Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.4.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95847	0.728
27DAP/17DAP	1.36362	0.845
39DAP/27DAP	0.91219	0.573
41DAP/39DAP	1.0661	0.591
42DAP/41DAP	1.58388	0.552
43DAP/42DAP	0.97751	0.91
47DAP/43DAP	0.8409	0.51
52DAP/47DAP	1.07473	0.873
57DAP/52DAP	1.09244	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89053	0.097
17DAP/reference	0.81893	0.025
27DAP/reference	0.99752	0.797
39DAP/reference	0.78914	0.07
41DAP/reference	0.7914	0.018
42DAP/reference	0.94285	0.218
43DAP/reference	0.95158	0.394
47DAP/reference	0.98171	0.473
52DAP/reference	1.30701	0.065
57DAP/reference	1.24658	0.024

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19736	0.372
27DAP/17DAP	1.06476	0.928
39DAP/27DAP	0.92609	0.579
41DAP/39DAP	0.97386	0.945
42DAP/41DAP	1.16926	0.582
43DAP/42DAP	0.86307	0.224
47DAP/43DAP	0.98124	0.911
52DAP/47DAP	1.04212	0.979
57DAP/52DAP	1.29183	0.209
57DAP/7DAP	0.76568	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18443	0.088
17DAP/reference	0.89259	0.124
27DAP/reference	0.95887	0.171
39DAP/reference	1.00176	1
41DAP/reference	0.99554	0.709
42DAP/reference	1.05279	0.686
43DAP/reference	1.09231	0.307
47DAP/reference	1.2707	0.155
52DAP/reference	1.05388	0.599
57DAP/reference	1.02257	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92367	0.548
17DAP/reference	0.86335	0.124
27DAP/reference	0.85502	0.181
39DAP/reference	1.12799	0.15
41DAP/reference	1.03938	0.91
42DAP/reference	0.97129	0.482
43DAP/reference	0.73236	0.044
47DAP/reference	0.84157	0.046
52DAP/reference	1.02261	1
57DAP/reference	0.7798	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36751	0.027
17DAP/reference	1.1237	0.675
27DAP/reference	1.01849	1
39DAP/reference	1.07712	0.546
41DAP/reference	1.04197	0.796
42DAP/reference	1.00811	1
43DAP/reference	0.91687	0.305
47DAP/reference	0.8499	0.08
52DAP/reference	1.0244	0.941
57DAP/reference	1.22862	0.069

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.44775	0.916
26DAP/20DAP	1.49068	0.215
34DAP/26DAP	0.99912	0.988
51DAP/34DAP	1.63479	0.035
52DAP/51DAP	1.11193	0.439
53DAP/52DAP	1.45389	0.063
55DAP/53DAP	0.86056	0.163
57DAP/55DAP	1.25088	0.666
62DAP/57DAP	0.65649
68DAP/62DAP	1.32725	0.038
68DAP/14DAP	1.84437	0.041

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8139	0.054

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.2273
Mature Green Tomato/Ripe Tomato	1.45568	0.331
Immature Eggplant/Mature Eggplant	1.22012
Ripe Pepper/Ripe Tomato	0.38094	0.224
Mature Eggplant/Ripe Tomato	0.67569	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84881	0.944
1-1-2/M82	0.8169	1
12-2/M82	N/A	N/A
12-4/M82	0.79761	0.319
1-3/M82	N/A	N/A
2-1-1/M82	1.11227	1
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.85554
4-1-1/M82	N/A	N/A
4-1/M82	1.48563
4-3-2/M82	0.90876
4-3/M82	1.38397
5-3/M82	0.88165	0.49
6-2/M82	N/A	N/A
6-3/M82	1.12916	1
7-1/M82	0.83731
7-2/M82	0.87727
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00776	1
IL2-6/WTpooled	1.21506	0.46
IL7-5/WTpooled	0.85265	1
IL7-3/WTpooled	0.7725	0.294
IL12-4/WTpooled	0.98098	1
IL1-4/WTpooled	0.85951	0.562
WT/WTpooled	1.00132	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	0.87015	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98497	1
DC3000/delta hrp 6h	1.30714	1
DC3000/delta hrp 12h	1.01145	1
DC3000/delta hrp 24h	1.12307	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03045	0.648
DC3000 delta B/DC3000 delta AB	1.16834	0.535

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9893	1
Exp 36h	1.21636	0.693
Exp 60h	1.24158	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.06986
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.05495	0.571
transgenic ySAMdc/azygous control (breaker)	1.41971	0.248
transgenic ySAMdc/azygous control (red)	1.15086	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06367	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5566	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95739	1
Manapal/WT (break)	1.11082	0.183
Manapal/WT (red)	1.06109	1