Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.3.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88666	0.436
27DAP/17DAP	0.79469	0.451
39DAP/27DAP	0.85213	0.512
41DAP/39DAP	1.04952	0.822
42DAP/41DAP	1.10289	0.938
43DAP/42DAP	1.11307	0.956
47DAP/43DAP	0.96987	0.815
52DAP/47DAP	1.32066	0.434
57DAP/52DAP	0.74451	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20597	0.32
17DAP/reference	0.91588	0.503
27DAP/reference	1.15773	0.061
39DAP/reference	1.0779	0.117
41DAP/reference	1.07472	0.552
42DAP/reference	0.95731	0.295
43DAP/reference	0.93486
47DAP/reference	0.89612	0.083
52DAP/reference	0.73629	0.096
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90179	0.251
27DAP/17DAP	0.97599	0.821
39DAP/27DAP	0.89325	0.231
41DAP/39DAP	1.05741	0.781
42DAP/41DAP	0.9479	0.599
43DAP/42DAP	0.93528	0.336
47DAP/43DAP	0.99495	0.983
52DAP/47DAP	0.95973	0.839
57DAP/52DAP	0.94434	0.532
57DAP/7DAP	1.03256	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17325	0.201
17DAP/reference	1.06578	0.627
27DAP/reference	1.09001	1
39DAP/reference	1.17514	0.297
41DAP/reference	1.32649	0.117
42DAP/reference	1.29905	0.024
43DAP/reference	1.11551	0.537
47DAP/reference	0.97242	0.671
52DAP/reference	1.07496	0.428
57DAP/reference	1.11001	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0676	0.404
17DAP/reference	1.18947	0.06
27DAP/reference	0.9806	0.576
39DAP/reference	0.92222	0.214
41DAP/reference	0.8553	0.091
42DAP/reference	0.87508	0.089
43DAP/reference	0.88172	0.25
47DAP/reference	0.96522	0.338
52DAP/reference	0.86083	0.072
57DAP/reference	1.12954	0.807

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42878	0.025
17DAP/reference	1.29381	0.264
27DAP/reference	1.08622	1
39DAP/reference	1.11024	0.365
41DAP/reference	1.14299	0.826
42DAP/reference	1.02019	1
43DAP/reference	0.98412	0.568
47DAP/reference	1.21345	0.093
52DAP/reference	1.24448	0.257
57DAP/reference	0.93385	0.38

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92837	0.787
26DAP/20DAP	0.87409	0.317
34DAP/26DAP	1.25097	1
51DAP/34DAP	0.94323	0.688
52DAP/51DAP	1.03701	0.86
53DAP/52DAP	1.10368	0.594
55DAP/53DAP	1.01832	0.904
57DAP/55DAP	1.072	0.854
62DAP/57DAP	1.19167	0.002
68DAP/62DAP	0.76465	0.543
68DAP/14DAP	0.76638	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0615	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21972
Mature Green Tomato/Ripe Tomato	2.9601	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.83341	1
Mature Eggplant/Ripe Tomato	0.59365	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17599	0.877
1-1-2/M82	1.00194	1
12-2/M82	0.9271	0.955
12-4/M82	1.02638	1
1-3/M82	0.86786	0.501
2-1-1/M82	0.9246	1
2-1/M82	0.30075
2-6/M82	1.04346	1
3-2/M82	1.16349
4-1-1/M82	1.37803	1
4-1/M82	1.41317	0.418
4-3-2/M82	1.15883
4-3/M82	1.20448	1
5-3/M82	0.97524	1
6-2/M82	0.76048
6-3/M82	1.02439	1
7-1/M82	1.04674
7-2/M82	0.97849	1
9-3-2/M82	0.97831

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92722	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.06214	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.05359	1
WT/WTpooled	0.94791

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	1.11147	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96096	1
DC3000/delta hrp 6h	1.35892	0.672
DC3000/delta hrp 12h	0.94181	1
DC3000/delta hrp 24h	0.69842	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61877	0.024
DC3000 delta B/DC3000 delta AB	0.62341	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96769	1
Exp 36h	0.62047	0.471
Exp 60h	0.66448	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99883	1
Var 0h	0.66304	1
Var 12h I row2-row1	0.85863	0.514
Var 12h NI row2-row1	0.97536	0.906
Var 36h I row2-row1	0.81051	0.805
Var 36h NI row2-row1	1.17923	1
Var 60h I row2-row1	1.09559	1
Var 60h NI row2-row1	1.42655	0.5
Time course 0hI-0hNI	0.95626	0.763
Time course 12hI-12hNI	0.94528	0.661
Time course 36hI-36hNI	0.81371	0.093
Time course 60hI-60hNI	0.31055	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)	1.08363	0.408
transgenic ySAMdc/azygous control (breaker)	1.3222	1
transgenic ySAMdc/azygous control (red)	2.1446	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98586	0.694

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.96363	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.82317	0.096
Manapal/WT (break)	2.08803	0.381
Manapal/WT (red)	1.93022	0.413