Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.12.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09182	0.755
27DAP/17DAP	0.99662	1
39DAP/27DAP	1.25193	0.354
41DAP/39DAP	0.95412	0.771
42DAP/41DAP	1.45437	0.276
43DAP/42DAP	0.99612	0.937
47DAP/43DAP	1.20774	0.355
52DAP/47DAP	0.82008	0.53
57DAP/52DAP	1.12306	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25375	0.016
17DAP/reference	1.2311	0.016
27DAP/reference	1.06561	0.487
39DAP/reference	1.11129	0.047
41DAP/reference	1.33328	0.015
42DAP/reference	1.19987	0.005
43DAP/reference	1.13874	0.382
47DAP/reference	1.11204	0.034
52DAP/reference	1.07846	0.242
57DAP/reference	0.85217	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.97952
27DAP/17DAP	0.51992
39DAP/27DAP	1.08419	0.718
41DAP/39DAP	1.07887
42DAP/41DAP	1.06295	0.825
43DAP/42DAP	1.76094
47DAP/43DAP	0.26913
52DAP/47DAP	1.41958	0.93
57DAP/52DAP	1.32229
57DAP/7DAP	1.20889	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.61629	0.025
17DAP/reference	1.95098	0.006
27DAP/reference	1.57148	0.007
39DAP/reference	1.42951	0.007
41DAP/reference	1.61943	0.015
42DAP/reference	1.56136	0.009
43DAP/reference	1.6381	0.009
47DAP/reference	1.45829	0.136
52DAP/reference	1.88219	0.011
57DAP/reference	1.70528	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4062	0.038
17DAP/reference	1.54828	0.007
27DAP/reference	1.41193	0.022
39DAP/reference	1.32253	0.034
41DAP/reference	1.39518	0.012
42DAP/reference	1.1706	0.102
43DAP/reference	1.27985	0.222
47DAP/reference	1.23163	0.025
52DAP/reference	1.27918	0.013
57DAP/reference	1.66546	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.5914	0.015
17DAP/reference	1.51561	0.136
27DAP/reference	1.65219	0.014
39DAP/reference	1.93192	0.006
41DAP/reference	1.342	0.011
42DAP/reference	1.3757	0.033
43DAP/reference	1.39685	0.01
47DAP/reference	1.18992	0.06
52DAP/reference	1.56291	0.077
57DAP/reference	0.82937	0.134

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1671	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.68865	1
51DAP/34DAP	1.87579
52DAP/51DAP	0.91516	1
53DAP/52DAP	1.29075	0.91
55DAP/53DAP	0.44617
57DAP/55DAP	0.92165	0.783
62DAP/57DAP	1.00767	0.994
68DAP/62DAP	0.51825	0.118
68DAP/14DAP	0.6134	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10546	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.50561	0.019
Immature Eggplant/Mature Eggplant	1.10214	0.123
Ripe Pepper/Ripe Tomato	0.41515
Mature Eggplant/Ripe Tomato	3.65922	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84344	0.605
1-1-2/M82	1.14783	1
12-2/M82	1.13667	0.61
12-4/M82	1.16981	1
1-3/M82	0.86635	0.441
2-1-1/M82	N/A	N/A
2-1/M82	1.41004
2-6/M82	1.09981	0.594
3-2/M82	0.95431
4-1-1/M82	1.06154	1
4-1/M82	1.02645
4-3-2/M82	1.10423	1
4-3/M82	0.80529	1
5-3/M82	1.05035	1
6-2/M82	0.7164
6-3/M82	1.1494	1
7-1/M82	1.02999	1
7-2/M82	0.97578	1
9-3-2/M82	1.06529	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29649	0.365
IL2-6/WTpooled	1.08281	1
IL7-5/WTpooled	0.80078	1
IL7-3/WTpooled	1.23074	1
IL12-4/WTpooled	0.77903	0.566
IL1-4/WTpooled	1.08323	1
WT/WTpooled	0.7435	0.67

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06271	0.774
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.22674	1
DC3000/delta hrp 24h	1.26949	0.283

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04838	1
Exp 36h	0.75933	0.623
Exp 60h	0.86539	0.664

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	0.91953	0.933
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)	1.06629	0.798
transgenic ySAMdc/azygous control (breaker)	0.6368	0.137
transgenic ySAMdc/azygous control (red)	0.82592	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9647	0.383

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66571	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83275	1
Manapal/WT (break)	0.56544	0.333
Manapal/WT (red)	0.82951	0.188