Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.11.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03161	1
27DAP/17DAP	1.10586	0.857
39DAP/27DAP	0.79281	0.397
41DAP/39DAP	1.0713	0.772
42DAP/41DAP	1.38906	0.702
43DAP/42DAP	0.93532	0.877
47DAP/43DAP	1.03418	0.999
52DAP/47DAP	1.1404	0.991
57DAP/52DAP	1.0715	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9996	0.661
17DAP/reference	1.10174	0.148
27DAP/reference	0.99254	0.797
39DAP/reference	1.1579	0.162
41DAP/reference	1.03634	0.587
42DAP/reference	0.88724	0.037
43DAP/reference	0.93897	0.448
47DAP/reference	0.9668	0.366
52DAP/reference	0.9452	0.35
57DAP/reference	0.88239	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03719	0.826
27DAP/17DAP	1.0292	1
39DAP/27DAP	1.08167	0.751
41DAP/39DAP	1.08846	0.887
42DAP/41DAP	1.02681	0.841
43DAP/42DAP	0.79659	0.157
47DAP/43DAP	0.82706	0.387
52DAP/47DAP	1.06451	0.892
57DAP/52DAP	1.24524	0.906
57DAP/7DAP	1.71192	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94951	0.445
17DAP/reference	1.25965	0.092
27DAP/reference	1.29075	0.015
39DAP/reference	1.13885	0.267
41DAP/reference	1.02229	1
42DAP/reference	1.00051	0.713
43DAP/reference	1.31381	0.124
47DAP/reference	0.89806	0.383
52DAP/reference	1.06427	0.941
57DAP/reference	1.11445	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43456	0.067
17DAP/reference	1.23738	0.406
27DAP/reference	0.85136	0.188
39DAP/reference	0.8282	0.122
41DAP/reference	0.81854	0.051
42DAP/reference	0.9248	0.321
43DAP/reference	1.31964	0.259
47DAP/reference	0.96974	0.434
52DAP/reference	0.88195	0.156
57DAP/reference	1.03608	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02744	0.709
17DAP/reference	1.34928	0.146
27DAP/reference	1.95679	0.029
39DAP/reference	1.65636	0.016
41DAP/reference	1.28242	0.032
42DAP/reference	1.15101	0.099
43DAP/reference	0.94107	0.348
47DAP/reference	1.14529	0.073
52DAP/reference	1.42713	0.306
57DAP/reference	1.07067	0.801

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10367	0.966
26DAP/20DAP	0.64208	1
34DAP/26DAP	1.38132	0.542
51DAP/34DAP	1.05478	0.785
52DAP/51DAP	0.91212	0.151
53DAP/52DAP	1.12568	0.99
55DAP/53DAP	1.12328	1
57DAP/55DAP	2.13588
62DAP/57DAP	1.40734	0.994
68DAP/62DAP	1.16525	0.945
68DAP/14DAP	0.97416	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94824	0.576

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	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12971	1
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.29656
1-3/M82	0.61228
2-1-1/M82	0.87347
2-1/M82	N/A	N/A
2-6/M82	1.02162
3-2/M82	0.94634	0.752
4-1-1/M82	0.5959
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	0.93552	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.95659
7-2/M82	N/A	N/A
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	0.92539	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.04736	1
IL12-4/WTpooled	0.98952	1
IL1-4/WTpooled	0.96789	0.402
WT/WTpooled	1.11345	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	1.12147	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0647	0.894
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.06751	1
DC3000/delta hrp 24h	0.98866	0.978

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	N/A	N/A
Exp 36h	N/A	N/A
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	1.07797	1
Var 0h	1.04619	1
Var 12h I row2-row1	1.16864	0.196
Var 12h NI row2-row1	2.98679	1
Var 36h I row2-row1	1.3141	1
Var 36h NI row2-row1	0.96977	0.743
Var 60h I row2-row1	1.08952	0.271
Var 60h NI row2-row1	0.96657	1
Time course 0hI-0hNI	1.68074	0.852
Time course 12hI-12hNI	1.14837	0.398
Time course 36hI-36hNI	1.11633	0.975
Time course 60hI-60hNI	1.03791	0.673

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.59377	1
transgenic ySAMdc/azygous control (red)	1.40452	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99237	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91335	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.65056	0.216