085	1
7-1/M82	0.94016
7-2/M82	0.70632	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79884	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.02794	1
IL1-4/WTpooled	0.91527	0.834
WT/WTpooled	0.96173	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	1.33779	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.16658	0.823
DC3000/delta hrp 6h	0.90734	0.95
DC3000/delta hrp 12h	0.93595	1
DC3000/delta hrp 24h	1.02788	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.47043	0.085
DC3000 delta B/DC3000 delta AB	0.51747	0.022

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93932	1
Exp 36h	0.82874	0.661
Exp 60h	0.91481	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98212	1
Var 0h	0.86947	0.933
Var 12h I row2-row1	0.79587	0.353
Var 12h NI row2-row1	1.09869	1
Var 36h I row2-row1	0.93461	0.805
Var 36h NI row2-row1	1.37831	1
Var 60h I row2-row1	1.35	0.543
Var 60h NI row2-row1	0.90908	0.756
Time course 0hI-0hNI	0.94539	0.54
Time course 12hI-12hNI	0.94939	0.592
Time course 36hI-36hNI	1.00168	0.826
Time course 60hI-60hNI	0.3021	0.006

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)	0.98167	0.567
transgenic ySAMdc/azygous control (breaker)	1.48305	0.248
transgenic ySAMdc/azygous control (red)	1.07713	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94342	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27338	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99985	1
Manapal/WT (break)	1.1009	1
Manapal/WT (red)	1.10632	0.413