Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.20.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84338	0.436
27DAP/17DAP	1.30883	0.793
39DAP/27DAP	0.73052	0.462
41DAP/39DAP	2.33273	0.266
42DAP/41DAP	1.16954	1
43DAP/42DAP	0.91082	0.851
47DAP/43DAP	1.0441	0.884
52DAP/47DAP	1.14489	0.898
57DAP/52DAP	0.98057	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86311	0.465
17DAP/reference	0.84845
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	1.77333	0.587
42DAP/reference	0.87964	0.038
43DAP/reference	0.74135
47DAP/reference	0.84927	0.007
52DAP/reference	N/A	N/A
57DAP/reference	0.76705	0.106

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89326	0.323
27DAP/17DAP	0.95897	0.821
39DAP/27DAP	1.13585	0.373
41DAP/39DAP	1.11313	0.801
42DAP/41DAP	1.01996	0.929
43DAP/42DAP	1.00481	1
47DAP/43DAP	1.00039	0.99
52DAP/47DAP	1.07367	0.819
57DAP/52DAP	0.95278	0.628
57DAP/7DAP	1.16339	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9401	0.091
17DAP/reference	0.95515	0.124
27DAP/reference	0.84238	0.014
39DAP/reference	0.93655	0.039
41DAP/reference	0.93007	0.107
42DAP/reference	0.95795	0.235
43DAP/reference	1.01367	1
47DAP/reference	1.00525	1
52DAP/reference	0.89694	0.179
57DAP/reference	0.87377	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96892	0.623
17DAP/reference	0.88182	0.037
27DAP/reference	0.81826	0.087
39DAP/reference	0.73657	0.048
41DAP/reference	0.86704	0.124
42DAP/reference	0.82773	0.015
43DAP/reference	0.95698	0.486
47DAP/reference	0.90577	0.025
52DAP/reference	0.93696	0.055
57DAP/reference	0.92085	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84098	0.039
17DAP/reference	0.97946	0.658
27DAP/reference	0.91585	0.097
39DAP/reference	0.89188	0.063
41DAP/reference	0.91919	0.058
42DAP/reference	0.84453	0.016
43DAP/reference	0.96197	0.416
47DAP/reference	0.95782	0.306
52DAP/reference	0.85729	0.22
57DAP/reference	0.93502	0.41

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12417	0.966
26DAP/20DAP	2.03374	0.099
34DAP/26DAP	1.25163	0.542
51DAP/34DAP	0.94349	0.64
52DAP/51DAP	0.88423	1
53DAP/52DAP	1.10814	0.608
55DAP/53DAP	0.97988	0.82
57DAP/55DAP	0.85327	0.149
62DAP/57DAP	1.18547	0.445
68DAP/62DAP	1.10311	0.962
68DAP/14DAP	1.30187	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.50161	0.052

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	8.07652	0.058
Mature Green Tomato/Ripe Tomato	0.61317	0.072
Immature Eggplant/Mature Eggplant	4.54307	0.05
Ripe Pepper/Ripe Tomato	4.67845	1
Mature Eggplant/Ripe Tomato	2.69697	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90682	0.944
1-1-2/M82	1.08086	0.977
12-2/M82	1.34763	1
12-4/M82	0.90437	1
1-3/M82	1.03829	1
2-1-1/M82	1.16597
2-1/M82	N/A	N/A
2-6/M82	1.02876	1
3-2/M82	1.08301	0.463
4-1-1/M82	1.07407	1
4-1/M82	1.28657	0.512
4-3-2/M82	1.03395
4-3/M82	0.86194	0.72
5-3/M82	1.21102	1
6-2/M82	1.01175	1
6-3/M82	1.01153	1
7-1/M82	1.28131	0.598
7-2/M82	1.1527	0.324
9-3-2/M82	1.02814

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9095	1
IL2-6/WTpooled	1.1765	0.419
IL7-5/WTpooled	1.05598	1
IL7-3/WTpooled	0.99547	1
IL12-4/WTpooled	1.15393	0.646
IL1-4/WTpooled	0.94175	0.562
WT/WTpooled	1.07544	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	1.24842	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07154	0.692
DC3000/delta hrp 6h	0.88789	0.95
DC3000/delta hrp 12h	1.32928	1
DC3000/delta hrp 24h	1.41672	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.8793	0.022
DC3000 delta B/DC3000 delta AB	2.01406	0.102

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10849	1
Exp 36h	1.41876	1
Exp 60h	1.08397	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94914	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.89158	0.856
Var 12h NI row2-row1	1.46126	1
Var 36h I row2-row1	1.0509	1
Var 36h NI row2-row1	0.94151	0.791
Var 60h I row2-row1	0.70497	0.285
Var 60h NI row2-row1	0.84571	0.516
Time course 0hI-0hNI	1.04598	1
Time course 12hI-12hNI	1.08002	0.724
Time course 36hI-36hNI	3.07588	0.005
Time course 60hI-60hNI	24.6607	0.008

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)	0.78767	0.246
transgenic ySAMdc/azygous control (breaker)	0.20795	0.137
transgenic ySAMdc/azygous control (red)	1.68629	1

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	0.52122	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	9.49142	0.14
Manapal/WT (break)	1.27448	1
Manapal/WT (red)	2.17557	0.413