Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.1.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98246	0.689
27DAP/17DAP	1.88638	0.784
39DAP/27DAP	0.84606	0.487
41DAP/39DAP	0.96806	0.615
42DAP/41DAP	1.08929	1
43DAP/42DAP	0.75244	0.705
47DAP/43DAP	1.05996	0.628
52DAP/47DAP	1.64423	0.745
57DAP/52DAP	0.95312	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89491	0.352
17DAP/reference	1.7377	0.021
27DAP/reference	0.95466	0.595
39DAP/reference	1.1509	0.903
41DAP/reference	1.15394	0.158
42DAP/reference	1.50679	0.017
43DAP/reference	1.17115	0.705
47DAP/reference	1.27141	0.365
52DAP/reference	1.26892	0.256
57DAP/reference	0.88895	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	0.60308	0.206
39DAP/27DAP	0.91663	0.852
41DAP/39DAP	1.90353	0.59
42DAP/41DAP	0.91579	0.635
43DAP/42DAP	1.13081	1
47DAP/43DAP	0.63943	0.016
52DAP/47DAP	1.60412
57DAP/52DAP	1.98452	0.8
57DAP/7DAP	1.89774

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88148	0.168
17DAP/reference	0.8473	0.072
27DAP/reference	0.7179	0.01
39DAP/reference	0.86517	0.073
41DAP/reference	0.84396	0.122
42DAP/reference	0.77088	0.012
43DAP/reference	0.74288	0.014
47DAP/reference	0.901	0.504
52DAP/reference	0.89574	0.196
57DAP/reference	0.85566	0.086

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85354
17DAP/reference	2.05089	0.104
27DAP/reference	1.13914
39DAP/reference	0.89925	0.428
41DAP/reference	0.99554
42DAP/reference	3.52204	0.118
43DAP/reference	1.21718	0.276
47DAP/reference	1.11181	0.867
52DAP/reference	1.51916	0.24
57DAP/reference	1.34916	0.523

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83586	0.044
17DAP/reference	1.11927	0.456
27DAP/reference	0.81498	0.055
39DAP/reference	1.04244	0.889
41DAP/reference	0.86248	0.027
42DAP/reference	0.79096	0.032
43DAP/reference	0.74987	0.016
47DAP/reference	1.28285	0.82
52DAP/reference	0.96226	0.596
57DAP/reference	0.8522	0.167

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9975	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.33277	0.949
52DAP/51DAP	1.10028	0.888
53DAP/52DAP	1.07009	0.99
55DAP/53DAP	0.84477	0.102
57DAP/55DAP	0.7073
62DAP/57DAP	1.46964	0.257
68DAP/62DAP	N/A	N/A
68DAP/14DAP	0.77696

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1862	0.74

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	0.66415	0.321
IL2-6/WTpooled	1.1105	0.788
IL7-5/WTpooled	0.99292	1
IL7-3/WTpooled	0.79926	0.293
IL12-4/WTpooled	0.9291	0.71
IL1-4/WTpooled	1.06878	1
WT/WTpooled	1.04038	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	5.57024

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	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	N/A	N/A

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)	1.49727	0.1