Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.14.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.73159	0.575
27DAP/17DAP	0.92944	0.928
39DAP/27DAP	0.86512	0.435
41DAP/39DAP	0.84475	0.611
42DAP/41DAP	1.31387	0.903
43DAP/42DAP	1.29318	0.937
47DAP/43DAP	0.92457	0.66
52DAP/47DAP	1.76148	0.445
57DAP/52DAP	1.39432	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90856	0.526
17DAP/reference	1.42916	0.148
27DAP/reference	1.42133	0.357
39DAP/reference	0.86976	0.575
41DAP/reference	1.11046	0.421
42DAP/reference	1.53823	0.002
43DAP/reference	N/A	N/A
47DAP/reference	1.37967	0.627
52DAP/reference	0.64016
57DAP/reference	1.16102	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.58426
27DAP/17DAP	N/A	N/A
39DAP/27DAP	N/A	N/A
41DAP/39DAP	0.62688	0.412
42DAP/41DAP	4.70239	0.753
43DAP/42DAP	1.04309
47DAP/43DAP	1.27516	0.969
52DAP/47DAP	0.44832	0.217
57DAP/52DAP	N/A	N/A
57DAP/7DAP	0.63158

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.59824	0.03
17DAP/reference	1.18382	0.059
27DAP/reference	1.03925	0.664
39DAP/reference	1.18207	0.157
41DAP/reference	0.97269	0.489
42DAP/reference	1.0819	0.534
43DAP/reference	1.33854	0.013
47DAP/reference	1.1908	0.337
52DAP/reference	1.17202	0.459
57DAP/reference	1.18209	0.1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87796	0.706
17DAP/reference	0.83634	0.561
27DAP/reference	1.43536	0.388
39DAP/reference	1.62539	0.035
41DAP/reference	N/A	N/A
42DAP/reference	N/A	N/A
43DAP/reference	1.19725	0.845
47DAP/reference	1.34519
52DAP/reference	N/A	N/A
57DAP/reference	1.44464

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.55326	0.022
17DAP/reference	0.96365	0.55
27DAP/reference	0.9606	0.465
39DAP/reference	1.16338	0.169
41DAP/reference	1.00564	1
42DAP/reference	1.24459	0.287
43DAP/reference	1.45908	0.016
47DAP/reference	1.00389
52DAP/reference	1.13853	0.601
57DAP/reference	0.96587	0.704

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01283	0.966
26DAP/20DAP	1.15537	1
34DAP/26DAP	0.86017	0.712
51DAP/34DAP	1.14304	0.883
52DAP/51DAP	1.15341	0.873
53DAP/52DAP	1.57166	0.845
55DAP/53DAP	0.73388	0.273
57DAP/55DAP	1.24514	0.71
62DAP/57DAP	1.47143
68DAP/62DAP	N/A	N/A
68DAP/14DAP	1.68071	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98525

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	1.06506	0.277
IL2-6/WTpooled	0.59899	0.348
IL7-5/WTpooled	1.11047	0.792
IL7-3/WTpooled	1.18993	0.362
IL12-4/WTpooled	1.13698	0.595
IL1-4/WTpooled	0.93137	0.699
WT/WTpooled	1.05085	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	N/A	N/A
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	1.00387

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	N/A	N/A
Var 0h	0.99406	1
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	1.61501
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)	N/A	N/A
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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9771	0.789

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)	1.10602	1