Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98464	0.699
27DAP/17DAP	1.06543	0.881
39DAP/27DAP	1.44099	0.154
41DAP/39DAP	1.49162	0.392
42DAP/41DAP	0.86903	0.774
43DAP/42DAP	1.12049	0.929
47DAP/43DAP	1.35902	0.349
52DAP/47DAP	1.23868	0.724
57DAP/52DAP	0.96332	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13918	0.162
17DAP/reference	0.95839	0.393
27DAP/reference	0.95271	0.567
39DAP/reference	1.12696	0.453
41DAP/reference	1.46778	0.221
42DAP/reference	0.87952	0.078
43DAP/reference	0.53552	0.394
47DAP/reference	0.97947	0.535
52DAP/reference	0.77477	0.018
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88314	0.578
27DAP/17DAP	1.55152	0.042
39DAP/27DAP	0.80146	0.156
41DAP/39DAP	0.59198
42DAP/41DAP	1.34723	0.872
43DAP/42DAP	2.11777	0.746
47DAP/43DAP	0.79063	0.516
52DAP/47DAP	0.78699	0.512
57DAP/52DAP	1.45254	0.846
57DAP/7DAP	0.48617

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90717	0.183
17DAP/reference	0.74295	0.012
27DAP/reference	0.78368	0.01
39DAP/reference	0.80098	0.027
41DAP/reference	0.80237	0.056
42DAP/reference	0.71539	0.015
43DAP/reference	0.74588	0.015
47DAP/reference	0.83254	0.222
52DAP/reference	0.87466	0.021
57DAP/reference	0.89478	0.101

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01396	0.884
17DAP/reference	0.94769	0.51
27DAP/reference	0.64593	0.195
39DAP/reference	0.90586	0.322
41DAP/reference	0.80403
42DAP/reference	0.84882	0.321
43DAP/reference	0.97222	0.581
47DAP/reference	N/A	N/A
52DAP/reference	0.90671	0.086
57DAP/reference	1.1685	0.193

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89765	0.197
17DAP/reference	0.88799	0.328
27DAP/reference	0.82762	0.032
39DAP/reference	0.79074	0.009
41DAP/reference	0.87669	0.148
42DAP/reference	0.88643	0.22
43DAP/reference	0.87452	0.165
47DAP/reference	0.9313	0.335
52DAP/reference	0.81073	0.163
57DAP/reference	0.84372	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1727	0.966
26DAP/20DAP	0.67464	1
34DAP/26DAP	1.46348
51DAP/34DAP	1.37239
52DAP/51DAP	1.02617
53DAP/52DAP	1.15961	0.944
55DAP/53DAP	0.68326	0.181
57DAP/55DAP	1.31032	0.424
62DAP/57DAP	1.06399	0.8
68DAP/62DAP	0.93722	0.609
68DAP/14DAP	0.64523	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.51597

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	0.588
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	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	1.14525	0.277
IL2-6/WTpooled	1.16526	1
IL7-5/WTpooled	0.6914	1
IL7-3/WTpooled	1.43143	1
IL12-4/WTpooled	1.05454	0.695
IL1-4/WTpooled	0.95233	0.834
WT/WTpooled	1.01336	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.91124	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.72688	1
DC3000/delta hrp 24h	10.7281	0.016

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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	1.12017	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.95182	0.212
transgenic ySAMdc/azygous control (breaker)	1.61037	1
transgenic ySAMdc/azygous control (red)	1.32389	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87231	0.087

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97061	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1125	0.307
Manapal/WT (break)	0.9332	1
Manapal/WT (red)	N/A	N/A