Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.20.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.11508	0.365
27DAP/17DAP	1.92072	0.399
39DAP/27DAP	0.71006	0.421
41DAP/39DAP	1.26639	0.101
42DAP/41DAP	0.73249	0.774
43DAP/42DAP	0.78205	0.601
47DAP/43DAP	1.24558	0.746
52DAP/47DAP	0.71771	0.496
57DAP/52DAP	0.93663	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33663	0.032
17DAP/reference	1.16013	0.083
27DAP/reference	1.21669	0.057
39DAP/reference	1.20204	0.169
41DAP/reference	1.47238	0.013
42DAP/reference	1.61765	0.001
43DAP/reference	1.02867	0.982
47DAP/reference	1.32954	0.003
52DAP/reference	1.37001	0.018
57DAP/reference	1.18442	0.332

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.73635	0.23
27DAP/17DAP	1.19809	0.852
39DAP/27DAP	0.50381
41DAP/39DAP	1.05012	1
42DAP/41DAP	0.48898
43DAP/42DAP	1.17999	0.446
47DAP/43DAP	1.08193	0.92
52DAP/47DAP	0.87611	0.79
57DAP/52DAP	1.01124	0.902
57DAP/7DAP	0.71882	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.87015	0.039
17DAP/reference	3.31883	0.006
27DAP/reference	3.24518	0.006
39DAP/reference	3.41105	0.005
41DAP/reference	3.43264	0.01
42DAP/reference	4.90223	0.006
43DAP/reference	5.84978	0.006
47DAP/reference	2.67701	0.115
52DAP/reference	3.56451	0.007
57DAP/reference	4.0446	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29951	0.111
17DAP/reference	1.51059	0.05
27DAP/reference	1.30694	0.463
39DAP/reference	1.44571	0.068
41DAP/reference	1.78124	0.081
42DAP/reference	1.53291
43DAP/reference	0.96591	0.459
47DAP/reference	N/A	N/A
52DAP/reference	1.49061	0.006
57DAP/reference	1.42991	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.90214	0.025
17DAP/reference	1.47172	0.354
27DAP/reference	2.88578	0.016
39DAP/reference	2.80737	0.008
41DAP/reference	2.28713	0.011
42DAP/reference	3.05542	0.011
43DAP/reference	2.9884	0.006
47DAP/reference	1.16694	0.443
52DAP/reference	4.1471	0.06
57DAP/reference	3.09963	0.209

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9649	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.55083	0.542
51DAP/34DAP	N/A	N/A
52DAP/51DAP	1.33312	0.965
53DAP/52DAP	1.84844	0.978
55DAP/53DAP	0.74209	0.072
57DAP/55DAP	0.87926	0.774
62DAP/57DAP	1.73138	0.833
68DAP/62DAP	2.03878
68DAP/14DAP	1.4605

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78554

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	0.83347
IL2-6/WTpooled	1.00023
IL7-5/WTpooled	0.90264	1
IL7-3/WTpooled	1.46071	1
IL12-4/WTpooled	1.08839	0.839
IL1-4/WTpooled	0.8873	1
WT/WTpooled	0.97137	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	0.92126	0.95
DC3000/delta hrp 12h	1.07444	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	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	N/A	N/A
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)	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	0.85422	0.16

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.08358	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)	1.52316	0.381
Manapal/WT (red)	N/A	N/A