Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.10.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98169	0.811
27DAP/17DAP	1.36681	0.646
39DAP/27DAP	1.21122	0.857
41DAP/39DAP	0.90465	0.636
42DAP/41DAP	1.00185	1
43DAP/42DAP	1.02724	0.937
47DAP/43DAP	1.25152	0.364
52DAP/47DAP	0.86215	0.622
57DAP/52DAP	1.0891	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04617	0.96
17DAP/reference	1.15224	0.092
27DAP/reference	1.17446	0.043
39DAP/reference	1.12385	0.229
41DAP/reference	1.15227	0.171
42DAP/reference	0.83028	0.003
43DAP/reference	1.0463	0.957
47DAP/reference	1.07427	0.254
52DAP/reference	1.06624	0.791
57DAP/reference	0.91302	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7728	0.054
27DAP/17DAP	1.26452	0.136
39DAP/27DAP	0.84637	0.308
41DAP/39DAP	1.12345	0.748
42DAP/41DAP	1.03426	0.961
43DAP/42DAP	1.02138	0.788
47DAP/43DAP	1.01789	0.92
52DAP/47DAP	1.15216	0.494
57DAP/52DAP	0.81096	0.177
57DAP/7DAP	0.8704	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08219	0.534
17DAP/reference	1.24895	0.019
27DAP/reference	0.97685	0.402
39DAP/reference	0.71141	0.011
41DAP/reference	0.73057	0.042
42DAP/reference	0.72813	0.01
43DAP/reference	0.88447	0.126
47DAP/reference	0.75991	0.05
52DAP/reference	0.81114	0.028
57DAP/reference	0.73399	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11699	0.443
17DAP/reference	1.2254	0.038
27DAP/reference	0.76586	0.1
39DAP/reference	0.76919	0.074
41DAP/reference	0.71849	0.047
42DAP/reference	0.84089	0.108
43DAP/reference	0.95459	0.478
47DAP/reference	0.98521	0.543
52DAP/reference	0.84483	0.017
57DAP/reference	0.9913	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93943	0.23
17DAP/reference	0.98763	0.709
27DAP/reference	1.02006	0.871
39DAP/reference	0.95325	0.299
41DAP/reference	0.90805	0.107
42DAP/reference	1.0101	1
43DAP/reference	0.84839	0.088
47DAP/reference	1.02839	0.509
52DAP/reference	1.19266	0.306
57DAP/reference	1.01391	0.682

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19161	0.916
26DAP/20DAP	0.99904	1
34DAP/26DAP	0.84564	0.472
51DAP/34DAP	0.92029	0.466
52DAP/51DAP	0.97957	1
53DAP/52DAP	0.90893	0.621
55DAP/53DAP	0.9291	0.663
57DAP/55DAP	1.32711	0.407
62DAP/57DAP	1.25237	0.445
68DAP/62DAP	0.86896	0.406
68DAP/14DAP	0.6862	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.71691	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.99477
Mature Green Tomato/Ripe Tomato	0.77463	0.287
Immature Eggplant/Mature Eggplant	1.09805	0.528
Ripe Pepper/Ripe Tomato	0.55483	0.293
Mature Eggplant/Ripe Tomato	0.70681	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12801	0.551
1-1-2/M82	0.68133
12-2/M82	0.66014
12-4/M82	1.25232	1
1-3/M82	0.83249
2-1-1/M82	0.84778
2-1/M82	1.1729	0.335
2-6/M82	1.20237	0.505
3-2/M82	1.36341	0.443
4-1-1/M82	1.21226	0.968
4-1/M82	1.47603
4-3-2/M82	1.17162	0.262
4-3/M82	1.39306	0.268
5-3/M82	1.04148	1
6-2/M82	1.06495	1
6-3/M82	0.68911	0.857
7-1/M82	1.14553
7-2/M82	1.00964	1
9-3-2/M82	1.65154	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.38007	0.419
IL7-5/WTpooled	1.95887
IL7-3/WTpooled	0.80623	0.418
IL12-4/WTpooled	1.08945	0.839
IL1-4/WTpooled	0.92072	0.834
WT/WTpooled	0.92666	0.895

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	0.9139	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11002	0.921
DC3000/delta hrp 6h	1.3841	1
DC3000/delta hrp 12h	1.02128	1
DC3000/delta hrp 24h	1.17106	0.296

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1153
DC3000 delta B/DC3000 delta AB	0.9806	0.916

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04184	1
Exp 36h	1.13563	1
Exp 60h	1.10249	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03892	1
Var 0h	1.01924	1
Var 12h I row2-row1	2.10152	0.473
Var 12h NI row2-row1	1.12516	0.34
Var 36h I row2-row1	0.97035	1
Var 36h NI row2-row1	1.18927	1
Var 60h I row2-row1	1.03291	1
Var 60h NI row2-row1	1.04784	0.904
Time course 0hI-0hNI	0.92116	0.414
Time course 12hI-12hNI	1.08685	0.621
Time course 36hI-36hNI	1.08814	0.28
Time course 60hI-60hNI	1.19868	0.08

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)	1.03985	0.921
transgenic ySAMdc/azygous control (breaker)	1.66645	0.178
transgenic ySAMdc/azygous control (red)	1.00193	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97972	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.45872	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62097	0.172
Manapal/WT (break)	0.87843	0.333
Manapal/WT (red)	1.0392	1