Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.10.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8949	0.558
27DAP/17DAP	1.26782	0.804
39DAP/27DAP	1.17458	0.663
41DAP/39DAP	1.21945	0.459
42DAP/41DAP	1.06821	0.937
43DAP/42DAP	1.04849	1
47DAP/43DAP	1.04341	1
52DAP/47DAP	1.29785	0.514
57DAP/52DAP	1.57783	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86065	0.188
17DAP/reference	1.16368	0.025
27DAP/reference	1.00275	0.885
39DAP/reference	1.09976	0.27
41DAP/reference	0.99037	0.814
42DAP/reference	0.79805	0.015
43DAP/reference	1.02596	0.982
47DAP/reference	1.02357	1
52DAP/reference	0.76247	0.057
57DAP/reference	0.84227	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88415	0.311
27DAP/17DAP	1.02614	0.968
39DAP/27DAP	1.09962	0.636
41DAP/39DAP	0.96731	0.945
42DAP/41DAP	1.16067	0.257
43DAP/42DAP	0.87525	0.132
47DAP/43DAP	1.04362	0.92
52DAP/47DAP	1.77473	0.05
57DAP/52DAP	2.17514	0.033
57DAP/7DAP	1.43369	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97464	0.361
17DAP/reference	1.07849	0.328
27DAP/reference	1.20763	0.131
39DAP/reference	0.69845	0.017
41DAP/reference	0.72841	0.046
42DAP/reference	0.72603	0.02
43DAP/reference	1.03483	1
47DAP/reference	1.0302	1
52DAP/reference	1.04294	1
57DAP/reference	1.05313	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0549	0.885
17DAP/reference	0.92444	0.357
27DAP/reference	0.81488	0.056
39DAP/reference	0.93925	0.359
41DAP/reference	0.87516	0.112
42DAP/reference	0.80565	0.021
43DAP/reference	0.88643	0.186
47DAP/reference	0.93506	0.201
52DAP/reference	0.76934	0.034
57DAP/reference	0.95913	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85466	0.074
17DAP/reference	1.02206	0.956
27DAP/reference	1.04561	0.644
39DAP/reference	0.97363	0.504
41DAP/reference	0.98681	0.682
42DAP/reference	0.90439	0.445
43DAP/reference	0.75893	0.106
47DAP/reference	0.95926	0.452
52DAP/reference	1.39247	0.517
57DAP/reference	0.96028	0.483

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9825	1
26DAP/20DAP	2.70655	0.256
34DAP/26DAP	1.74428	1
51DAP/34DAP	0.86673	0.537
52DAP/51DAP	1.84473	0.07
53DAP/52DAP	1.01716	1
55DAP/53DAP	1.25673	0.046
57DAP/55DAP	0.59473	0.046
62DAP/57DAP	1.10872	0.935
68DAP/62DAP	1.93845	0.813
68DAP/14DAP	1.08635

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.28502	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.37151	0.02
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.54278
Mature Eggplant/Ripe Tomato	0.91542

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07373
1-1-2/M82	0.89081	1
12-2/M82	0.42832
12-4/M82	0.99746	1
1-3/M82	1.22717	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.75094
3-2/M82	1.13229
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.11068	1
4-3/M82	1.22458	1
5-3/M82	0.92331	0.642
6-2/M82	0.89085
6-3/M82	0.89922
7-1/M82	0.91961	1
7-2/M82	0.86852	0.881
9-3-2/M82	1.13434

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.23809	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.06054	1
IL12-4/WTpooled	1.00364	1
IL1-4/WTpooled	0.92102
WT/WTpooled	1.04082	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	1.02748	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00315	1
DC3000/delta hrp 6h	1.02014	0.95
DC3000/delta hrp 12h	1.05544	1
DC3000/delta hrp 24h	0.97801	0.897

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.195	0.042
DC3000 delta B/DC3000 delta AB	1.29644	0.232

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01434	1
Var 0h	1.11637	1
Var 12h I row2-row1	0.89997	0.705
Var 12h NI row2-row1	0.68429	0.627
Var 36h I row2-row1	1.32072	0.601
Var 36h NI row2-row1	1.36616	1
Var 60h I row2-row1	0.7923	0.306
Var 60h NI row2-row1	1.19223	0.904
Time course 0hI-0hNI	1.06032	0.852
Time course 12hI-12hNI	1.00619	1
Time course 36hI-36hNI	0.98867	0.665
Time course 60hI-60hNI	0.94516	0.646

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)	0.90634	0.246
transgenic ySAMdc/azygous control (breaker)	0.77687	0.125
transgenic ySAMdc/azygous control (red)	0.99023	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95142	0.053

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97681	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.952	1
Manapal/WT (break)	1.0343	1
Manapal/WT (red)	0.98318	0.863