Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.18.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11595	0.67
27DAP/17DAP	1.02671	1
39DAP/27DAP	1.92279	0.759
41DAP/39DAP	0.95792	0.632
42DAP/41DAP	0.85927	1
43DAP/42DAP	2.05341	0.068
47DAP/43DAP	1.0628	0.999
52DAP/47DAP	1.09839	1
57DAP/52DAP	1.02177	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11073	0.441
17DAP/reference	1.05982	0.764
27DAP/reference	1.0711	0.405
39DAP/reference	0.99717	0.957
41DAP/reference	0.89831	0.114
42DAP/reference	1.1511	0.037
43DAP/reference	0.94985	0.448
47DAP/reference	1.10732	0.136
52DAP/reference	1.44471	0.023
57DAP/reference	1.13545	0.321

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78411	0.07
27DAP/17DAP	0.93209	0.821
39DAP/27DAP	0.91303	0.682
41DAP/39DAP	1.12304	0.88
42DAP/41DAP	1.2101	0.487
43DAP/42DAP	1.13242	0.746
47DAP/43DAP	0.82086	0.272
52DAP/47DAP	1.19684	0.689
57DAP/52DAP	1.06142	1
57DAP/7DAP	0.89889

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9086	0.157
17DAP/reference	0.89445	0.017
27DAP/reference	0.79008	0.01
39DAP/reference	0.93696	0.021
41DAP/reference	0.99894	0.811
42DAP/reference	0.89578	0.026
43DAP/reference	0.89765	0.02
47DAP/reference	0.96384	0.504
52DAP/reference	0.93152	0.163
57DAP/reference	0.98336	0.411

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15369	0.091
17DAP/reference	1.22792	0.048
27DAP/reference	1.20522	0.166
39DAP/reference	1.32295	0.073
41DAP/reference	1.34601	0.094
42DAP/reference	0.94561	0.355
43DAP/reference	1.14326	0.598
47DAP/reference	0.9394	0.105
52DAP/reference	1.36018	0.006
57DAP/reference	1.36454	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86736	0.047
17DAP/reference	0.93296	0.292
27DAP/reference	0.89916	0.038
39DAP/reference	0.85255	0.028
41DAP/reference	0.92704	0.132
42DAP/reference	1.04016	0.816
43DAP/reference	1.14659	0.515
47DAP/reference	1.12378	0.11
52DAP/reference	0.78766	0.145
57DAP/reference	1.67308	0.113

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8945	1
26DAP/20DAP	1.3452	0.182
34DAP/26DAP	1.00293	1
51DAP/34DAP	1.06105
52DAP/51DAP	1.12402	0.358
53DAP/52DAP	1.89316	0.343
55DAP/53DAP	1.08368	0.204
57DAP/55DAP	1.00436	0.97
62DAP/57DAP	0.98813	0.994
68DAP/62DAP	1.03645	0.977
68DAP/14DAP	1.0566	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83798	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.22883	0.157
Ripe Pepper/Ripe Tomato	1.16609	1
Mature Eggplant/Ripe Tomato	1.58379	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01535	1
1-1-2/M82	0.97921	1
12-2/M82	0.95265	0.955
12-4/M82	0.99749	1
1-3/M82	0.9013	0.501
2-1-1/M82	1.07942	1
2-1/M82	1.2745	0.335
2-6/M82	1.04031	0.695
3-2/M82	0.92949
4-1-1/M82	0.97872	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.8255	0.72
5-3/M82	0.96072	1
6-2/M82	1.05384	1
6-3/M82	0.99633	1
7-1/M82	N/A	N/A
7-2/M82	1.08395	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99734
IL2-6/WTpooled	1.17143
IL7-5/WTpooled	1.20091
IL7-3/WTpooled	1.10137
IL12-4/WTpooled	1.64176
IL1-4/WTpooled	0.72587
WT/WTpooled	0.98607	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	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	1.036	0.921
DC3000/delta hrp 6h	0.95476	0.95
DC3000/delta hrp 12h	0.99234	1
DC3000/delta hrp 24h	1.07737	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98564	1
Exp 36h	1.38225	1
Exp 60h	1.16766	0.399

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	0.92165	0.933
Var 12h I row2-row1	1.43516
Var 12h NI row2-row1	0.84059	0.906
Var 36h I row2-row1	0.66916
Var 36h NI row2-row1	6.79378	1
Var 60h I row2-row1	0.70698	0.832
Var 60h NI row2-row1	1.00019	1
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	0.74685

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)	0.72992	0.234
transgenic ySAMdc/azygous control (breaker)	1.1733	0.248
transgenic ySAMdc/azygous control (red)	0.94605	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88372	0.061

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12939	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92466	1
Manapal/WT (break)	0.70797	0.255
Manapal/WT (red)	0.60747	0.181