Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.8.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.47933	0.033
27DAP/17DAP	1.27821	0.833
39DAP/27DAP	0.9039	0.594
41DAP/39DAP	1.06883	0.949
42DAP/41DAP	1.51415	0.614
43DAP/42DAP	0.95218	0.864
47DAP/43DAP	1.14198	0.391
52DAP/47DAP	0.90525	0.712
57DAP/52DAP	0.70819	0.6

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79945	0.039
17DAP/reference	0.95872	0.536
27DAP/reference	1.19889	0.143
39DAP/reference	1.0685	0.286
41DAP/reference	0.99611	1
42DAP/reference	1.11001	0.015
43DAP/reference	1.04774	0.982
47DAP/reference	1.13156	0.011
52DAP/reference	0.87542	0.152
57DAP/reference	1.08783	0.344

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.78604	0.036
27DAP/17DAP	0.85691	0.144
39DAP/27DAP	1.57392	0.062
41DAP/39DAP	0.64102	0.013
42DAP/41DAP	1.17034	0.038
43DAP/42DAP	1.47816	0.015
47DAP/43DAP	0.90765	0.188
52DAP/47DAP	1.06449	0.776
57DAP/52DAP	0.8628	0.29
57DAP/7DAP	1.58408	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78015	0.08
17DAP/reference	0.80845	0.012
27DAP/reference	0.80601	0.012
39DAP/reference	0.86697	0.011
41DAP/reference	0.76745	0.016
42DAP/reference	0.89451	0.189
43DAP/reference	0.76929	0.021
47DAP/reference	1.2482	0.386
52DAP/reference	0.70438	0.035
57DAP/reference	0.83398	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86449	0.043
17DAP/reference	0.90274	0.099
27DAP/reference	0.92732	0.229
39DAP/reference	0.85157	0.165
41DAP/reference	1.02529	1
42DAP/reference	1.15876	0.207
43DAP/reference	1.1835	0.137
47DAP/reference	1.14927	0.232
52DAP/reference	0.8107	0.007
57DAP/reference	0.88896	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71179	0.038
17DAP/reference	0.94163	0.477
27DAP/reference	0.73728	0.049
39DAP/reference	0.80358	0.026
41DAP/reference	0.86093	0.096
42DAP/reference	0.99872	1
43DAP/reference	0.90502	0.158
47DAP/reference	1.37985	0.022
52DAP/reference	0.79984	0.158
57DAP/reference	0.89343	0.208

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03579	0.966
26DAP/20DAP	0.82484	0.512
34DAP/26DAP	1.45526	0.304
51DAP/34DAP	0.94634	0.727
52DAP/51DAP	1.19742	0.246
53DAP/52DAP	1.02007	0.935
55DAP/53DAP	1.06182	0.79
57DAP/55DAP	1.21097	0.626
62DAP/57DAP	1.40628	0.515
68DAP/62DAP	0.88887	0.641
68DAP/14DAP	1.38334	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.38069	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71611	0.196
Mature Green Tomato/Ripe Tomato	0.94511
Immature Eggplant/Mature Eggplant	1.87074	0.05
Ripe Pepper/Ripe Tomato	0.36448	0.224
Mature Eggplant/Ripe Tomato	0.19913	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08654	0.877
1-1-2/M82	1.28927	1
12-2/M82	1.11198	1
12-4/M82	1.17756	1
1-3/M82	1.24282	0.479
2-1-1/M82	1.01738	1
2-1/M82	0.66912	0.345
2-6/M82	1.06233	0.695
3-2/M82	1.08301	0.967
4-1-1/M82	1.01669	1
4-1/M82	1.29515	0.853
4-3-2/M82	1.22429	0.508
4-3/M82	1.17013	1
5-3/M82	0.87323	1
6-2/M82	1.04472	1
6-3/M82	1.02102	1
7-1/M82	0.9873	1
7-2/M82	1.05688	1
9-3-2/M82	1.52405	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04528	1
IL2-6/WTpooled	1.07532	0.788
IL7-5/WTpooled	0.44637
IL7-3/WTpooled	1.10838	1
IL12-4/WTpooled	0.75412	0.566
IL1-4/WTpooled	1.03473	1
WT/WTpooled	0.76381	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	1.24521	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00286	1
DC3000/delta hrp 6h	1.12125	1
DC3000/delta hrp 12h	0.9298	1
DC3000/delta hrp 24h	1.00114	0.978

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	0.87984	0.543

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26866	1
Exp 36h	0.98947	1
Exp 60h	1.08187	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01479	1
Var 0h	1.05868	0.98
Var 12h I row2-row1	1.20652	0.254
Var 12h NI row2-row1	0.85167	0.488
Var 36h I row2-row1	0.93184	0.805
Var 36h NI row2-row1	0.96854	0.852
Var 60h I row2-row1	1.44883	0.562
Var 60h NI row2-row1	1.11752	0.904
Time course 0hI-0hNI	1.07512	0.603
Time course 12hI-12hNI	0.92797	0.108
Time course 36hI-36hNI	0.96151	0.45
Time course 60hI-60hNI	0.66632	0.047

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)	0.76678	0.297
transgenic ySAMdc/azygous control (breaker)	1.9675	0.248
transgenic ySAMdc/azygous control (red)	1.01907	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12468	0.061

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.2967	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.4386	0.093
Manapal/WT (break)	1.27926	0.381
Manapal/WT (red)	0.8276	0.274