Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.11.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39554	0.291
27DAP/17DAP	1.23745	0.845
39DAP/27DAP	1.14841	0.631
41DAP/39DAP	0.94697	0.717
42DAP/41DAP	1.73352	0.039
43DAP/42DAP	0.95646	0.854
47DAP/43DAP	1.03724	0.979
52DAP/47DAP	0.79809	0.502
57DAP/52DAP	0.93346	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18561	0.043
17DAP/reference	1.16855	0.025
27DAP/reference	0.98759	0.741
39DAP/reference	1.00273	0.991
41DAP/reference	1.18041	0.122
42DAP/reference	1.08794	0.219
43DAP/reference	1.20071	0.02
47DAP/reference	1.30259	0.001
52DAP/reference	1.09987	0.407
57DAP/reference	1.10313	0.22

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95251	0.542
27DAP/17DAP	1.07884	0.751
39DAP/27DAP	1.09978	0.505
41DAP/39DAP	1.02328	0.921
42DAP/41DAP	0.99145	0.853
43DAP/42DAP	1.01127	0.788
47DAP/43DAP	1.03466	0.88
52DAP/47DAP	0.96023	0.807
57DAP/52DAP	1.06281	0.768
57DAP/7DAP	1.07203	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97025	0.55
17DAP/reference	1.34316	0.015
27DAP/reference	1.00327	0.698
39DAP/reference	0.94427	0.307
41DAP/reference	1.05074	0.43
42DAP/reference	0.93258	0.275
43DAP/reference	1.80781	0.006
47DAP/reference	0.98722	0.671
52DAP/reference	1.21891	0.081
57DAP/reference	2.15113	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12249	0.507
17DAP/reference	1.25929	0.117
27DAP/reference	1.18102	0.373
39DAP/reference	1.12807	0.281
41DAP/reference	1.03177	1
42DAP/reference	1.05528	1
43DAP/reference	0.96214	0.527
47DAP/reference	1.14276	0.034
52DAP/reference	1.01897	1
57DAP/reference	1.10264	0.363

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84105	0.092
17DAP/reference	1.10221	0.398
27DAP/reference	1.32163	0.02
39DAP/reference	1.2408	0.017
41DAP/reference	0.91136	0.331
42DAP/reference	1.07462	0.566
43DAP/reference	1.01124	0.858
47DAP/reference	1.21664	0.029
52DAP/reference	3.57207	0.073
57DAP/reference	0.97041	0.534

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.72648	0.018
26DAP/20DAP	0.91237	0.512
34DAP/26DAP	1.07637	0.819
51DAP/34DAP	0.97295	0.737
52DAP/51DAP	1.0064	0.915
53DAP/52DAP	1.06602	0.819
55DAP/53DAP	1.01164	1
57DAP/55DAP	1.04946	0.461
62DAP/57DAP	0.9482	0.681
68DAP/62DAP	0.85263	0.609
68DAP/14DAP	1.45755

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97697	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.87549	0.371
Mature Green Tomato/Ripe Tomato	1.95097	0.209
Immature Eggplant/Mature Eggplant	0.95882	0.545
Ripe Pepper/Ripe Tomato	0.91308	1
Mature Eggplant/Ripe Tomato	0.93486

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.08181
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	1.06111
4-3-2/M82	1.3967	0.241
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.15389
7-2/M82	N/A	N/A
9-3-2/M82	1.15306

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06998	0.277
IL2-6/WTpooled	0.88486	0.473
IL7-5/WTpooled	1.24318	1
IL7-3/WTpooled	1.13695	1
IL12-4/WTpooled	1.02492	1
IL1-4/WTpooled	0.92227	0.834
WT/WTpooled	0.9267	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	1.2401	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02238	1
DC3000/delta hrp 6h	0.97998	0.95
DC3000/delta hrp 12h	1.01908	1
DC3000/delta hrp 24h	0.77112	0.129

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18259	0.229
DC3000 delta B/DC3000 delta AB	1.1199	0.302

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89998	1
Exp 36h	1.15968	1
Exp 60h	1.28879	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99769	1
Var 0h	1.22521	0.274
Var 12h I row2-row1	1.01286	0.613
Var 12h NI row2-row1	1.31213	0.649
Var 36h I row2-row1	1.04281	1
Var 36h NI row2-row1	0.88492	0.743
Var 60h I row2-row1	0.83844	0.285
Var 60h NI row2-row1	0.74071	0.298
Time course 0hI-0hNI	1.10873	0.262
Time course 12hI-12hNI	1.22779	0.021
Time course 36hI-36hNI	2.75349	0.004
Time course 60hI-60hNI	7.68619	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)	0.97553	0.662
transgenic ySAMdc/azygous control (breaker)	0.9162	0.49
transgenic ySAMdc/azygous control (red)	1.02224	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03947	0.045

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11156	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.68438	1
Manapal/WT (break)	0.92413	1
Manapal/WT (red)	1.0991	0.413