Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.1.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.40916	0.545
27DAP/17DAP	1.13326	0.849
39DAP/27DAP	0.88358	0.549
41DAP/39DAP	1.00207	0.915
42DAP/41DAP	1.4088	0.488
43DAP/42DAP	1.06813	1
47DAP/43DAP	1.2061	0.595
52DAP/47DAP	0.86175	0.646
57DAP/52DAP	0.99711	0.982

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.53917	0.02
17DAP/reference	1.28441	0.018
27DAP/reference	1.29055	0.091
39DAP/reference	1.21587	0.039
41DAP/reference	1.33535	0.067
42DAP/reference	1.30292	0.002
43DAP/reference	1.11828	0.471
47DAP/reference	1.41953	0.006
52DAP/reference	1.33982	0.158
57DAP/reference	1.16061	0.061

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02694	0.774
27DAP/17DAP	0.94393	0.748
39DAP/27DAP	1.28577	0.219
41DAP/39DAP	1.04636	1
42DAP/41DAP	1.03183	0.916
43DAP/42DAP	1.25322	0.413
47DAP/43DAP	1.10808	0.293
52DAP/47DAP	1.27882	0.317
57DAP/52DAP	1.22971	0.358
57DAP/7DAP	1.07079	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96649	0.55
17DAP/reference	0.90885	0.094
27DAP/reference	0.81949	0.028
39DAP/reference	0.86352	0.095
41DAP/reference	1.01154	0.709
42DAP/reference	0.85459	0.086
43DAP/reference	1.07659	1
47DAP/reference	1.1423	0.948
52DAP/reference	0.82116	0.083
57DAP/reference	0.95663	0.367

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48776	0.106
17DAP/reference	1.5823	0.01
27DAP/reference	1.51003	0.02
39DAP/reference	1.6034	0.016
41DAP/reference	1.37345	0.041
42DAP/reference	1.68781	0.011
43DAP/reference	1.51416	0.072
47DAP/reference	1.49317	0.008
52DAP/reference	1.36401	0.013
57DAP/reference	1.25605	0.188

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96921	0.526
17DAP/reference	1.39758	0.098
27DAP/reference	0.92435
39DAP/reference	1.04022	0.755
41DAP/reference	1.0516	1
42DAP/reference	1.06975	0.907
43DAP/reference	0.91109	0.416
47DAP/reference	1.25252	0.279
52DAP/reference	1.02216	1
57DAP/reference	1.15602	0.141

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28429	0.966
26DAP/20DAP	1.1605	0.66
34DAP/26DAP	1.06512	1
51DAP/34DAP	1.08156	0.785
52DAP/51DAP	1.18473	0.213
53DAP/52DAP	0.93431	0.723
55DAP/53DAP	1.19224	0.335
57DAP/55DAP	1.02444	0.968
62DAP/57DAP	1.26604	0.935
68DAP/62DAP	0.74429	0.609
68DAP/14DAP	0.80848	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.31913	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.75303	0.058
Mature Green Tomato/Ripe Tomato	0.3994	0.045
Immature Eggplant/Mature Eggplant	0.96184	0.651
Ripe Pepper/Ripe Tomato	0.75542	1
Mature Eggplant/Ripe Tomato	1.00329	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06036
1-1-2/M82	1.15441	1
12-2/M82	0.72283
12-4/M82	1.79358	1
1-3/M82	N/A	N/A
2-1-1/M82	1.06918	0.764
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.40494
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	0.9296
5-3/M82	1.18169	0.572
6-2/M82	1.23216	1
6-3/M82	N/A	N/A
7-1/M82	0.96211	1
7-2/M82	2.28384
9-3-2/M82	1.76278	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.55989	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.73138
IL12-4/WTpooled	0.21296	1
IL1-4/WTpooled	0.66036
WT/WTpooled	0.85325	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	1.03656	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.41132	0.921
DC3000/delta hrp 6h	0.94387	0.95
DC3000/delta hrp 12h	1.27183	1
DC3000/delta hrp 24h	1.17885	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.53056	0.042
DC3000 delta B/DC3000 delta AB	1.31296	0.146

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	1.025	1
Var 0h	0.31862	1
Var 12h I row2-row1	0.98424	0.948
Var 12h NI row2-row1	0.85976	0.627
Var 36h I row2-row1	1.06122	0.908
Var 36h NI row2-row1	1.18613	1
Var 60h I row2-row1	0.8857	0.285
Var 60h NI row2-row1	1.10035	0.904
Time course 0hI-0hNI	1.07383	0.833
Time course 12hI-12hNI	1.00078	1
Time course 36hI-36hNI	1.16765	0.021
Time course 60hI-60hNI	1.14545	0.029

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)	0.97231	0.614
transgenic ySAMdc/azygous control (breaker)	0.77844	0.173
transgenic ySAMdc/azygous control (red)	1.19645	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.81031	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58893	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95512	1
Manapal/WT (break)	1.79316	0.14
Manapal/WT (red)	N/A	N/A