Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.13.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03686	0.867
27DAP/17DAP	1.05157	1
39DAP/27DAP	0.86697	0.522
41DAP/39DAP	1.42925	0.357
42DAP/41DAP	1.33786	0.843
43DAP/42DAP	0.90435	0.827
47DAP/43DAP	0.89598	0.618
52DAP/47DAP	1.32881	0.463
57DAP/52DAP	0.96147	0.949

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93523	0.205
17DAP/reference	0.99167	0.819
27DAP/reference	1.01141	0.925
39DAP/reference	1.02516	0.504
41DAP/reference	1.01833	0.624
42DAP/reference	0.96026	0.188
43DAP/reference	1.04332	0.471
47DAP/reference	0.99449	0.602
52DAP/reference	0.87379	0.143
57DAP/reference	0.88102	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07419	0.581
27DAP/17DAP	0.93457	0.648
39DAP/27DAP	1.06095	0.587
41DAP/39DAP	1.04944	1
42DAP/41DAP	1.05367	0.872
43DAP/42DAP	1.03703	0.699
47DAP/43DAP	1.04707	0.844
52DAP/47DAP	1.03212	0.915
57DAP/52DAP	1.00726	1
57DAP/7DAP	1.29204	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89258	0.072
17DAP/reference	0.84351	0.021
27DAP/reference	0.8635	0.011
39DAP/reference	0.83591	0.011
41DAP/reference	0.76445	0.02
42DAP/reference	0.72891	0.013
43DAP/reference	0.77055	0.032
47DAP/reference	0.86498	0.293
52DAP/reference	0.74952	0.106
57DAP/reference	0.76379	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02366	0.842
17DAP/reference	0.91305	0.337
27DAP/reference	0.84322	0.056
39DAP/reference	0.94227	0.257
41DAP/reference	0.8881	0.118
42DAP/reference	0.92392	0.212
43DAP/reference	1.03216	0.899
47DAP/reference	1.03803	0.467
52DAP/reference	0.99975	0.761
57DAP/reference	1.06404	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94247	0.049
17DAP/reference	0.96924	0.528
27DAP/reference	0.97535	0.27
39DAP/reference	0.96213	0.179
41DAP/reference	0.89288	0.026
42DAP/reference	0.88505	0.22
43DAP/reference	0.83607	0.131
47DAP/reference	1.0606	0.792
52DAP/reference	0.94426	0.493
57DAP/reference	0.76394	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.83149	0.566
26DAP/20DAP	1.04688	0.924
34DAP/26DAP	1.08836	0.542
51DAP/34DAP	1.42644	0.072
52DAP/51DAP	0.89892	1
53DAP/52DAP	0.98032	0.882
55DAP/53DAP	1.06216	0.869
57DAP/55DAP	1.01488	1
62DAP/57DAP	1.14016	0.515
68DAP/62DAP	0.88812	0.505
68DAP/14DAP	0.85596	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97004	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.24069	0.068
Mature Green Tomato/Ripe Tomato	0.81186	0.569
Immature Eggplant/Mature Eggplant	1.0061	1
Ripe Pepper/Ripe Tomato	1.28306	1
Mature Eggplant/Ripe Tomato	0.79439	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02158	1
1-1-2/M82	0.93795	1
12-2/M82	1.0793	1
12-4/M82	0.924	1
1-3/M82	1.06476	1
2-1-1/M82	0.99335	1
2-1/M82	0.86288	0.325
2-6/M82	0.98792	1
3-2/M82	0.99393	1
4-1-1/M82	0.86714	0.962
4-1/M82	0.70279	1
4-3-2/M82	0.83247	0.487
4-3/M82	0.99286	1
5-3/M82	0.99466	1
6-2/M82	0.83002	0.497
6-3/M82	1.00654	1
7-1/M82	1.02545	1
7-2/M82	0.90744	0.599
9-3-2/M82	1.01457	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.12633	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.00809	1
IL1-4/WTpooled	1.31022	1
WT/WTpooled	1.07022	0.999

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	0.98764	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07526	0.921
DC3000/delta hrp 6h	1.04398	1
DC3000/delta hrp 12h	1.26131	1
DC3000/delta hrp 24h	0.97975	0.91

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72545
DC3000 delta B/DC3000 delta AB	1.0594	0.535

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.20213	1
Exp 36h	1.0342	0.693
Exp 60h	1.23984	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94802	1
Var 0h	1.01545	1
Var 12h I row2-row1	0.99641	1
Var 12h NI row2-row1	0.96539	0.82
Var 36h I row2-row1	0.94809	0.805
Var 36h NI row2-row1	0.84107	0.549
Var 60h I row2-row1	1.10194	1
Var 60h NI row2-row1	1.07459	0.904
Time course 0hI-0hNI	1.08392	0.719
Time course 12hI-12hNI	0.99705	1
Time course 36hI-36hNI	1.12124	0.063
Time course 60hI-60hNI	1.48187	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)	0.94359	0.32
transgenic ySAMdc/azygous control (breaker)	0.73073	0.139
transgenic ySAMdc/azygous control (red)	0.9871	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02541	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82195	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97437	1
Manapal/WT (break)	1.07397	1
Manapal/WT (red)	0.44863	0.181