Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80263	0.29
27DAP/17DAP	0.97473	0.932
39DAP/27DAP	0.96806	0.7
41DAP/39DAP	0.88856	0.568
42DAP/41DAP	0.9329	1
43DAP/42DAP	0.99203	0.925
47DAP/43DAP	0.71965	0.228
52DAP/47DAP	1.68921	0.374
57DAP/52DAP	0.86467	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99094	0.63
17DAP/reference	0.75322	0.008
27DAP/reference	1.03026	0.684
39DAP/reference	0.81566	0.036
41DAP/reference	0.7755	0.014
42DAP/reference	0.9822	0.384
43DAP/reference	1.02057	0.838
47DAP/reference	1.07492	0.353
52DAP/reference	1.01931	1
57DAP/reference	1.22805	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79299	0.185
27DAP/17DAP	1.03294	0.969
39DAP/27DAP	0.95466	0.747
41DAP/39DAP	0.81937	0.147
42DAP/41DAP	2.10836	0.582
43DAP/42DAP	1.02368	0.788
47DAP/43DAP	1.12889	0.664
52DAP/47DAP	1.11102	0.844
57DAP/52DAP	1.01326	0.926
57DAP/7DAP	1.12561	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20462	0.555
17DAP/reference	1.38854	0.064
27DAP/reference	1.07349	0.551
39DAP/reference	1.25989	0.048
41DAP/reference	1.23	0.35
42DAP/reference	1.26434	0.076
43DAP/reference	1.49452	0.027
47DAP/reference	1.30944	0.178
52DAP/reference	1.17455	0.526
57DAP/reference	1.05362	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96117	0.58
17DAP/reference	0.90838	0.139
27DAP/reference	0.97507	0.519
39DAP/reference	0.88564	0.195
41DAP/reference	0.83094	0.11
42DAP/reference	0.76127	0.035
43DAP/reference	0.8278	0.14
47DAP/reference	0.82112	0.019
52DAP/reference	0.928	0.259
57DAP/reference	0.79437	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19134	0.202
17DAP/reference	1.11642	0.558
27DAP/reference	1.44047	0.031
39DAP/reference	1.17681	0.227
41DAP/reference	1.63573	0.031
42DAP/reference	1.23871	0.199
43DAP/reference	1.21269	0.102
47DAP/reference	1.11175	0.093
52DAP/reference	1.36142	0.066
57DAP/reference	1.05695	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94059	1
26DAP/20DAP	0.99915	1
34DAP/26DAP	0.76486	0.479
51DAP/34DAP	0.83381	0.442
52DAP/51DAP	0.92173	1
53DAP/52DAP	0.87151	0.465
55DAP/53DAP	0.97837
57DAP/55DAP	1.12584	0.997
62DAP/57DAP	1.59341
68DAP/62DAP	1.34593	0.507
68DAP/14DAP	2.3651	0.018

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91021	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.34226	0.058
Mature Green Tomato/Ripe Tomato	0.54504	0.017
Immature Eggplant/Mature Eggplant	1.63978	0.05
Ripe Pepper/Ripe Tomato	0.72671	1
Mature Eggplant/Ripe Tomato	0.39979

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	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.66956
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.67244	0.321
IL2-6/WTpooled	1.15031	0.584
IL7-5/WTpooled	0.83157	0.559
IL7-3/WTpooled	0.69045	0.31
IL12-4/WTpooled	0.80389	0.484
IL1-4/WTpooled	1.00774	1
WT/WTpooled	0.99954	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	0.89768	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94965	1
DC3000/delta hrp 6h	0.9143	0.95
DC3000/delta hrp 12h	0.91363	1
DC3000/delta hrp 24h	1.0086	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.56893	0.023
DC3000 delta B/DC3000 delta AB	0.65473	0.03

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.32279	1
Exp 36h	0.96949	0.943
Exp 60h	1.05685	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0432	1
Var 0h	0.7548	0.291
Var 12h I row2-row1	0.75159	0.514
Var 12h NI row2-row1	1.18788	0.34
Var 36h I row2-row1	1.04845	1
Var 36h NI row2-row1	0.87746	0.584
Var 60h I row2-row1	1.1325	0.543
Var 60h NI row2-row1	1.01304	1
Time course 0hI-0hNI	0.98451	0.962
Time course 12hI-12hNI	0.92778	0.33
Time course 36hI-36hNI	0.83215	0.034
Time course 60hI-60hNI	0.42175	0.005

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)	1.12999	0.264
transgenic ySAMdc/azygous control (breaker)	0.66176	0.142
transgenic ySAMdc/azygous control (red)	1.12817	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9384	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.056	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.85667	0.083
Manapal/WT (break)	2.22067	0.14
Manapal/WT (red)	1.9295	1