Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.13.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.62808	0.452
27DAP/17DAP	2.01512	0.148
39DAP/27DAP	1.72241	0.159
41DAP/39DAP	0.89364	0.561
42DAP/41DAP	0.63274	0.262
43DAP/42DAP	0.86499	0.788
47DAP/43DAP	0.79892	0.395
52DAP/47DAP	1.12926	0.993
57DAP/52DAP	1.09947	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90871	0.118
17DAP/reference	0.94132	0.194
27DAP/reference	0.96349	0.444
39DAP/reference	0.88769	0.054
41DAP/reference	0.93219	0.031
42DAP/reference	0.93399	0.095
43DAP/reference	0.98454	0.691
47DAP/reference	0.90257	0.06
52DAP/reference	0.87869	0.086
57DAP/reference	0.94681	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95355	0.697
27DAP/17DAP	2.25347	0.023
39DAP/27DAP	1.46939	0.062
41DAP/39DAP	0.5876	0.034
42DAP/41DAP	1.71735	0.008
43DAP/42DAP	0.76155	0.023
47DAP/43DAP	0.82746	0.072
52DAP/47DAP	0.99528	0.941
57DAP/52DAP	0.79895	0.121
57DAP/7DAP	1.04616	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93606	0.326
17DAP/reference	1.06987	1
27DAP/reference	1.13253	0.301
39DAP/reference	0.93839	0.354
41DAP/reference	1.22356	0.131
42DAP/reference	1.6841	0.009
43DAP/reference	0.96059	0.421
47DAP/reference	1.35574	0.155
52DAP/reference	0.74549	0.024
57DAP/reference	0.74586	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97578	0.72
17DAP/reference	0.90073	0.124
27DAP/reference	1.06339	0.373
39DAP/reference	0.99524	0.621
41DAP/reference	0.98736	0.557
42DAP/reference	0.80285	0.035
43DAP/reference	0.91021	0.144
47DAP/reference	0.8964	0.075
52DAP/reference	0.90506	0.203
57DAP/reference	1.14472	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84463	0.052
17DAP/reference	0.85694	0.13
27DAP/reference	1.04182	0.575
39DAP/reference	1.24626	0.017
41DAP/reference	1.039	1
42DAP/reference	0.83148	0.032
43DAP/reference	0.80478	0.037
47DAP/reference	0.85661	0.072
52DAP/reference	0.72571	0.174
57DAP/reference	0.84243	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.71451	0.89
26DAP/20DAP	1.59796	0.177
34DAP/26DAP	0.62246	0.099
51DAP/34DAP	1.63678	0.159
52DAP/51DAP	0.89671	1
53DAP/52DAP	3.96606	0.027
55DAP/53DAP	0.50428	0.02
57DAP/55DAP	0.63565	0.103
62DAP/57DAP	1.14635	0.868
68DAP/62DAP	0.87917	0.579
68DAP/14DAP	0.97516	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.6129	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.90348	0.015
Immature Eggplant/Mature Eggplant	6.26121	0.049
Ripe Pepper/Ripe Tomato	0.46492	1
Mature Eggplant/Ripe Tomato	4.34999	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07718
1-1-2/M82	0.97172	1
12-2/M82	N/A	N/A
12-4/M82	0.95009	1
1-3/M82	0.92015
2-1-1/M82	0.90046
2-1/M82	N/A	N/A
2-6/M82	0.86629
3-2/M82	N/A	N/A
4-1-1/M82	1.17384
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.52678
5-3/M82	0.97438	1
6-2/M82	N/A	N/A
6-3/M82	0.97212	1
7-1/M82	N/A	N/A
7-2/M82	1.15396
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14742	0.277
IL2-6/WTpooled	0.85335	1
IL7-5/WTpooled	0.97581
IL7-3/WTpooled	1.06973	1
IL12-4/WTpooled	1.0691	1
IL1-4/WTpooled	1.04779	0.426
WT/WTpooled	0.94912	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	0.6161	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96272	1
DC3000/delta hrp 6h	1.02216	1
DC3000/delta hrp 12h	1.03145	1
DC3000/delta hrp 24h	0.65541	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97961	1
DC3000 delta B/DC3000 delta AB	1.46923	0.173

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16153	1
Exp 36h	0.84386	0.449
Exp 60h	1.09155	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98028	1
Var 0h	0.91247	0.204
Var 12h I row2-row1	0.96025	0.948
Var 12h NI row2-row1	1.10763	0.34
Var 36h I row2-row1	1.26878	0.908
Var 36h NI row2-row1	2.00093	0.482
Var 60h I row2-row1	0.69298	0.292
Var 60h NI row2-row1	1.13711	1
Time course 0hI-0hNI	1.09759	0.799
Time course 12hI-12hNI	0.76897	0.033
Time course 36hI-36hNI	0.79134	0.106
Time course 60hI-60hNI	1.39017	0.033

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)	0.89652	0.454
transgenic ySAMdc/azygous control (breaker)	0.73737	0.125
transgenic ySAMdc/azygous control (red)	0.75573	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10396	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86821	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.42168	0.172
Manapal/WT (break)	1.01066	1
Manapal/WT (red)	0.83375	0.315