Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.1.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02215	0.977
27DAP/17DAP	1.18631	0.849
39DAP/27DAP	0.99701	0.749
41DAP/39DAP	1.06346	0.859
42DAP/41DAP	0.93093	1
43DAP/42DAP	1.01983	0.937
47DAP/43DAP	1.49348	0.267
52DAP/47DAP	1.6164	0.268
57DAP/52DAP	1.308	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87087	0.121
17DAP/reference	0.78552	0.007
27DAP/reference	0.98454	0.741
39DAP/reference	0.74334	0.015
41DAP/reference	0.73997	0.011
42DAP/reference	0.98771	0.517
43DAP/reference	0.93283	0.302
47DAP/reference	1.02461	1
52DAP/reference	1.30056	0.134
57DAP/reference	1.33388	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14971	0.662
27DAP/17DAP	1.17966	0.842
39DAP/27DAP	1.27862	0.447
41DAP/39DAP	0.85086	0.495
42DAP/41DAP	1.19605	0.263
43DAP/42DAP	0.80576	0.224
47DAP/43DAP	0.90014	0.365
52DAP/47DAP	1.15765	0.669
57DAP/52DAP	1.04224	1
57DAP/7DAP	0.84933	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93044	0.361
17DAP/reference	0.83231	0.025
27DAP/reference	1.07077	0.804
39DAP/reference	0.90037	0.23
41DAP/reference	1.08066	0.28
42DAP/reference	1.44383	0.534
43DAP/reference	1.00802	0.665
47DAP/reference	0.99963	1
52DAP/reference	0.92616	0.232
57DAP/reference	1.0479	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99944	0.669
17DAP/reference	0.75512	0.035
27DAP/reference	0.8485	0.05
39DAP/reference	0.96071	0.442
41DAP/reference	1.02353	1
42DAP/reference	0.9814	0.534
43DAP/reference	1.04011	0.846
47DAP/reference	0.79757	0.025
52DAP/reference	0.9163	0.187
57DAP/reference	0.7478	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16146	0.258
17DAP/reference	0.90828	0.358
27DAP/reference	1.03464	0.967
39DAP/reference	0.8725	0.033
41DAP/reference	0.91765	0.331
42DAP/reference	0.99235	0.816
43DAP/reference	1.16056	0.223
47DAP/reference	1.01055	1
52DAP/reference	0.74305	0.118
57DAP/reference	1.15381	0.682

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10987	0.966
26DAP/20DAP	0.99044	1
34DAP/26DAP	0.65182
51DAP/34DAP	3.12411	0.637
52DAP/51DAP	1.28288	0.708
53DAP/52DAP	0.7043	0.049
55DAP/53DAP	1.25257	0.733
57DAP/55DAP	0.69731	0.07
62DAP/57DAP	1.31431	0.257
68DAP/62DAP	1.77821	0.126
68DAP/14DAP	2.61565	0.018

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81949	0.166

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.19646	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.8024	0.224
Mature Eggplant/Ripe Tomato	1.09729	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02565	1
1-1-2/M82	1.03898	1
12-2/M82	0.95307	0.955
12-4/M82	0.95664	1
1-3/M82	0.90805	0.501
2-1-1/M82	1.00552	1
2-1/M82	0.86204	0.74
2-6/M82	1.06495	0.452
3-2/M82	1.0096
4-1-1/M82	0.92106	1
4-1/M82	1.13579
4-3-2/M82	1.20584
4-3/M82	1.24866	1
5-3/M82	0.97452	1
6-2/M82	0.91748	1
6-3/M82	0.96326	1
7-1/M82	1.06559	0.925
7-2/M82	1.10291	0.324
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.62352
IL12-4/WTpooled	0.84895	1
IL1-4/WTpooled	1.32443	1
WT/WTpooled	1.06279

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	1.07951	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0144	1
DC3000/delta hrp 6h	0.94554	0.95
DC3000/delta hrp 12h	0.93542	1
DC3000/delta hrp 24h	0.92813	0.543

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92909	1
DC3000 delta B/DC3000 delta AB	1.0105	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86655	0.328
Exp 36h	1.08582	1
Exp 60h	0.80477	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00831	1
Var 0h	0.4358	0.332
Var 12h I row2-row1	0.81815	0.344
Var 12h NI row2-row1	1.07536	1
Var 36h I row2-row1	0.8661	1
Var 36h NI row2-row1	0.89518	0.482
Var 60h I row2-row1	1.02854	0.543
Var 60h NI row2-row1	0.9896	1
Time course 0hI-0hNI	1.01063	1
Time course 12hI-12hNI	0.87708	0.163
Time course 36hI-36hNI	0.7933	0.028
Time course 60hI-60hNI	0.32605	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)	1.05947	0.228
transgenic ySAMdc/azygous control (breaker)	1.03783	1
transgenic ySAMdc/azygous control (red)	1.00471	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.986	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94549	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.56104	0.105
Manapal/WT (break)	1.30851	0.381
Manapal/WT (red)	1.96895	0.164