Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.5.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89719	0.464
27DAP/17DAP	1.03189	0.957
39DAP/27DAP	0.88987	0.583
41DAP/39DAP	0.90247	0.597
42DAP/41DAP	0.83836	1
43DAP/42DAP	1.12007	1
47DAP/43DAP	0.87777	0.568
52DAP/47DAP	1.02142	0.942
57DAP/52DAP	0.91346	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9565	0.422
17DAP/reference	1.30767	0.012
27DAP/reference	0.93803	0.339
39DAP/reference	1.02094	0.842
41DAP/reference	1.28714	0.145
42DAP/reference	0.78937	0.003
43DAP/reference	0.95834	0.555
47DAP/reference	0.86539	0.065
52DAP/reference	0.79229	0.043
57DAP/reference	0.79939	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98179	0.782
27DAP/17DAP	0.85392	0.782
39DAP/27DAP	1.26588	0.453
41DAP/39DAP	1.6447	0.55
42DAP/41DAP	0.86786	0.356
43DAP/42DAP	1.15141	0.83
47DAP/43DAP	1.17026	0.798
52DAP/47DAP	0.55163
57DAP/52DAP	1.02269	0.941
57DAP/7DAP	0.59193	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10377	0.36
17DAP/reference	1.15326	0.221
27DAP/reference	1.14082	0.664
39DAP/reference	0.94262	0.354
41DAP/reference	0.80161	0.043
42DAP/reference	0.78589	0.025
43DAP/reference	1.34159	0.022
47DAP/reference	0.94292	0.504
52DAP/reference	0.92886	0.363
57DAP/reference	1.01915	0.775

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13263	0.634
17DAP/reference	1.19122	0.437
27DAP/reference	0.96301	0.467
39DAP/reference	1.02462	0.621
41DAP/reference	0.79396	0.074
42DAP/reference	0.81168	0.108
43DAP/reference	0.9896	0.748
47DAP/reference	0.84721	0.06
52DAP/reference	1.25601	0.988
57DAP/reference	1.09719	0.508

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03308	1
17DAP/reference	1.05192	0.988
27DAP/reference	1.33749	0.078
39DAP/reference	0.84923	0.05
41DAP/reference	0.90538	0.371
42DAP/reference	1.21172	0.204
43DAP/reference	0.85867	0.246
47DAP/reference	0.89816	0.278
52DAP/reference	1.02314	0.8
57DAP/reference	0.83837	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.38187	0.207
26DAP/20DAP	0.24119
34DAP/26DAP	N/A	N/A
51DAP/34DAP	0.79877
52DAP/51DAP	0.96839
53DAP/52DAP	1.41771	0.608
55DAP/53DAP	1.33527	0.898
57DAP/55DAP	7.86797
62DAP/57DAP	1.13948	0.935
68DAP/62DAP	1.55592
68DAP/14DAP	1.31126	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

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	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	1.57017	0.277
IL2-6/WTpooled	1.54713	0.395
IL7-5/WTpooled	1.67005	1
IL7-3/WTpooled	1.2815	1
IL12-4/WTpooled	1.29117	0.695
IL1-4/WTpooled	1.51128	0.426
WT/WTpooled	0.92314	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.50199	1
DC3000/delta hrp 24h	N/A	N/A

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	0.976	1
Exp 60h	0.80439	0.522

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	1.7572	0.594
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)	0.93308	0.428
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99065	0.371

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99815	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A