Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.1.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04325	0.876
27DAP/17DAP	0.83943	0.649
39DAP/27DAP	0.78798	0.289
41DAP/39DAP	1.0242	0.904
42DAP/41DAP	0.99956	1
43DAP/42DAP	0.74763	0.495
47DAP/43DAP	1.19938	0.68
52DAP/47DAP	0.71128	0.393
57DAP/52DAP	0.9779	0.966

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33271	0.11
17DAP/reference	0.80418	0.111
27DAP/reference	0.79925	0.095
39DAP/reference	1.25785	0.191
41DAP/reference	1.19809	0.312
42DAP/reference	0.81887	0.011
43DAP/reference	0.85206	0.2
47DAP/reference	0.70657	0.002
52DAP/reference	0.66225	0.035
57DAP/reference	0.84781	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10848	0.63
27DAP/17DAP	1.18237	0.761
39DAP/27DAP	0.86357	0.243
41DAP/39DAP	1.02326	0.921
42DAP/41DAP	1.17239	0.81
43DAP/42DAP	1.08327	0.627
47DAP/43DAP	0.77156	0.1
52DAP/47DAP	0.93635	0.797
57DAP/52DAP	0.73071	0.252
57DAP/7DAP	1.65226	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11275
17DAP/reference	3.37208	0.006
27DAP/reference	3.88556	0.006
39DAP/reference	3.89762	0.005
41DAP/reference	3.46426	0.01
42DAP/reference	4.37793	0.006
43DAP/reference	5.45106	0.004
47DAP/reference	1.31567	0.136
52DAP/reference	5.38107	0.007
57DAP/reference	1.79971	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92849	0.457
17DAP/reference	0.76665	0.025
27DAP/reference	0.79779	0.029
39DAP/reference	1.02755	1
41DAP/reference	1.35867	0.031
42DAP/reference	1.21183	0.038
43DAP/reference	0.99322	0.494
47DAP/reference	1.38741	0.071
52DAP/reference	1.20507	0.011
57DAP/reference	1.27875	0.193

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.24746	0.109
17DAP/reference	1.88016	0.354
27DAP/reference	5.28195	0.061
39DAP/reference	4.89344	0.041
41DAP/reference	3.85191	0.013
42DAP/reference	1.41561	0.053
43DAP/reference	3.75286	0.018
47DAP/reference	0.45384	0.004
52DAP/reference	0.37877	0.042
57DAP/reference	1.76104	0.765

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85084	0.672
26DAP/20DAP	1.45369	0.265
34DAP/26DAP	1.78676	0.19
51DAP/34DAP	1.13271	0.967
52DAP/51DAP	0.97028	1
53DAP/52DAP	1.12016	0.662
55DAP/53DAP	1.11485	1
57DAP/55DAP	0.55241	0.057
62DAP/57DAP	1.11019	0.767
68DAP/62DAP	1.45279	0.079
68DAP/14DAP	2.30629	0.028

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15924	0.663

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	18.0651	0.113
Mature Green Tomato/Ripe Tomato	4.10291
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.15363	0.224
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10543
1-1-2/M82	1.07109
12-2/M82	N/A	N/A
12-4/M82	1.02802
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	1.1496	0.467
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.82306
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97075	1
IL2-6/WTpooled	1.32754	0.441
IL7-5/WTpooled	1.02303	1
IL7-3/WTpooled	0.97098	1
IL12-4/WTpooled	1.1721	0.367
IL1-4/WTpooled	1.08395	1
WT/WTpooled	0.97881	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	0.70356

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.84502	1
DC3000/delta hrp 6h	0.98848	0.95
DC3000/delta hrp 12h	1.09436	1
DC3000/delta hrp 24h	0.98071	0.966

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	1.02991	1
Exp 36h	1.00918	1
Exp 60h	0.68009	0.32

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.97861	1
Var 0h	4.04457	0.98
Var 12h I row2-row1	0.98635	1
Var 12h NI row2-row1	1.10259	1
Var 36h I row2-row1	1.26327	0.908
Var 36h NI row2-row1	1.48568	0.214
Var 60h I row2-row1	1.04653	1
Var 60h NI row2-row1	1.24194	0.904
Time course 0hI-0hNI	0.95611	0.687
Time course 12hI-12hNI	0.88278	0.201
Time course 36hI-36hNI	0.76415	0.033
Time course 60hI-60hNI	0.27671	0.006

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)	1.02903	1
transgenic ySAMdc/azygous control (breaker)	0.73461	0.49
transgenic ySAMdc/azygous control (red)	1.39561	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98295	0.459

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87018	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81978	1
Manapal/WT (break)	0.70359	1
Manapal/WT (red)	1.00383	1