Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.6.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04198	1
27DAP/17DAP	1.28694	0.845
39DAP/27DAP	1.44615	0.384
41DAP/39DAP	1.07711	0.938
42DAP/41DAP	1.23985	0.672
43DAP/42DAP	0.86921	0.583
47DAP/43DAP	1.22965	0.267
52DAP/47DAP	1.13212	0.918
57DAP/52DAP	1.10676	0.892

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80132	0.08
17DAP/reference	0.82363	0.029
27DAP/reference	0.83194	0.018
39DAP/reference	1.05488	0.903
41DAP/reference	0.84587	0.026
42DAP/reference	1.74754	0.001
43DAP/reference	1.51475	0.007
47DAP/reference	1.7784	0.001
52DAP/reference	1.39123	0.019
57DAP/reference	1.34751	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03733	1
27DAP/17DAP	1.14062	0.735
39DAP/27DAP	1.02541	1
41DAP/39DAP	1.21182	0.304
42DAP/41DAP	0.89293	0.524
43DAP/42DAP	1.05163	0.83
47DAP/43DAP	1.05321	0.772
52DAP/47DAP	1.45598	0.201
57DAP/52DAP	1.72399	0.044
57DAP/7DAP	13.1407	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.62706	0.071
17DAP/reference	0.87121	0.192
27DAP/reference	0.7703	0.135
39DAP/reference	1.15564	0.64
41DAP/reference	1.16981	0.475
42DAP/reference	1.1363	0.889
43DAP/reference	0.92823	0.202
47DAP/reference	1.55312	0.052
52DAP/reference	1.23739	0.352
57DAP/reference	1.05214	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76384	0.016
17DAP/reference	0.8156	0.015
27DAP/reference	1.02793	0.79
39DAP/reference	1.19337	0.164
41DAP/reference	1.34589	0.006
42DAP/reference	1.35875	0.046
43DAP/reference	0.92054	0.378
47DAP/reference	1.64814	0.009
52DAP/reference	0.89629	0.101
57DAP/reference	0.85311	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05587	0.804
17DAP/reference	0.82767	0.132
27DAP/reference	0.7209	0.302
39DAP/reference	0.94376	0.464
41DAP/reference	0.99408	0.754
42DAP/reference	1.18884	0.154
43DAP/reference	1.34916	0.102
47DAP/reference	1.66367	0.006
52DAP/reference	0.91038	0.444
57DAP/reference	1.82298	0.005

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9654	1
26DAP/20DAP	0.96364	1
34DAP/26DAP	0.92617	0.927
51DAP/34DAP	0.88335	0.492
52DAP/51DAP	1.24351	0.158
53DAP/52DAP	1.30703
55DAP/53DAP	0.69017	0.091
57DAP/55DAP	1.01151	0.935
62DAP/57DAP	0.85805	0.681
68DAP/62DAP	1.40254	0.093
68DAP/14DAP	2.2266	0.025

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06703	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.64225	0.161
Mature Green Tomato/Ripe Tomato	0.44395	0.017
Immature Eggplant/Mature Eggplant	1.30651	0.053
Ripe Pepper/Ripe Tomato	0.42303	0.224
Mature Eggplant/Ripe Tomato	0.59108	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.11011
1-1-2/M82	1.02141	1
12-2/M82	1.51273
12-4/M82	0.95007	1
1-3/M82	N/A	N/A
2-1-1/M82	1.30614
2-1/M82	1.11819
2-6/M82	0.80533
3-2/M82	1.39847
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	1.15743	1
5-3/M82	0.93999	1
6-2/M82	2.09093	0.253
6-3/M82	0.85562	1
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	1.11447	1
IL2-6/WTpooled	0.73368	1
IL7-5/WTpooled	0.74028
IL7-3/WTpooled	1.19132	1
IL12-4/WTpooled	1.14597	0.737
IL1-4/WTpooled	0.86819
WT/WTpooled	0.94738	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	1.03414	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83761	1
DC3000/delta hrp 6h	0.96537	0.95
DC3000/delta hrp 12h	1.11221	1
DC3000/delta hrp 24h	2.20333	0.026

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12613	1
DC3000 delta B/DC3000 delta AB	1.37357	0.147

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1158	1
Exp 36h	1.08821	1
Exp 60h	1.19892	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06646	1
Var 0h	1.00687	1
Var 12h I row2-row1	1.07527	0.506
Var 12h NI row2-row1	1.03523	1
Var 36h I row2-row1	0.92263	1
Var 36h NI row2-row1	0.9267	0.706
Var 60h I row2-row1	0.83984	0.285
Var 60h NI row2-row1	1.04127	0.904
Time course 0hI-0hNI	1.03647	1
Time course 12hI-12hNI	1.33818	0.008
Time course 36hI-36hNI	1.40819	0.017
Time course 60hI-60hNI	2.9393	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)	1.0642	0.612
transgenic ySAMdc/azygous control (breaker)	0.97199	1
transgenic ySAMdc/azygous control (red)	1.23823	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18039	0.1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81945	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96504	1
Manapal/WT (break)	1.0161	1
Manapal/WT (red)	0.9824	0.863