Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.17.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.03258	0.534
27DAP/17DAP	1.06297	1
39DAP/27DAP	1.07209	1
41DAP/39DAP	0.99475	0.766
42DAP/41DAP	0.91532	1
43DAP/42DAP	1.14722	1
47DAP/43DAP	1.11474	0.809
52DAP/47DAP	1.30035	0.559
57DAP/52DAP	0.96447	0.947

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89851	0.045
17DAP/reference	1.09335	0.412
27DAP/reference	1.06382	0.435
39DAP/reference	0.97807	0.691
41DAP/reference	0.9614	0.542
42DAP/reference	0.85698	0.003
43DAP/reference	1.0003	0.924
47DAP/reference	0.96423	0.3
52DAP/reference	0.90209	0.167
57DAP/reference	0.94179	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	3.54252	0.036
27DAP/17DAP	1.41092	0.042
39DAP/27DAP	0.66334	0.059
41DAP/39DAP	1.10548	0.885
42DAP/41DAP	1.02621	0.865
43DAP/42DAP	0.49336	0.02
47DAP/43DAP	0.81594	0.01
52DAP/47DAP	1.32334	0.219
57DAP/52DAP	0.95426	0.665
57DAP/7DAP	0.74534	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99085	0.613
17DAP/reference	1.1518	0.054
27DAP/reference	1.0315	0.804
39DAP/reference	1.14312	0.333
41DAP/reference	0.81283	0.024
42DAP/reference	0.9881	0.612
43DAP/reference	1.1269	0.344
47DAP/reference	1.05767	1
52DAP/reference	0.9118	0.126
57DAP/reference	1.08821	0.331

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01688	0.943
17DAP/reference	0.82302	0.092
27DAP/reference	0.97024	0.483
39DAP/reference	0.94422	0.339
41DAP/reference	0.8835	0.042
42DAP/reference	0.87315	0.05
43DAP/reference	0.97646	0.592
47DAP/reference	0.83501	0.014
52DAP/reference	0.95098	0.302
57DAP/reference	0.91633	0.156

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97523	0.566
17DAP/reference	0.97857	0.647
27DAP/reference	1.1186	0.115
39DAP/reference	0.99243	0.643
41DAP/reference	1.11051	0.162
42DAP/reference	0.99672	0.816
43DAP/reference	0.95798	0.432
47DAP/reference	0.93472	0.296
52DAP/reference	1.32473	0.252
57DAP/reference	0.8566	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23427	0.966
26DAP/20DAP	0.86589	0.244
34DAP/26DAP	1.12279	0.819
51DAP/34DAP	1.18937	0.429
52DAP/51DAP	1.0381	0.842
53DAP/52DAP	1.52367	0.047
55DAP/53DAP	1.06883	0.537
57DAP/55DAP	1.01417	1
62DAP/57DAP	1.05032	1
68DAP/62DAP	0.98392	0.834
68DAP/14DAP	0.92979	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.7361	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.0664	0.507
Ripe Pepper/Ripe Tomato	0.28096	0.224
Mature Eggplant/Ripe Tomato	0.7813	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.74193	0.605
1-1-2/M82	0.98274	1
12-2/M82	1.0483	1
12-4/M82	1.03107	1
1-3/M82	1.34071	0.255
2-1-1/M82	1.12291	1
2-1/M82	0.88427	0.74
2-6/M82	1.0473	1
3-2/M82	1.36887
4-1-1/M82	1.11558	1
4-1/M82	1.11167
4-3-2/M82	N/A	N/A
4-3/M82	0.48291	0.46
5-3/M82	1.09554	1
6-2/M82	1.02048	1
6-3/M82	1.28622	1
7-1/M82	1.29571
7-2/M82	1.06088	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13572	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.05069	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.20741	0.417
WT/WTpooled	N/A	N/A

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	1.1763	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85308	1
DC3000/delta hrp 6h	0.98664	0.95
DC3000/delta hrp 12h	1.07198	1
DC3000/delta hrp 24h	0.78476	0.053

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19457	0.29
DC3000 delta B/DC3000 delta AB	1.23802	0.223

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97846	1
Exp 36h	1.70662	0.326
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	1.00498	1
Var 0h	0.94161	0.933
Var 12h I row2-row1	0.97256	1
Var 12h NI row2-row1	0.80375	0.627
Var 36h I row2-row1	0.9466	0.374
Var 36h NI row2-row1	1.72276	1
Var 60h I row2-row1	1.59424	0.562
Var 60h NI row2-row1	0.9688	1
Time course 0hI-0hNI	1.02991	0.852
Time course 12hI-12hNI	0.8915	0.316
Time course 36hI-36hNI	0.61924	0.023
Time course 60hI-60hNI	0.15689	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)	0.92674	0.309
transgenic ySAMdc/azygous control (breaker)	0.96708	1
transgenic ySAMdc/azygous control (red)	0.99556	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10146	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94355	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90612	1
Manapal/WT (break)	0.83063	0.299
Manapal/WT (red)	0.97106	0.728