Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.4.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01464	0.858
27DAP/17DAP	1.75865	0.677
39DAP/27DAP	1.28168	0.497
41DAP/39DAP	0.78462	0.433
42DAP/41DAP	1.04225	1
43DAP/42DAP	1.28639	0.772
47DAP/43DAP	1.19981	0.569
52DAP/47DAP	1.24225	0.575
57DAP/52DAP	1.05532	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91326	0.3
17DAP/reference	1.11533	0.122
27DAP/reference	1.05908	0.487
39DAP/reference	1.21256	0.027
41DAP/reference	1.17927	0.036
42DAP/reference	1.26122	0.004
43DAP/reference	1.24596	0.022
47DAP/reference	1.72431	0.001
52DAP/reference	1.41702	0.217
57DAP/reference	1.13299	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02684	0.961
27DAP/17DAP	1.20797	0.413
39DAP/27DAP	1.38926	0.074
41DAP/39DAP	0.68767	0.027
42DAP/41DAP	1.95625	0.002
43DAP/42DAP	2.85101	0.013
47DAP/43DAP	0.91494	0.476
52DAP/47DAP	1.23685	0.458
57DAP/52DAP	0.94104	0.632
57DAP/7DAP	2.29006	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02735	1
17DAP/reference	1.0297	0.693
27DAP/reference	0.93166	0.348
39DAP/reference	1.1112	0.351
41DAP/reference	1.27309	0.046
42DAP/reference	1.03143	0.828
43DAP/reference	1.21968	0.031
47DAP/reference	1.27452	0.155
52DAP/reference	0.89785	0.106
57DAP/reference	1.27918	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98401	0.77
17DAP/reference	0.97383	0.51
27DAP/reference	0.94221	0.34
39DAP/reference	0.97377	0.404
41DAP/reference	0.91096	0.231
42DAP/reference	0.80869	0.039
43DAP/reference	1.19176	0.122
47DAP/reference	1.1117	0.212
52DAP/reference	0.9597	0.469
57DAP/reference	1.25089	0.119

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11949	0.347
17DAP/reference	1.1009	0.699
27DAP/reference	0.86915
39DAP/reference	1.13736	0.691
41DAP/reference	0.92175	0.371
42DAP/reference	0.87803	0.287
43DAP/reference	0.81732	0.034
47DAP/reference	1.64583	0.008
52DAP/reference	1.20897	0.575
57DAP/reference	1.0601	0.73

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09744	0.966
26DAP/20DAP	1.48398	0.149
34DAP/26DAP	0.96711	0.944
51DAP/34DAP	1.18872	0.143
52DAP/51DAP	0.86361	1
53DAP/52DAP	2.56555	0.038
55DAP/53DAP	1.10429	0.922
57DAP/55DAP	0.91799	0.677
62DAP/57DAP	1.13905
68DAP/62DAP	1.24749
68DAP/14DAP	1.0124	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.91837	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.33615	0.118
Mature Green Tomato/Ripe Tomato	0.26051	0.019
Immature Eggplant/Mature Eggplant	2.97929	0.05
Ripe Pepper/Ripe Tomato	0.18257	0.224
Mature Eggplant/Ripe Tomato	0.59255	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.52298
12-2/M82	N/A	N/A
12-4/M82	1.20083	0.611
1-3/M82	N/A	N/A
2-1-1/M82	0.79582
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	1.02665
4-3-2/M82	0.84416	1
4-3/M82	0.43973
5-3/M82	1.01538	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.01105
7-2/M82	0.89906
9-3-2/M82	1.40384	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.64546
IL2-6/WTpooled	1.03979	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.89366	1
IL12-4/WTpooled	1.09765	0.737
IL1-4/WTpooled	1.03541	1
WT/WTpooled	0.93903	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	1.09504	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90192	1
DC3000/delta hrp 6h	0.74795	0.95
DC3000/delta hrp 12h	1.07044	1
DC3000/delta hrp 24h	1.0786	0.567

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	0.69887

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.39802	0.489
Exp 60h	N/A	N/A

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	0.82255	0.198
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)	1.1927	0.267
transgenic ySAMdc/azygous control (breaker)	0.50976	0.131
transgenic ySAMdc/azygous control (red)	0.75352	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03178	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10757	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.56449	0.172
Manapal/WT (break)	0.90357	1
Manapal/WT (red)	0.96454	0.863