Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.9.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.31	0.015
27DAP/17DAP	1.03793	0.926
39DAP/27DAP	0.92767	0.573
41DAP/39DAP	1.07464	0.935
42DAP/41DAP	1.04853	1
43DAP/42DAP	0.88032	0.751
47DAP/43DAP	1.13741	0.727
52DAP/47DAP	0.80066	0.565
57DAP/52DAP	1.10263	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.44353	0.024
17DAP/reference	0.38703	0.007
27DAP/reference	0.45537	0.012
39DAP/reference	0.4647	0.009
41DAP/reference	0.48788	0.009
42DAP/reference	0.56828	0.001
43DAP/reference	0.58111	0.015
47DAP/reference	0.53464	0.001
52DAP/reference	0.494	0.017
57DAP/reference	0.73597	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26329	0.074
27DAP/17DAP	0.98092	0.887
39DAP/27DAP	0.96492	0.737
41DAP/39DAP	0.9916	1
42DAP/41DAP	0.92604	0.612
43DAP/42DAP	0.98053	0.902
47DAP/43DAP	0.92828	0.387
52DAP/47DAP	1.06336	0.779
57DAP/52DAP	0.85456	0.177
57DAP/7DAP	0.8569	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61407	0.062
17DAP/reference	0.79651	0.025
27DAP/reference	0.701	0.01
39DAP/reference	0.63009	0.011
41DAP/reference	0.67663	0.012
42DAP/reference	0.60328	0.01
43DAP/reference	0.49293	0.01
47DAP/reference	0.5337	0.038
52DAP/reference	0.4841	0.009
57DAP/reference	0.51184	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.52445	0.007
17DAP/reference	0.34157	0.003
27DAP/reference	0.4747	0.006
39DAP/reference	0.35985	0.008
41DAP/reference	0.53448	0.011
42DAP/reference	0.5284	0.016
43DAP/reference	0.62303	0.009
47DAP/reference	0.62679	0.015
52DAP/reference	0.26872	0.003
57DAP/reference	0.42808	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.60862	0.03
17DAP/reference	0.70025	0.118
27DAP/reference	1.16629	0.624
39DAP/reference	0.61995	0.019
41DAP/reference	0.66796	0.019
42DAP/reference	0.65503	0.019
43DAP/reference	0.44671	0.017
47DAP/reference	0.33252	0.004
52DAP/reference	0.56085	0.069
57DAP/reference	0.45473	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0037	1
26DAP/20DAP	0.77044	0.512
34DAP/26DAP	0.91836	0.816
51DAP/34DAP	0.78059	0.449
52DAP/51DAP	0.94239	1
53DAP/52DAP	0.80181	0.276
55DAP/53DAP	1.13133	0.566
57DAP/55DAP	1.01911	0.935
62DAP/57DAP	0.93226	0.466
68DAP/62DAP	1.2789	0.869
68DAP/14DAP	0.86346	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03361	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.8989	0.038
Immature Eggplant/Mature Eggplant	5.01022
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	4.0704

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.73183
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	0.5544
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.0902
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	N/A	N/A
5-3/M82	N/A	N/A
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	2.29604	0.277
IL2-6/WTpooled	0.88894	1
IL7-5/WTpooled	3.06323	1
IL7-3/WTpooled	3.66942	1
IL12-4/WTpooled	1.20576	0.695
IL1-4/WTpooled	13.4164	1
WT/WTpooled	0.90071	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	0.9317	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09125	0.894
DC3000/delta hrp 6h	1.7099	0.449
DC3000/delta hrp 12h	0.77226	1
DC3000/delta hrp 24h	12.5901	0.022

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.45714	0.06
DC3000 delta B/DC3000 delta AB	1.01262	0.748

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.80302	0.623
Exp 60h	0.94146	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97564	1
Var 0h	1.13649	0.421
Var 12h I row2-row1	0.78303	0.353
Var 12h NI row2-row1	0.89724	0.627
Var 36h I row2-row1	1.05592	0.908
Var 36h NI row2-row1	1.30971	0.276
Var 60h I row2-row1	1.09654	0.502
Var 60h NI row2-row1	1.11447	1
Time course 0hI-0hNI	0.92862	0.548
Time course 12hI-12hNI	0.86288	0.132
Time course 36hI-36hNI	0.88215	0.142
Time course 60hI-60hNI	0.1289	0.005

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)	0.84875	0.614
transgenic ySAMdc/azygous control (breaker)	1.26759	1
transgenic ySAMdc/azygous control (red)	1.107	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95689	0.153

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.55943	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.54709	1
Manapal/WT (break)	1.49256	0.183
Manapal/WT (red)	0.8981	0.242