Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.8.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2515	0.477
27DAP/17DAP	1.22772	0.793
39DAP/27DAP	0.91596	0.449
41DAP/39DAP	0.96734	0.815
42DAP/41DAP	1.22568	0.722
43DAP/42DAP	1.02632	1
47DAP/43DAP	0.95634	0.835
52DAP/47DAP	0.75919	0.405
57DAP/52DAP	0.91523	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85647	0.087
17DAP/reference	1.05769	0.355
27DAP/reference	1.06637	0.082
39DAP/reference	1.01044	0.885
41DAP/reference	1.07716	0.067
42DAP/reference	1.19088	0.002
43DAP/reference	1.42759	0.01
47DAP/reference	1.31787	0.01
52DAP/reference	1.14976	0.335
57DAP/reference	1.01904	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17471	0.109
27DAP/17DAP	0.99541	0.969
39DAP/27DAP	1.30346	0.079
41DAP/39DAP	0.83423	0.019
42DAP/41DAP	1.10634	0.425
43DAP/42DAP	1.57387	0.013
47DAP/43DAP	1.01956	0.957
52DAP/47DAP	0.93766	0.694
57DAP/52DAP	1.01988	0.906
57DAP/7DAP	1.35787	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64005	0.095
17DAP/reference	0.71006	0.012
27DAP/reference	0.8191	0.016
39DAP/reference	1.17574	0.486
41DAP/reference	0.90564	0.166
42DAP/reference	0.87771	0.048
43DAP/reference	1.25288	0.027
47DAP/reference	1.59112	0.022
52DAP/reference	0.94595	0.363
57DAP/reference	0.93165	0.109

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86666	0.038
17DAP/reference	0.80498	0.011
27DAP/reference	1.11613	0.412
39DAP/reference	1.0551	0.3
41DAP/reference	1.00342	0.666
42DAP/reference	0.95689	0.355
43DAP/reference	0.93109	0.352
47DAP/reference	0.96218	0.359
52DAP/reference	0.89245	0.034
57DAP/reference	0.98491	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76646	0.033
17DAP/reference	0.83769	0.189
27DAP/reference	0.76403	0.033
39DAP/reference	1.04555	0.819
41DAP/reference	0.84179	0.024
42DAP/reference	1.34183	0.167
43DAP/reference	1.33492	0.052
47DAP/reference	1.76216	0.006
52DAP/reference	1.45901	0.055
57DAP/reference	1.14812	0.2

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40048	0.966
26DAP/20DAP	0.96038	1
34DAP/26DAP	0.98859	1
51DAP/34DAP	1.08213	0.524
52DAP/51DAP	0.95723	1
53DAP/52DAP	1.06435	0.753
55DAP/53DAP	1.04397	0.806
57DAP/55DAP	0.98286	0.854
62DAP/57DAP	0.88655	0.466
68DAP/62DAP	1.058	0.984
68DAP/14DAP	1.0607	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49261	0.032

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.43028	0.085
Mature Green Tomato/Ripe Tomato	0.68042	0.028
Immature Eggplant/Mature Eggplant	0.51641	0.069
Ripe Pepper/Ripe Tomato	0.62215	0.224
Mature Eggplant/Ripe Tomato	0.39737	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.47149	0.551
1-1-2/M82	1.17638	1
12-2/M82	1.01247	1
12-4/M82	1.11329	1
1-3/M82	1.42573	1
2-1-1/M82	0.8027	0.465
2-1/M82	0.58544	0.519
2-6/M82	1.35599	0.425
3-2/M82	1.06337	0.84
4-1-1/M82	1.28257	1
4-1/M82	0.94399	1
4-3-2/M82	1.14746	0.508
4-3/M82	1.40756	0.268
5-3/M82	0.8643	1
6-2/M82	1.49219	1
6-3/M82	0.98934	1
7-1/M82	0.93205	1
7-2/M82	0.76822	0.796
9-3-2/M82	1.09169	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.97997	1
IL7-5/WTpooled	1.17616
IL7-3/WTpooled	0.89746	1
IL12-4/WTpooled	0.78447	0.52
IL1-4/WTpooled	0.90826
WT/WTpooled	1.0136	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	0.99073	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97088	1
DC3000/delta hrp 6h	1.00793	0.95
DC3000/delta hrp 12h	0.9537	1
DC3000/delta hrp 24h	0.80861	0.065

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10064	0.556
DC3000 delta B/DC3000 delta AB	1.08101	0.443

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84826	1
Exp 36h	0.84	0.623
Exp 60h	0.79649	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94458	1
Var 0h	0.56364	0.311
Var 12h I row2-row1	0.97485	0.856
Var 12h NI row2-row1	0.90654	0.713
Var 36h I row2-row1	0.93171	1
Var 36h NI row2-row1	1.14266	0.482
Var 60h I row2-row1	1.03202	0.543
Var 60h NI row2-row1	1.04182	1
Time course 0hI-0hNI	1.05067	0.719
Time course 12hI-12hNI	0.94552	0.551
Time course 36hI-36hNI	1.0129	0.89
Time course 60hI-60hNI	0.58799	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)	1.0834	0.748
transgenic ySAMdc/azygous control (breaker)	2.10675	0.172
transgenic ySAMdc/azygous control (red)	1.27773	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97759	0.362

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.52034	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.59853	0.083
Manapal/WT (break)	1.37592	1
Manapal/WT (red)	2.05739	0.15