Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.2.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09913	1
27DAP/17DAP	0.90634	0.831
39DAP/27DAP	1.0318	0.798
41DAP/39DAP	0.90776	0.697
42DAP/41DAP	1.05009	1
43DAP/42DAP	1.16969	1
47DAP/43DAP	0.83659	0.492
52DAP/47DAP	1.06491	0.991
57DAP/52DAP	1.2028	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79835	0.066
17DAP/reference	0.83885	0.018
27DAP/reference	0.99418	0.797
39DAP/reference	0.90152	0.141
41DAP/reference	0.69078	0.01
42DAP/reference	0.90329	0.052
43DAP/reference	0.86865	0.118
47DAP/reference	0.97062	0.392
52DAP/reference	1.05195	0.73
57DAP/reference	1.29409	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03552	1
27DAP/17DAP	1.0532	0.969
39DAP/27DAP	1.00636	1
41DAP/39DAP	1.06121	1
42DAP/41DAP	1.09033	1
43DAP/42DAP	1.25139	0.162
47DAP/43DAP	1.07881	0.951
52DAP/47DAP	1.12433	0.563
57DAP/52DAP	0.79641	0.311
57DAP/7DAP	0.95096	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92692	0.361
17DAP/reference	0.65892	0.011
27DAP/reference	0.84035	0.135
39DAP/reference	0.87393	0.17
41DAP/reference	0.91389	0.271
42DAP/reference	0.75	0.095
43DAP/reference	1.08726	0.746
47DAP/reference	0.93535	0.671
52DAP/reference	0.97234	0.523
57DAP/reference	0.98045	0.61

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72173	0.012
17DAP/reference	0.74076	0.012
27DAP/reference	0.81106	0.062
39DAP/reference	0.87845	0.129
41DAP/reference	1.0761	0.831
42DAP/reference	0.96477	0.392
43DAP/reference	0.73152	0.031
47DAP/reference	0.88694	0.133
52DAP/reference	0.92661	0.187
57DAP/reference	0.7139	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29074	0.481
17DAP/reference	0.89861	0.364
27DAP/reference	0.84894	0.184
39DAP/reference	1.07348	0.406
41DAP/reference	0.89613	0.167
42DAP/reference	1.02379	0.961
43DAP/reference	1.01433	0.796
47DAP/reference	0.96572	0.421
52DAP/reference	0.90763	0.482
57DAP/reference	1.39096	0.075

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84629	0.997
26DAP/20DAP	1.33331	0.399
34DAP/26DAP	1.1184	0.819
51DAP/34DAP	0.80974	0.323
52DAP/51DAP	1.06	1
53DAP/52DAP	1.28629	0.662
55DAP/53DAP	1.33628	0.938
57DAP/55DAP	0.84283	0.479
62DAP/57DAP	1.15529	0.868
68DAP/62DAP	1.59711	0.077
68DAP/14DAP	2.56295	0.346

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05286	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95359
Mature Green Tomato/Ripe Tomato	1.37446	0.209
Immature Eggplant/Mature Eggplant	0.80946	0.197
Ripe Pepper/Ripe Tomato	4.16474
Mature Eggplant/Ripe Tomato	1.89244	0.268

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	0.75016
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	0.88187	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.74471
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	1.09361	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.85125	0.418
IL12-4/WTpooled	0.95004	0.71
IL1-4/WTpooled	1.61481
WT/WTpooled	1.01863	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	1.33721

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01286	1
DC3000/delta hrp 6h	0.85329	0.95
DC3000/delta hrp 12h	0.97808	1
DC3000/delta hrp 24h	1.13074	0.322

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	1.15424

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89259	1
Exp 36h	0.77014	0.449
Exp 60h	0.88535	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.88768	1
Var 0h	1.14275	0.98
Var 12h I row2-row1	0.68544	0.31
Var 12h NI row2-row1	0.93484
Var 36h I row2-row1	0.9561	1
Var 36h NI row2-row1	0.85675	0.341
Var 60h I row2-row1	0.86949	0.952
Var 60h NI row2-row1	1.1508	1
Time course 0hI-0hNI	1.0978	0.852
Time course 12hI-12hNI	0.97581	0.87
Time course 36hI-36hNI	0.97157	0.533
Time course 60hI-60hNI	1.02658	1

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)	1.12309	0.326
transgenic ySAMdc/azygous control (breaker)	1.24902	1
transgenic ySAMdc/azygous control (red)	0.93107	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03187	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.31398	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27639	0.087
Manapal/WT (break)	2.24299	0.123
Manapal/WT (red)	1.95658	0.164