Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88836	0.475
27DAP/17DAP	0.68537	0.087
39DAP/27DAP	1.20553	0.593
41DAP/39DAP	0.78594	0.32
42DAP/41DAP	0.67036	0.774
43DAP/42DAP	0.79076	0.613
47DAP/43DAP	0.99346	0.913
52DAP/47DAP	0.94436	0.761
57DAP/52DAP	0.63976	0.518

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91017	0.284
17DAP/reference	0.70225	0.008
27DAP/reference	0.94566	0.525
39DAP/reference	0.78734	0.021
41DAP/reference	0.74457	0.009
42DAP/reference	0.961	0.268
43DAP/reference	0.89735	0.063
47DAP/reference	0.92046	0.161
52DAP/reference	1.2241	0.134
57DAP/reference	1.3408	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68199	0.047
27DAP/17DAP	1.16846	0.681
39DAP/27DAP	0.7622	0.201
41DAP/39DAP	1.83453	0.028
42DAP/41DAP	0.65369	0.019
43DAP/42DAP	0.72155	0.065
47DAP/43DAP	1.10595	0.934
52DAP/47DAP	0.90155	0.677
57DAP/52DAP	1.49959	0.162
57DAP/7DAP	0.75904	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95712	0.361
17DAP/reference	0.82203	0.056
27DAP/reference	0.86517	0.076
39DAP/reference	0.7509	0.017
41DAP/reference	0.79927	0.028
42DAP/reference	0.70581	0.018
43DAP/reference	0.73805	0.013
47DAP/reference	0.90174	0.293
52DAP/reference	0.70966	0.012
57DAP/reference	0.77749	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95187	0.548
17DAP/reference	0.79024	0.005
27DAP/reference	1.09227	0.648
39DAP/reference	1.08882	0.602
41DAP/reference	1.02309	1
42DAP/reference	1.06372	0.969
43DAP/reference	0.90895	0.314
47DAP/reference	0.81948	0.079
52DAP/reference	1.01237	1
57DAP/reference	0.79769	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95095	0.455
17DAP/reference	0.92005	0.313
27DAP/reference	0.8438	0.126
39DAP/reference	0.78495	0.012
41DAP/reference	0.74529	0.077
42DAP/reference	0.90368	0.361
43DAP/reference	0.98401	0.545
47DAP/reference	0.95267	0.371
52DAP/reference	0.70278	0.098
57DAP/reference	1.33572	0.262

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08997	0.966
26DAP/20DAP	1.71573	0.13
34DAP/26DAP	0.63721	0.412
51DAP/34DAP	0.75833	0.098
52DAP/51DAP	1.11438	0.606
53DAP/52DAP	1.29596	0.935
55DAP/53DAP	1.28447	0.689
57DAP/55DAP	0.61397	0.037
62DAP/57DAP	1.01312	1
68DAP/62DAP	1.68115	0.017
68DAP/14DAP	1.62388	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87112	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.74344	0.095
Immature Eggplant/Mature Eggplant	4.69696	0.11
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.51892	0.26

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	0.84031
2-1-1/M82	0.86581
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	1.21676	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	1.0018
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	1.10292
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.96138
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.72104

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	1.45033	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00829	1
DC3000/delta hrp 6h	0.92654	0.95
DC3000/delta hrp 12h	1.35397	1
DC3000/delta hrp 24h	1.06735	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.63006
DC3000 delta B/DC3000 delta AB	1.06946	0.614

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01664	1
Exp 36h	1.26376	0.693
Exp 60h	1.122	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04739	1
Var 0h	0.9821	1
Var 12h I row2-row1	1.04607	0.692
Var 12h NI row2-row1	1.23121	0.281
Var 36h I row2-row1	1.04624	1
Var 36h NI row2-row1	0.86658	0.645
Var 60h I row2-row1	1.1097
Var 60h NI row2-row1	0.99473	1
Time course 0hI-0hNI	1.06572	0.719
Time course 12hI-12hNI	1.07498	0.824
Time course 36hI-36hNI	1.22614	0.128
Time course 60hI-60hNI	1.38653	0.019

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)	1.25625	0.331
transgenic ySAMdc/azygous control (breaker)	1.09758	0.248
transgenic ySAMdc/azygous control (red)	1.22593	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88113	0.305

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.54388	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04205	1
Manapal/WT (break)	1.39379	0.183
Manapal/WT (red)	1.38576	0.413