Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.10.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15976	0.798
27DAP/17DAP	1.21733	0.842
39DAP/27DAP	0.78837	0.447
41DAP/39DAP	0.94433	0.791
42DAP/41DAP	1.12889	0.916
43DAP/42DAP	0.966	0.909
47DAP/43DAP	1.06858	0.873
52DAP/47DAP	1.30482	0.575
57DAP/52DAP	0.88715	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90018	0.231
17DAP/reference	1.08566	0.369
27DAP/reference	1.93341	0.018
39DAP/reference	1.49855	0.028
41DAP/reference	1.38243	0.013
42DAP/reference	1.25227	0.043
43DAP/reference	0.99942	0.882
47DAP/reference	1.32961	0.026
52DAP/reference	1.55108	0.04
57DAP/reference	2.10888	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.59077	0.127
27DAP/17DAP	1.02301	0.943
39DAP/27DAP	1.32089	0.623
41DAP/39DAP	1.92666	0.623
42DAP/41DAP	1.21062	1
43DAP/42DAP	0.77992	0.116
47DAP/43DAP	1.0949	0.844
52DAP/47DAP	1.35136	0.39
57DAP/52DAP	1.40642	0.145
57DAP/7DAP	1.734	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88287	0.146
17DAP/reference	0.779	0.018
27DAP/reference	0.80332	0.039
39DAP/reference	0.76175	0.02
41DAP/reference	0.6921	0.01
42DAP/reference	0.61883	0.01
43DAP/reference	0.73005	0.017
47DAP/reference	0.88797	0.293
52DAP/reference	0.59374	0.012
57DAP/reference	0.80005	0.077

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19612	0.38
17DAP/reference	1.08662	0.756
27DAP/reference	0.98886	0.576
39DAP/reference	0.90609	0.314
41DAP/reference	0.89723	0.231
42DAP/reference	0.85824	0.15
43DAP/reference	0.95766	0.494
47DAP/reference	0.85287	0.051
52DAP/reference	1.0684	0.882
57DAP/reference	1.16414	0.423

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90243	0.335
17DAP/reference	0.94255	0.508
27DAP/reference	0.8498	0.051
39DAP/reference	0.84892	0.076
41DAP/reference	0.78143	0.043
42DAP/reference	0.79972	0.041
43DAP/reference	0.92998	0.398
47DAP/reference	1.2198	0.14
52DAP/reference	1.52101	0.306
57DAP/reference	1.78919	0.072

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40574	0.786
26DAP/20DAP	5.04497	0.541
34DAP/26DAP	3.78566	0.819
51DAP/34DAP	1.36031	0.937
52DAP/51DAP	3.33333	0.035
53DAP/52DAP	0.91493	0.445
55DAP/53DAP	1.51609	0.111
57DAP/55DAP	0.42886	0.05
62DAP/57DAP	1.38479	0.445
68DAP/62DAP	2.17223	0.919
68DAP/14DAP	0.43945	0.05

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95303	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.96141

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	1.32481
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.89168
5-3/M82	1.25666
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.3063	0.473
IL7-5/WTpooled	0.21323
IL7-3/WTpooled	1.17388	1
IL12-4/WTpooled	0.98468	1
IL1-4/WTpooled	0.59175	0.562
WT/WTpooled	0.94954	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	1.33202	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.8361	1
DC3000/delta hrp 6h	1.03549	0.95
DC3000/delta hrp 12h	1.08771	1
DC3000/delta hrp 24h	0.95664	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14482	0.053
DC3000 delta B/DC3000 delta AB	1.27651	0.226

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.93434	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.043	1
Var 0h	0.96368	1
Var 12h I row2-row1	0.63873	0.467
Var 12h NI row2-row1	1.19551	0.281
Var 36h I row2-row1	1.02506	1
Var 36h NI row2-row1	1.81243	0.482
Var 60h I row2-row1	0.53209	0.285
Var 60h NI row2-row1	1.07417	0.904
Time course 0hI-0hNI	0.85165	0.294
Time course 12hI-12hNI	1.12047	0.678
Time course 36hI-36hNI	0.86661	0.23
Time course 60hI-60hNI	0.78258	0.026

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)	0.96547	0.485
transgenic ySAMdc/azygous control (breaker)	1.17792	0.248
transgenic ySAMdc/azygous control (red)	1.14041	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98712	0.5

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1016	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07863	1
Manapal/WT (break)	0.9554	1
Manapal/WT (red)	1.26287	0.413