Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94655	0.671
27DAP/17DAP	1.07284	0.871
39DAP/27DAP	0.81319	0.425
41DAP/39DAP	1.25396	0.478
42DAP/41DAP	1.12666	0.949
43DAP/42DAP	0.99761	0.937
47DAP/43DAP	1.01874	0.95
52DAP/47DAP	1.04539	0.96
57DAP/52DAP	0.97457	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.54847
17DAP/reference	N/A	N/A
27DAP/reference	1.14987	0.612
39DAP/reference	0.82015	0.022
41DAP/reference	0.72551	0.341
42DAP/reference	0.68659	0.002
43DAP/reference	1.09033
47DAP/reference	0.81274	0.258
52DAP/reference	0.70089
57DAP/reference	1.53571	0.344

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93391	0.415
27DAP/17DAP	0.94957	0.724
39DAP/27DAP	1.06712	0.534
41DAP/39DAP	1.06808	0.861
42DAP/41DAP	1.14892	0.12
43DAP/42DAP	1.03283	0.554
47DAP/43DAP	0.97652	0.87
52DAP/47DAP	0.97945	0.899
57DAP/52DAP	1.00688	1
57DAP/7DAP	1.05675	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8792
17DAP/reference	0.9217	0.018
27DAP/reference	0.92614	0.039
39DAP/reference	0.96784	0.049
41DAP/reference	0.98397	0.538
42DAP/reference	0.98716	0.482
43DAP/reference	0.96215	0.202
47DAP/reference	0.99651	1
52DAP/reference	0.90893	0.038
57DAP/reference	0.91493	0.041

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02867	0.903
17DAP/reference	0.89555	0.02
27DAP/reference	1.0196
39DAP/reference	0.62589	0.183
41DAP/reference	1.29764	0.878
42DAP/reference	0.51859	0.01
43DAP/reference	0.92556	0.37
47DAP/reference	1.35483	0.482
52DAP/reference	0.80981	0.101
57DAP/reference	1.02417	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93795	0.119
17DAP/reference	1.17055	0.612
27DAP/reference	0.94588	0.045
39DAP/reference	0.9187	0.101
41DAP/reference	0.99445	0.754
42DAP/reference	0.95046	0.22
43DAP/reference	0.91718	0.125
47DAP/reference	1.46007	0.562
52DAP/reference	0.8854	0.342
57DAP/reference	0.86272	0.516

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.64742
26DAP/20DAP	1.00264	1
34DAP/26DAP	1.12398	0.819
51DAP/34DAP	0.88865	0.193
52DAP/51DAP	0.98015	1
53DAP/52DAP	1.03005	0.83
55DAP/53DAP	1.00789	1
57DAP/55DAP	1.00296	0.925
62DAP/57DAP	0.78679	0.466
68DAP/62DAP	0.75538	0.314
68DAP/14DAP	0.58172	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.74018	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.86066	0.148
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.51685	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98041	0.944
1-1-2/M82	0.84344	1
12-2/M82	1.04532	1
12-4/M82	1.34942	0.694
1-3/M82	1.12549	0.26
2-1-1/M82	1.0673	0.439
2-1/M82	N/A	N/A
2-6/M82	1.10441	0.695
3-2/M82	0.89158
4-1-1/M82	0.92371	1
4-1/M82	0.82867	1
4-3-2/M82	0.7738	0.487
4-3/M82	0.9151	0.578
5-3/M82	0.93521	0.395
6-2/M82	0.99611	1
6-3/M82	1.06052	1
7-1/M82	0.87749
7-2/M82	0.99466	1
9-3-2/M82	0.86887	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7263	0.243
IL2-6/WTpooled	0.863
IL7-5/WTpooled	0.83325	1
IL7-3/WTpooled	0.87107
IL12-4/WTpooled	1.1848	0.737
IL1-4/WTpooled	0.7805	0.699
WT/WTpooled	0.89386	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	1.68232	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98823	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.82356	1
DC3000/delta hrp 24h	1.34334	0.103

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.56782	0.023
DC3000 delta B/DC3000 delta AB	0.70351	0.021

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	0.99948	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.93139	0.467
Var 12h NI row2-row1	0.9075	0.443
Var 36h I row2-row1	0.89019	1
Var 36h NI row2-row1	1.355	1
Var 60h I row2-row1	1.06223	0.562
Var 60h NI row2-row1	1.06695	0.904
Time course 0hI-0hNI	1.03205	0.764
Time course 12hI-12hNI	0.96485	0.701
Time course 36hI-36hNI	0.87284	0.025
Time course 60hI-60hNI	0.42153	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)	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	2.4069	0.026

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.79116	1

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)	1.3891	1
Manapal/WT (red)	1.07961	0.413